diff --git a/.RData b/.RData new file mode 100644 index 0000000..d8c7f50 Binary files /dev/null and b/.RData differ diff --git a/.Rhistory b/.Rhistory index 781d48a..7b4d247 100644 --- a/.Rhistory +++ b/.Rhistory @@ -1,10 +1,15 @@ -library(dplyr) -library(magrittr) -library(janitor) -library(tidyr) -library(stringr) -library(funkyheatmap) -library(ggthemr) +#81b29a usability +"palette4", generateColorPalette("#c9c7b9", 100), +) +curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimBench_website/results/data/" +write_csv(column_info_detailed, file = paste0(curr_dir, "column_info.csv")) +write_csv(column_groups, file = paste0(curr_dir, "column_groups.csv")) +write_csv(palettes, file = paste0(curr_dir, "palettes.csv")) +final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) +final_data$id <- NULL +final_data$...1 <- NULL +adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") +final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") library(dplyr) library(magrittr) library(janitor) @@ -13,7 +18,302 @@ library(stringr) library(funkyheatmap) #library(ggthemr) library(readr) -column_info_detailed <- tribble( +library(tibble) +curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimBench_website/results/data/" +write_csv(column_info_detailed, file = paste0(curr_dir, "column_info.csv")) +write_csv(column_groups, file = paste0(curr_dir, "column_groups.csv")) +write_csv(palettes, file = paste0(curr_dir, "palettes.csv")) +final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) +final_data$id <- NULL +final_data$...1 <- NULL +adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") +final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") +write_csv(final_data, file = paste0(curr_dir, "final_data.csv")) +library(jsonlite) +library(tibble) +setwd("/users/mtor0581/SPDS_Projects/SpatialSimBench_website/results/data/") +curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/" +js <- jsonlite::toJSON(column_info_detailed) +write(js, file="column_info.json") +js <- jsonlite::toJSON(column_groups) +write(js, file="column_groups.json") +js <- jsonlite::toJSON(palettes) +write(js, file="palettes.JSON") +final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) +final_data$id <- NULL +final_data$...1 <- NULL +adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") +#final_data$adaptor <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") +#final_data <- final_data %>% relocate(adaptor, .after=method) +final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") +js <- jsonlite::toJSON(final_data) +write(js, file=paste0(curr_dir, "final_data.json")) +final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) +final_data$id <- NULL +final_data$...1 <- NULL +adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") +final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") +View(final_data) +write_csv(final_data, file = paste0(curr_dir, "final_data.csv") +View(palettes) +class(palettes) +write_csv(palettes, file = paste0(curr_dir, "palettes.csv")) +View(palettes) +palettes$colours <- sapply(palettes$colours, function(x) paste(x, collapse=",")) +write_csv(palettes, file = paste0(curr_dir, "palettes.csv")) +palettes$colours <- sapply(palettes$colours, function(x) paste(x, collapse=",")) +write_csv(palettes, file = paste0(curr_dir, "palettes.csv")) +palettes$colours <- sapply(palettes$colours, function(x) paste(x, collapse=",")) +write_csv(palettes, file = paste0(curr_dir, "palettes.csv"), row.names = FALSE) +write.csv(palettes, file = paste0(curr_dir, "palettes.csv"), row.names = FALSE) +View(palettes) +generateColorPalette <- function(baseColor, numColors, rev=FALSE) { +# Create a gradient from the base color to a lighter version +colors <- colorRampPalette(c(baseColor, "white"))(numColors) +if (rev) { +colors=rev(colors) +} +return(colors) +} +palettes <- tribble( +~palette, ~colours, +#c9c7b9 recapitulation gene expression +"palette1", generateColorPalette("#6ABAC4", 100), +#e07a5f tcga prediction +"palette2", generateColorPalette("#FA8072", 100), +#3d405b clinical prediction +"palette3", generateColorPalette("#FFE5B4", 100), +#81b29a usability +"palette4", generateColorPalette("#c9c7b9", 100), +) +palettes$colours <- sapply(palettes$colours, function(x) paste(x, collapse=",")) +write.csv(palettes, file = paste0(curr_dir, "palettes.csv"), row.names = FALSE) +View(palettes) +palettes$colours[1] +View(final_data) +curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimBench_website/results/data/" +# write_csv(column_info_detailed, file = paste0(curr_dir, "column_info.csv")) +# write_csv(column_groups, file = paste0(curr_dir, "column_groups.csv")) +# +# palettes$colours <- sapply(palettes$colours, function(x) paste(x, collapse=",")) +# write.csv(palettes, file = paste0(curr_dir, "palettes.csv"), row.names = FALSE) +final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) +final_data$id <- NULL +final_data$...1 <- NULL +adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") +final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") +# Function to format numeric columns to 2 decimal places +format_numeric_columns <- function(df) { +numeric_cols <- sapply(df, is.numeric) # Identify numeric columns +df[numeric_cols] <- lapply(df[numeric_cols], function(x) formatC(x, format = "f", digits = 2)) +return(df) +} +# Apply the function to the data +final_data <- format_numeric_columns(final_data) +write_csv(final_data, file = paste0(curr_dir, "final_data2.csv")) +View(final_data) +View(column_info_detailed) +View(column_groups) +column_groups$Category[1,] +column_groups$Category[1] +column_groups$Category[1] <- "-" +curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimBench_website/results/data/" +write_csv(column_groups, file = paste0(curr_dir, "column_groups.csv")) +write_csv(t(column_groups), file = paste0(curr_dir, "column_groups.csv")) +column_groups <- column_groups %>% rename("Experiment" = "level1") +column_groups <- column_groups %>% rename(c("Experiment" = "level1")) +column_groups <- column_groups %>% rename_at(1, ~ "level1") +js <- jsonlite::toJSON(column_groups) +write(js, file="column_groups.json") +#| label: load-packages +#| include: false +#| error: true +#| echo: false +library(tidyverse) +library(funkyheatmap) +library(kableExtra) +library(readr) +library(DT) +library(plotly) +library(jsonlite) +#| echo: false +benchmark_data <- read_csv("./data/final_data.csv") +column_info <- read_csv("./data/column_info.csv") +column_groups <- read_csv("./data.column_groups") +#| echo: false +benchmark_data <- read_csv("./data/final_data.csv") +column_info <- read_csv("./data/column_info.csv") +column_groups <- read_csv("./data/column_groups") +#| echo: false +benchmark_data <- read_csv("./data/final_data.csv") +column_info <- read_csv("./data/column_info.csv") +column_groups <- read_csv("./data/column_groups.csv") +palletes <- read_csv("./data/palettes.csv") +print(benchmark_data) +print(column_info) +print(column_groups) +print(palettes) +generateColorPalette <- function(baseColor, numColors, rev=FALSE) { +# Create a gradient from the base color to a lighter version +colors <- colorRampPalette(c(baseColor, "white"))(numColors) +if (rev) { +colors=rev(colors) +} +return(colors) +} +palettes <- tribble( +~palette, ~colours, +#c9c7b9 recapitulation gene expression +"palette1", generateColorPalette("#6ABAC4", 100), +#e07a5f tcga prediction +"palette2", generateColorPalette("#FA8072", 100), +#3d405b clinical prediction +"palette3", generateColorPalette("#FFE5B4", 100), +#81b29a usability +"palette4", generateColorPalette("#c9c7b9", 100), +) +curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimBench_Quarto_shiny/results/data/" +# +# palettes$colours <- sapply(palettes$colours, function(x) paste(x, collapse=",")) +write.csv(palettes, file = paste0(curr_dir, "palettes.csv"), row.names = FALSE) +generateColorPalette <- function(baseColor, numColors, rev=FALSE) { +# Create a gradient from the base color to a lighter version +colors <- colorRampPalette(c(baseColor, "white"))(numColors) +if (rev) { +colors=rev(colors) +} +return(colors) +} +palettes <- tribble( +~palette, ~colours, +#c9c7b9 recapitulation gene expression +"palette1", generateColorPalette("#6ABAC4", 100), +#e07a5f tcga prediction +"palette2", generateColorPalette("#FA8072", 100), +#3d405b clinical prediction +"palette3", generateColorPalette("#FFE5B4", 100), +#81b29a usability +"palette4", generateColorPalette("#c9c7b9", 100), +) +class(palettes) +# +# palettes$colours <- sapply(palettes$colours, function(x) paste(x, collapse=",")) +write_csv(palettes, file = paste0(curr_dir, "palettes.csv"), row.names = FALSE) +# +# palettes$colours <- sapply(palettes$colours, function(x) paste(x, collapse=",")) +write_csv(palettes, file = paste0(curr_dir, "palettes.csv")) +palletes <- read_csv("./data/palettes.csv") +palletes <- read_csv("./data/palettes.csv", show_col_types = FALSE) +palletes +#| echo: false +benchmark_data <- read_csv("./data/final_data.csv") +column_info <- read_csv("./data/column_info.csv") +column_groups <- read_csv("./data/column_groups.csv") +generateColorPalette <- function(baseColor, numColors, rev=FALSE) { +# Create a gradient from the base color to a lighter version +colors <- colorRampPalette(c(baseColor, "white"))(numColors) +if (rev) { +colors=rev(colors) +} +return(colors) +} +palettes <- tribble( +~palette, ~colours, +#c9c7b9 recapitulation gene expression +"palette1", generateColorPalette("#6ABAC4", 100), +#e07a5f tcga prediction +"palette2", generateColorPalette("#FA8072", 100), +#3d405b clinical prediction +"palette3", generateColorPalette("#FFE5B4", 100), +#81b29a usability +"palette4", generateColorPalette("#c9c7b9", 100), +) +print(benchmark_data) +print(column_info) +print(column_groups) +print(palettes) +palettes +#| echo: false +funky_heatmap( +data = benchmark_data, +column_info = column_info, +column_groups = column_groups, +palettes = palettes, +scale_column = TRUE, +position_args = position_arguments(col_annot_offset = 3.2) +) +column_groups <- tribble( # tribble_start +~Experiment, ~Category, ~group, ~palette, +"Method", "", "method", "overall", +"Summary", "Rank-based overall", "summary", "overall", +"Data proporties", "Spot-level", "data_pro_spot", "palette1", +"Data proporties", "Gene-level", "data_pro_gene", "palette1", +"Data proporties", "Spatial-level", "data_pro_spatial", "palette1", +"Spatial task", "Cluster", "spatial_task_clustering", "palette2", +"Spatial task", "SVG", "spatial_task_svg", "palette2", +"Spatial task", "Deconvolute", "spatial_task_den", "palette2", +"Spatial task", "Crosscorrelate", "spatial_task_cor", "palette2", +"Scalability", "Predicted time", "scalability_time", "palette3", +"Scalability", "Predicted memory", "scalability_memory", "palette3", +) +# write_csv(column_info_detailed, file = paste0(curr_dir, "column_info.csv")) +write_csv(column_groups, file = paste0(curr_dir, "column_groups.csv")) +final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) +#final_data$id <- NULL +final_data$...1 <- NULL +adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") +final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") #%>% relocate(method, .before = "adaptor") +# Function to format numeric columns to 2 decimal places +format_numeric_columns <- function(df) { +numeric_cols <- sapply(df, is.numeric) # Identify numeric columns +df[numeric_cols] <- lapply(df[numeric_cols], function(x) formatC(x, format = "f", digits = 2)) +return(df) +} +# Apply the function to the data +final_data <- format_numeric_columns(final_data) +write_csv(final_data, file = paste0(curr_dir, "final_data.csv")) +#| echo: false +benchmark_data <- read_csv("./data/final_data.csv") +column_info <- read_csv("./data/column_info.csv") +column_groups <- read_csv("./data/column_groups.csv") +generateColorPalette <- function(baseColor, numColors, rev=FALSE) { +# Create a gradient from the base color to a lighter version +colors <- colorRampPalette(c(baseColor, "white"))(numColors) +if (rev) { +colors=rev(colors) +} +return(colors) +} +palettes <- tribble( +~palette, ~colours, +#c9c7b9 recapitulation gene expression +"palette1", generateColorPalette("#6ABAC4", 100), +#e07a5f tcga prediction +"palette2", generateColorPalette("#FA8072", 100), +#3d405b clinical prediction +"palette3", generateColorPalette("#FFE5B4", 100), +#81b29a usability +"palette4", generateColorPalette("#c9c7b9", 100), +) +print(benchmark_data) +print(column_info) +print(column_groups) +print(palettes) +#| echo: false +funky_heatmap( +data = benchmark_data, +column_info = column_info, +column_groups = column_groups, +palettes = palettes, +scale_column = TRUE, +position_args = position_arguments(col_annot_offset = 3.2) +) +#| echo: false +benchmark_data <- read_csv("./data/final_data.csv") +#| echo: false +benchmark_data <- read_csv("./data/final_data.csv", show_col_types = FALSE) +print(benchmark_data) +column_info <- tribble( ~id, ~group, ~name, ~geom, ~palette, ~options, "method", "method", NA, "text", NA, list(hjust = 0, width = 3), "adaptor", "method", "Adaptor", "text", NA, list(hjust = 0, width = 1), @@ -97,7 +397,20 @@ palettes <- tribble( #81b29a usability "palette4", generateColorPalette("#c9c7b9", 100), ) -column_info_detailed <- tribble( +print(benchmark_data) +print(column_info) +print(column_groups) +print(palettes) +#| echo: false +funky_heatmap( +data = benchmark_data, +column_info = column_info, +column_groups = column_groups, +palettes = palettes, +scale_column = TRUE, +position_args = position_arguments(col_annot_offset = 3.2) +) +column_info <- tribble( ~id, ~group, ~name, ~geom, ~palette, ~options, "method", "method", NA, "text", NA, list(hjust = 0, width = 3), "adaptor", "method", "Adaptor", "text", NA, list(hjust = 0, width = 1), @@ -181,149 +494,19 @@ palettes <- tribble( #81b29a usability "palette4", generateColorPalette("#c9c7b9", 100), ) -library(jsonlite) -setwd("/users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/") -js <- jsonlite::toJSON(column_info_detailed) -save(js, file="column_info.JSON") -js <- jsonlite::toJSON(column_groups) -save(js, file="column_groups.JSON") -js <- jsonlite::toJSON(palettes) -save(js, file="palettes.JSON") -final_data <- read.csv("data_sorted_final_NOTCHANGE.csv") -setwd("/users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/") -final_data <- read.csv("data_sorted_final_NOTCHANGE.csv") -library(readr) -data_sorted_final_NOTCHANGE <- read_csv("C:/Users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/data_sorted_final_NOTCHANGE.csv") -View(data_sorted_final_NOTCHANGE) -final_data <- read_csv("data_sorted_final_NOTCHANGE.csv") -setwd("/users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/") -final_data <- read_csv("data_sorted_final_NOTCHANGE.csv") -final_data <- read_csv(paste0(dir, "data_sorted_final_NOTCHANGE.csv")) -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) -curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/" -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) -View(final_data) -final_data$method <- NULL -final_data$`...1` <- NULL -names(final_data)[1] <- "method" -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) -final_data$method <- NULL -final_data$...1 <- NULL -names(final_data)[1] <- "method" -final_data$adaptor <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -final_data <- final_data %>% relocate(adaptor, .after=method) -js <- jsonlite::toJSON(final_data) -save(js, file="final_data.JSON") -save(js, file=paste0(curr_dir, "final_data.JSON")) -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) -final_data$id <- NULL -final_data$...1 <- NULL -names(final_data)[1] <- "method" -adpators <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data$adaptor <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data <- final_data %>% relocate(adaptor, .after=method) -final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") -library(tibble) -adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data$adaptor <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data <- final_data %>% relocate(adaptor, .after=method) -final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) -final_data$id <- NULL -final_data$...1 <- NULL -adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data$adaptor <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data <- final_data %>% relocate(adaptor, .after=method) -final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") -View(final_data) -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv"), row.names = NULL) -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv"), row.names = F) -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv"), row.names = 1) -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) -final_data$id <- NULL -final_data$...1 <- NULL -adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data$adaptor <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data <- final_data %>% relocate(adaptor, .after=method) -final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") -js <- jsonlite::toJSON(final_data) -save(js, file=paste0(curr_dir, "final_data.JSON")) -library(jsonlite) -library(tibble) -setwd("/users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/") -curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/" -js <- jsonlite::toJSON(column_info_detailed) -save(js, file="column_info.json") -js <- jsonlite::toJSON(column_groups) -save(js, file="column_groups.json") -js <- jsonlite::toJSON(palettes) -save(js, file="palettes.JSON") -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) -final_data$id <- NULL -final_data$...1 <- NULL -adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data$adaptor <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data <- final_data %>% relocate(adaptor, .after=method) -final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") -js <- jsonlite::toJSON(final_data) -save(js, file=paste0(curr_dir, "final_data.json")) -js <- jsonlite::toJSON(final_data) -js -class(final_data) -js <- jsonlite::toJSON(column_groups) -js -json_data <- fromJSON(file=paste0(curr_dir, "final_data.json")) -json_data <- jsonlite::fromJSON(file=paste0(curr_dir, "final_data.json")) -library(jsonlite) -library(tibble) -setwd("/users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/") -curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/" -js <- jsonlite::toJSON(column_info_detailed) -write(js, file="column_info.json") -js <- jsonlite::toJSON(column_groups) -write(js, file="column_groups.json") -js <- jsonlite::toJSON(palettes) -write(js, file="palettes.JSON") -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) -final_data$id <- NULL -final_data$...1 <- NULL -adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data$adaptor <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data <- final_data %>% relocate(adaptor, .after=method) -final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") -js <- jsonlite::toJSON(final_data) -write(js, file=paste0(curr_dir, "final_data.json")) -json_data <- jsonlite::fromJSON(file=paste0(curr_dir, "final_data.json")) -library(jsonlite) -library(tibble) -setwd("/users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/") -curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/" -js <- jsonlite::toJSON(column_info_detailed) -write(js, file="column_info.json") -js <- jsonlite::toJSON(column_groups) -write(js, file="column_groups.json") -js <- jsonlite::toJSON(palettes) -write(js, file="palettes.JSON") -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) -final_data$id <- NULL -final_data$...1 <- NULL -adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data$adaptor <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -#final_data <- final_data %>% relocate(adaptor, .after=method) -final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") -js <- jsonlite::toJSON(final_data) -write(js, file=paste0(curr_dir, "final_data.json")) -json_data <- jsonlite::fromJSON(file=paste0(curr_dir, "final_data.json")) -js <- jsonlite::toJSON(final_data) -write(js, file=paste0(curr_dir, "final_data.json")) -json_data <- jsonlite::fromJSON(file=paste0(curr_dir, "final_data.json")) -curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/" -write_csv(column_info_detailed, file = paste0(curr_dir, "column_info.csv")) -write_csv(column_groups, file = paste0(curr_dir, "column_groups.csv")) -write_csv(palettes, file = paste0(curr_dir, "palettes.csv")) -final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) -final_data$id <- NULL -final_data$...1 <- NULL -adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") -write_csv(final_data, file = paste0(curr_dir, "final_data.csv")) +palettes_new <- dynbenchmark_data$palettes +palettes <- rbind(palettes, palettes_new[1,]) +palettes <- rbind(palettes, palettes_new[7,]) +print(benchmark_data) +print(column_info) +print(column_groups) +print(palettes) +#| echo: false +funky_heatmap( +data = benchmark_data, +column_info = column_info, +column_groups = column_groups, +palettes = palettes, +scale_column = TRUE, +position_args = position_arguments(col_annot_offset = 3.2) +) diff --git a/.Rproj.user/6A54F822/pcs/files-pane.pper b/.Rproj.user/6A54F822/pcs/files-pane.pper index b11f64a..30f0066 100644 --- a/.Rproj.user/6A54F822/pcs/files-pane.pper +++ b/.Rproj.user/6A54F822/pcs/files-pane.pper @@ -5,5 +5,5 @@ "ascending": true } ], - "path": "C:/Users/mtor0581/SPDS_Projects/SpatialSimBench_website" + "path": "C:/Users/mtor0581/SPDS_Projects" } \ No newline at end of file diff --git a/.Rproj.user/6A54F822/pcs/source-pane.pper b/.Rproj.user/6A54F822/pcs/source-pane.pper index aa8cf68..b074a4f 100644 --- a/.Rproj.user/6A54F822/pcs/source-pane.pper +++ b/.Rproj.user/6A54F822/pcs/source-pane.pper @@ -1,3 +1,3 @@ { - "activeTab": 7 + "activeTab": 1 } \ No newline at end of file diff --git a/.Rproj.user/6A54F822/pcs/windowlayoutstate.pper b/.Rproj.user/6A54F822/pcs/windowlayoutstate.pper index 94d1590..db5c15f 100644 --- a/.Rproj.user/6A54F822/pcs/windowlayoutstate.pper +++ b/.Rproj.user/6A54F822/pcs/windowlayoutstate.pper @@ -2,13 +2,13 @@ "left": { "splitterpos": 373, "topwindowstate": "NORMAL", - "panelheight": 921, - "windowheight": 959 + "panelheight": 922, + "windowheight": 960 }, "right": { "splitterpos": 400, "topwindowstate": "NORMAL", - "panelheight": 921, - "windowheight": 959 + "panelheight": 922, + "windowheight": 960 } } \ No newline at end of file diff --git a/.Rproj.user/6A54F822/sources/session-61a2533f/1770ADA9-contents b/.Rproj.user/6A54F822/quarto-crossref/7E886166 similarity index 100% rename from .Rproj.user/6A54F822/sources/session-61a2533f/1770ADA9-contents rename to .Rproj.user/6A54F822/quarto-crossref/7E886166 diff --git a/.Rproj.user/6A54F822/quarto-crossref/INDEX b/.Rproj.user/6A54F822/quarto-crossref/INDEX new file mode 100644 index 0000000..ea04242 --- /dev/null +++ b/.Rproj.user/6A54F822/quarto-crossref/INDEX @@ -0,0 +1 @@ +C%3A%2FUsers%2Fmtor0581%2FSPDS_Projects%2FSpatialSimbench_Quarto_shiny%2Findex.qmd="7E886166" diff --git a/.Rproj.user/6A54F822/sources/session-61a2533f/2B06C9AD b/.Rproj.user/6A54F822/sources/per/t/2B06C9AD similarity index 87% rename from .Rproj.user/6A54F822/sources/session-61a2533f/2B06C9AD rename to .Rproj.user/6A54F822/sources/per/t/2B06C9AD index 5b2c42a..bff5427 100644 --- a/.Rproj.user/6A54F822/sources/session-61a2533f/2B06C9AD +++ b/.Rproj.user/6A54F822/sources/per/t/2B06C9AD @@ -3,7 +3,7 @@ "path": "C:/Users/mtor0581/SPDS_Projects/spatial_simulationV3/spatial_simulationV3/funkyheatmap_new.Rmd", "project_path": null, "type": "r_markdown", - "hash": "0", + "hash": "23306638", "contents": "", "dirty": false, "created": 1722829988524.0, @@ -12,8 +12,8 @@ "properties": { "source_window_id": "", "Source": "Source", - "cursorPosition": "7,0", - "scrollLine": "0" + "cursorPosition": "126,45", + "scrollLine": "109" }, "folds": "", "lastKnownWriteTime": 1722816565, diff --git a/.Rproj.user/6A54F822/sources/session-61a2533f/2B06C9AD-contents b/.Rproj.user/6A54F822/sources/per/t/2B06C9AD-contents similarity index 100% rename from .Rproj.user/6A54F822/sources/session-61a2533f/2B06C9AD-contents rename to .Rproj.user/6A54F822/sources/per/t/2B06C9AD-contents diff --git a/.Rproj.user/6A54F822/sources/session-61a2533f/AB873B71 b/.Rproj.user/6A54F822/sources/per/t/AB873B71 similarity index 74% rename from .Rproj.user/6A54F822/sources/session-61a2533f/AB873B71 rename to .Rproj.user/6A54F822/sources/per/t/AB873B71 index 5665bc4..ba3ffa6 100644 --- a/.Rproj.user/6A54F822/sources/session-61a2533f/AB873B71 +++ b/.Rproj.user/6A54F822/sources/per/t/AB873B71 @@ -3,7 +3,7 @@ "path": "C:/Users/mtor0581/SPDS_Projects/Analysis/data_json.Rmd", "project_path": null, "type": "r_markdown", - "hash": "1685919074", + "hash": "1840595186", "contents": "", "dirty": false, "created": 1722824388041.0, @@ -12,15 +12,15 @@ "properties": { "source_window_id": "", "Source": "Source", - "cursorPosition": "168,0", - "scrollLine": "154" + "cursorPosition": "151,64", + "scrollLine": "124" }, "folds": "", - "lastKnownWriteTime": 1722999619, + "lastKnownWriteTime": 1723074320, "encoding": "UTF-8", "collab_server": "", "source_window": "", - "last_content_update": 1722999619200, + "last_content_update": 1723074320432, "read_only": false, "read_only_alternatives": [] } \ No newline at end of file diff --git a/.Rproj.user/6A54F822/sources/session-61a2533f/AB873B71-contents b/.Rproj.user/6A54F822/sources/per/t/AB873B71-contents similarity index 96% rename from .Rproj.user/6A54F822/sources/session-61a2533f/AB873B71-contents rename to .Rproj.user/6A54F822/sources/per/t/AB873B71-contents index 48bf5c4..844b339 100644 --- a/.Rproj.user/6A54F822/sources/session-61a2533f/AB873B71-contents +++ b/.Rproj.user/6A54F822/sources/per/t/AB873B71-contents @@ -123,21 +123,21 @@ palettes <- tribble( #Export csv ```{r} -curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimBench_website/results/data/" +curr_dir <- "/users/mtor0581/SPDS_Projects/SpatialSimBench_Quarto_shiny/results/data/" # write_csv(column_info_detailed, file = paste0(curr_dir, "column_info.csv")) write_csv(column_groups, file = paste0(curr_dir, "column_groups.csv")) # # palettes$colours <- sapply(palettes$colours, function(x) paste(x, collapse=",")) -# write.csv(palettes, file = paste0(curr_dir, "palettes.csv"), row.names = FALSE) +write_csv(palettes, file = paste0(curr_dir, "palettes.csv")) final_data <- read_csv(paste0(curr_dir, "data_sorted_final_NOTCHANGE.csv")) -final_data$id <- NULL +#final_data$id <- NULL final_data$...1 <- NULL adaptors <- c("Yes","No", "Yes", "No", "Yes","Yes","No","Yes","Yes","Yes","No","Yes","Yes") -final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") %>% relocate(method, .before = "adaptor") +final_data <- final_data %>% add_column(adaptor = adaptors, .before = "overall_summary") #%>% relocate(method, .before = "adaptor") # Function to format numeric columns to 2 decimal places format_numeric_columns <- function(df) { @@ -149,7 +149,7 @@ format_numeric_columns <- function(df) { # Apply the function to the data final_data <- format_numeric_columns(final_data) -write_csv(final_data, file = paste0(curr_dir, "final_data2.csv")) +write_csv(final_data, file = paste0(curr_dir, "final_data.csv")) ``` diff --git a/.Rproj.user/6A54F822/sources/prop/18B801C0 b/.Rproj.user/6A54F822/sources/prop/18B801C0 index 493786b..5d9d1ce 100644 --- a/.Rproj.user/6A54F822/sources/prop/18B801C0 +++ b/.Rproj.user/6A54F822/sources/prop/18B801C0 @@ -1,6 +1,6 @@ { "source_window_id": "", "Source": "Source", - "cursorPosition": "168,0", - "scrollLine": "154" + "cursorPosition": "151,64", + "scrollLine": "124" } \ No newline at end of file diff --git a/.Rproj.user/6A54F822/sources/prop/55D856A0 b/.Rproj.user/6A54F822/sources/prop/55D856A0 new file mode 100644 index 0000000..bb27690 --- /dev/null +++ b/.Rproj.user/6A54F822/sources/prop/55D856A0 @@ -0,0 +1,4 @@ +{ + "source_window_id": "", + "Source": "Source" +} \ No newline at end of file diff --git a/.Rproj.user/6A54F822/sources/prop/63A5CF31 b/.Rproj.user/6A54F822/sources/prop/63A5CF31 index bb27690..421141e 100644 --- a/.Rproj.user/6A54F822/sources/prop/63A5CF31 +++ b/.Rproj.user/6A54F822/sources/prop/63A5CF31 @@ -1,4 +1,6 @@ { "source_window_id": "", - "Source": "Source" + "Source": "Source", + "cursorPosition": "0,0", + "scrollLine": "0" } \ No newline at end of file diff --git a/.Rproj.user/6A54F822/sources/prop/89AC0B30 b/.Rproj.user/6A54F822/sources/prop/89AC0B30 new file mode 100644 index 0000000..7239365 --- /dev/null +++ b/.Rproj.user/6A54F822/sources/prop/89AC0B30 @@ -0,0 +1,12 @@ +{ + "rmdVisualMode": "true", + "rmdVisualWrapConfigured": "true", + "source_window_id": "", + "Source": "Source", + "docOutlineVisible": "1", + "cursorPosition": "152,0", + "scrollLine": "144", + "rmdVisualModeLocation": "8105:4415.5", + "rmdVisualCollapsedChunks": "295", + "last_setup_crc32": "61a2533f873c8129" +} \ No newline at end of file diff --git a/.Rproj.user/6A54F822/sources/prop/A9AA99B5 b/.Rproj.user/6A54F822/sources/prop/A9AA99B5 new file mode 100644 index 0000000..cb9b444 --- /dev/null +++ b/.Rproj.user/6A54F822/sources/prop/A9AA99B5 @@ -0,0 +1,7 @@ +{ + "tempName": "Untitled1", + "source_window_id": "", + "Source": "Source", + "cursorPosition": "1,12", + "scrollLine": "0" +} \ No newline at end of file diff --git a/.Rproj.user/6A54F822/sources/prop/AB55CC73 b/.Rproj.user/6A54F822/sources/prop/AB55CC73 new file mode 100644 index 0000000..7c9d6d6 --- /dev/null +++ b/.Rproj.user/6A54F822/sources/prop/AB55CC73 @@ -0,0 +1,6 @@ +{ + "source_window_id": "", + "Source": "Source", + "cursorPosition": "25,55", + "scrollLine": "0" +} \ No newline at end of file diff --git a/.Rproj.user/6A54F822/sources/prop/B0C500FA b/.Rproj.user/6A54F822/sources/prop/B0C500FA new file mode 100644 index 0000000..30a6952 --- /dev/null +++ b/.Rproj.user/6A54F822/sources/prop/B0C500FA @@ -0,0 +1,6 @@ +{ + "source_window_id": "", + "Source": "Source", + "cursorPosition": "17,16", + "scrollLine": "0" +} \ No newline at end of file diff --git a/.Rproj.user/6A54F822/sources/prop/BD31454F b/.Rproj.user/6A54F822/sources/prop/BD31454F index 2795557..37c1da2 100644 --- a/.Rproj.user/6A54F822/sources/prop/BD31454F +++ b/.Rproj.user/6A54F822/sources/prop/BD31454F @@ -1,6 +1,6 @@ { "source_window_id": "", "Source": "Source", - "cursorPosition": "7,0", - "scrollLine": "0" + "cursorPosition": "126,45", + "scrollLine": "109" } \ No newline at end of file diff --git a/.Rproj.user/6A54F822/sources/prop/INDEX b/.Rproj.user/6A54F822/sources/prop/INDEX index 1f325dd..1a0304d 100644 --- a/.Rproj.user/6A54F822/sources/prop/INDEX +++ b/.Rproj.user/6A54F822/sources/prop/INDEX @@ -1,5 +1,6 @@ C%3A%2FUsers%2Fmtor0581%2FDownloads%2Fmetric_testcase.Rmd="10A8B893" C%3A%2FUsers%2Fmtor0581%2FSPDS_Projects%2FAnalysis%2Fdata_json.Rmd="18B801C0" +C%3A%2FUsers%2Fmtor0581%2FSPDS_Projects%2FSpatialSimBench_ojs%2F_quarto.yml="AB55CC73" C%3A%2FUsers%2Fmtor0581%2FSPDS_Projects%2FSpatialSimBench_website%2FSpatialSimBench_website.qmd="66090432" C%3A%2FUsers%2Fmtor0581%2FSPDS_Projects%2FSpatialSimBench_website%2F_quarto.yml="C7B45FB6" C%3A%2FUsers%2Fmtor0581%2FSPDS_Projects%2FSpatialSimBench_website%2Fdata_json.Rmd="C1AA3DEF" @@ -12,4 +13,8 @@ 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b/.Rproj.user/6A54F822/sources/session-61a2533f/14CF391D deleted file mode 100644 index fbac666..0000000 --- a/.Rproj.user/6A54F822/sources/session-61a2533f/14CF391D +++ /dev/null @@ -1,33 +0,0 @@ -{ - "id": "14CF391D", - "path": "C:/Users/mtor0581/SPDS_Projects/SpatialSimBench_website/results/index.qmd", - "project_path": "results/index.qmd", - "type": "quarto_markdown", - "hash": "0", - "contents": "", - "dirty": false, - "created": 1722308750654.0, - "source_on_save": true, - "relative_order": 1, - "properties": { - "rmdVisualMode": "false", - "rmdVisualWrapConfigured": "true", - "source_window_id": "", - "Source": "Source", - "docOutlineVisible": "0", - "rmdVisualCollapsedChunks": "", - "rmdVisualModeLocation": "1004:908.5", - "cursorPosition": "34,0", - "scrollLine": "27", - "chunk_output_type": "console", - "content_preview_inline": "false" - }, - "folds": "", - "lastKnownWriteTime": 1722999087, - "encoding": "UTF-8", - "collab_server": "", - "source_window": "", - "last_content_update": 1722999087, - "read_only": false, - "read_only_alternatives": [] -} \ No newline at end of file diff --git a/.Rproj.user/6A54F822/sources/session-61a2533f/14CF391D-contents b/.Rproj.user/6A54F822/sources/session-61a2533f/14CF391D-contents deleted file mode 100644 index fb15a95..0000000 --- a/.Rproj.user/6A54F822/sources/session-61a2533f/14CF391D-contents +++ /dev/null @@ -1,225 +0,0 @@ ---- -title: "Summary" -format: - html: - code-link: true -editor: visual -toc: false -page-layout: full ---- - - -```{ojs} -//| echo: false - -funkyheatmap = (await require('d3@7').then(d3 => { - - window.d3 = d3; - - window._ = _; - - return import('https://unpkg.com/funkyheatmapjs@0.2.5'); - -})).default; - -``` - - -```{r setup} -#| label: load-packages -#| include: false -#| error: true -#| echo: false - -library(tidyverse) -library(funkyheatmap) -library(kableExtra) -library(readr) -library(DT) -library(plotly) -library(jsonlite) -``` - - - -```{ojs} -//| label: read data -//| warning: false -//| echo: false - -//color_by_rank = Inputs.toggle({label: "Color by rank:", value: true}) -//scale_column = Inputs.toggle({label: "Minmax column:", value: false}) -//show_con = Inputs.toggle({label: "Show control methods:", value: true}) - -final_data = FileAttachment("./data/final_data2.csv").csv() -column_info = await FileAttachment("./data/column_info.csv").csv() -column_groups = await FileAttachment("./data/column_groups.JSON").json() - -/* console.log(final_data) -console.log(column_info) -console.log(column_groups) */ - -p1 = ["#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF"] - -palettes = [ - { - overall: "Greys", - palette1: "Blues", - palette2: "Reds", - palette3: "Greens", - palette4: "YlOrBr", - NA: "Greys", - white6black4: "Greys", - error_reason: { - colors: ["#8DD3C7", "#FFFFB3", "#BEBADA", "#FFFFFF"], - names: ["Memory limit exceeded", "Time limit exceeded", "Execution error", "No error"] - } - } - ][0] - -/* poss_method_ids = method_info - .map(d => d.method) - .filter(d => results.map(r => r.method).includes(d)) -poss_metric_ids = metric_info - .map(d => d.metric) - .filter(d => results.map(r => Object.keys(r.scaled_scores)).flat().includes(d)) */ -``` - -```{ojs} -//| echo: false - - -function removeLastNColumns(data, n) { - if (data.length === 0 || n <= 0) return data; - - // Extract the keys of the columns - const keys = Object.keys(data[0]); - - // Determine the columns to keep - const columnsToKeep = keys.slice(0, -n); - - // Filter columns for each row - return data.map(row => { - const newRow = {}; - columnsToKeep.forEach(key => { - newRow[key] = row[key]; - }); - return newRow; - }); -} - -// Remove the last 4 columns from the data -filteredData = removeLastNColumns(final_data, 6); - -function removeLastNItems(array, n) { - return array.slice(0, -n); -} - - -// Remove the last 4 items -filteredColumnInfo = removeLastNItems(column_info, 12); - -filteredColumnGroups = removeLastNItems(column_groups, 2); - -console.log(filteredColumnGroups) - - -``` - -## Results - Heatmap - -```{ojs} -//| echo: false - -function transpose_list_of_objects(list) { - return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])])) - } - -funkyheatmap( - transpose_list_of_objects(filteredData), - transpose_list_of_objects(filteredColumnInfo), - [], - transpose_list_of_objects(filteredColumnGroups), - - [], - palettes, - { - fontSize: 14, - rowHeight: 26, - rootStyle: 'max-width: none', - colorByRank: true - } - ); - - -``` - - - - - -## Results - Table -```{r} -#| echo: false -#| warning: false - -library(tibble) -library(dplyr) - -final_data_csv <- read_csv("./data/final_data.csv", show_col_types = FALSE) - -final_data_csv$...1 <- NULL - -datatable( - final_data_csv, - options = list( - pageLength = 15, 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The effectiveness of these evaluations relies on the simulation methods’ ability to accurately reflect experimental data. However, a systematic evaluation framework for spatial simulators is lacking. Here, we present SpatialSimBench, a comprehensive evaluation framework that assesses 13 simulation methods using 10 distinct STR datasets. We introduce simAdaptor, a tool that extends single-cell simulators to incorporate spatial variables, thus enabling them to simulate spatial data. SimAdaptor enables SpatialSimBench to be “back-wards” compatible. That is, it facilitates direct comparison between spatially aware simulators and existing non-spatial single-cell simulators through the adaption. Through SpatialSimBench, we demonstrate the feasibility of leveraging existing single-cell simulators for SRT data and highlight performance differences among methods. Additionally, we evaluate the simulation methods based on a total of 35 metrics across data property estimation, various downstream analysis and scalability. In total, we generated 4550 results from 13 simulation methods, 10 spatial datasets and 35 metrics. Our findings reveal that model estimation can be impacted by distribution assumptions and dataset characteristics. In summary, our evaluation and the evaluation framework will provide guidelines for selecting appropriate methods for specific scenarios and informing future method development. - -[**Research paper link**](https://www.biorxiv.org/content/10.1101/2024.05.29.596418v1) - diff --git a/.Rproj.user/6A54F822/sources/session-61a2533f/9E611E35-contents b/.Rproj.user/6A54F822/sources/session-61a2533f/9E611E35-contents deleted file mode 100644 index e69de29..0000000 diff --git a/.Rproj.user/6A54F822/sources/session-61a2533f/A9C73116 b/.Rproj.user/6A54F822/sources/session-61a2533f/A9C73116 deleted file mode 100644 index 766313c..0000000 --- a/.Rproj.user/6A54F822/sources/session-61a2533f/A9C73116 +++ /dev/null @@ -1,27 +0,0 @@ -{ - "id": "A9C73116", - "path": "C:/Users/mtor0581/SPDS_Projects/SpatialSimBench_website/results/styles.css", - "project_path": "results/styles.css", - "type": "css", - "hash": "0", - "contents": "", - "dirty": false, - "created": 1722483897072.0, - "source_on_save": 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list(legend=FALSE)," +"0"," ""ftMeanFraczero"", ""data_pro_gene"", ""MeanFracZero(higher-order)"", ""funkyrect"", ""palette1"", list(legend=TRUE)," +"0"," " +"0"," ""TM"", ""data_pro_spatial"", ""TM"", ""funkyrect"", ""palette1"", list(legend=TRUE)," +"0"," ""NWE"", ""data_pro_spatial"", ""NWE"", ""funkyrect"", ""palette1"", list(legend=TRUE)," +"0"," ""CSM"", ""data_pro_spatial"", ""CSM"", ""funkyrect"", ""palette1"", list(legend=FALSE)," +"0"," ""celltype_interaction"", ""data_pro_spatial"", ""celltype_interaction"", ""funkyrect"", ""palette1"", list(legend=TRUE)," +"0"," ""L_stats"", ""data_pro_spatial"", ""L stats"", ""funkyrect"", ""palette1"", list(legend=TRUE)," +"0"," ""nn_correlation"", ""data_pro_spatial"", ""nn_correlation"", ""funkyrect"", ""palette1"", list(legend=FALSE)," +"0"," ""morans_I"", ""data_pro_spatial"", ""Moran's I"", ""funkyrect"", ""palette1"", list(legend=TRUE)," +"0"," " +"0"," ""ARI"", ""spatial_task_clustering"", ""ARI"", ""funkyrect"", ""palette2"", list(legend=TRUE)," +"0"," ""NMI"", ""spatial_task_clustering"", ""NMI"", ""funkyrect"", ""palette2"", list(legend=TRUE)," +"0"," ""recall_svg"", ""spatial_task_svg"", ""recall"", ""funkyrect"", ""palette2"", list(legend=FALSE)," +"0"," ""precision_svg"", ""spatial_task_svg"", ""precision"", ""funkyrect"", ""palette2"", list(legend=TRUE)," +"0"," ""rmse_ctprob"", ""spatial_task_den"", ""RMSE"", ""funkyrect"", ""palette2"", list(legend=TRUE)," +"0"," ""jsd_ctprob"", ""spatial_task_den"", ""JSD"", ""funkyrect"", ""palette2"", list(legend=FALSE)," +"0"," ""mantel_cor"", ""spatial_task_cor"", ""Mantel stat"", ""funkyrect"", ""palette2"", list(legend=TRUE)," +"0"," ""cosine_cor"", ""spatial_task_cor"", ""cosine similarity"", ""funkyrect"", ""palette2"", list(legend=TRUE)," +"0"," " +"0"," ""pred_time_cells200_features200"", ""scalability_time"", ""200 x 200"", ""rect"", ""palette3"", list(legend=TRUE)," +"0"," ""pred_time_cells200_features200"", ""scalability_time"", NA, ""text"", ""white6black4"", list(label=""predstring_time_cells200_features200"", overlay=TRUE, size = 3, scale = FALSE)," +"0"," ""pred_time_cells3000_features500"", ""scalability_time"", ""3k x 500"", ""rect"", ""palette3"", list(legend=TRUE)," +"0"," ""pred_time_cells3000_features500"", ""scalability_time"", NA, ""text"", ""white6black4"", list(label=""predstring_time_cells3000_features500"", overlay=TRUE, size = 3, scale = FALSE)," +"0"," ""pred_time_cells5000_features1000"", ""scalability_time"", ""5k x 1k"", ""rect"", ""palette3"", list(legend=FALSE)," +"0"," ""pred_time_cells5000_features1000"", ""scalability_time"", NA, ""text"", ""white6black4"", list(label=""predstring_time_cells5000_features1000"", overlay=TRUE, size = 3, scale = FALSE)," +"0"," " +"0"," ""pred_memory_cells200_features200"", ""scalability_memory"", ""200 x 200"", ""rect"", ""palette3"", list(legend=TRUE)," +"0"," ""pred_memory_cells200_features200"", ""scalability_memory"", NA, ""text"", ""white6black4"", list(label=""predstring_memory_cells200_features200"", overlay=TRUE, size = 3, scale = FALSE)," +"0"," ""pred_memory_cells3000_features500"", ""scalability_memory"", ""3k x 500"", ""rect"", ""palette3"", list(legend=TRUE)," +"0"," ""pred_memory_cells3000_features500"", ""scalability_memory"", NA, ""text"", ""white6black4"", list(label=""predstring_memory_cells3000_features500"", overlay=TRUE, size = 3, scale = FALSE)," +"0"," ""pred_memory_cells5000_features1000"", ""scalability_memory"", ""5k x 1k"", ""rect"", ""palette3"", list(legend=FALSE)," +"0"," ""pred_memory_cells5000_features1000"", ""scalability_memory"", NA, ""text"", ""white6black4"", list(label=""predstring_memory_cells5000_features1000"", overlay=TRUE, size = 3, scale = FALSE)," +"0","" +"0",")" +"0","" +"0","" +"0","# Define column groups" +"0","column_groups <- tribble( # tribble_start" +"0"," ~Experiment, ~Category, ~group, ~palette," +"0"," ""Method"", """", ""method"", ""overall""," +"0"," ""Summary"", ""Rank-based overall"", ""summary"", ""overall""," +"0"," ""Data proporties"", ""Spot-level"", ""data_pro_spot"", ""palette1""," +"0"," ""Data proporties"", ""Gene-level"", ""data_pro_gene"", ""palette1""," +"0"," ""Data proporties"", ""Spatial-level"", ""data_pro_spatial"", ""palette1""," +"0"," " +"0"," ""Spatial task"", ""Cluster"", ""spatial_task_clustering"", ""palette2""," +"0"," ""Spatial task"", ""SVG"", ""spatial_task_svg"", ""palette2""," +"0"," ""Spatial task"", ""Deconvolute"", ""spatial_task_den"", ""palette2""," +"0"," ""Spatial task"", ""Crosscorrelate"", ""spatial_task_cor"", ""palette2""," +"0","" +"0"," " +"0"," ""Scalability"", ""Predicted time"", ""scalability_time"", ""palette3""," +"0"," ""Scalability"", ""Predicted memory"", ""scalability_memory"", ""palette3""," +"0",") " +"0","" +"0","" +"0","generateColorPalette <- function(baseColor, numColors, rev=FALSE) {" +"0"," # Create a gradient from the base color to a lighter version" +"0"," colors <- colorRampPalette(c(baseColor, ""white""))(numColors)" +"0"," if (rev) {" +"0"," colors=rev(colors)" +"0"," }" +"0"," return(colors)" +"0","}" +"0","" +"0","palettes <- tribble(" +"0"," ~palette, ~colours," +"0"," #c9c7b9 recapitulation gene expression" +"0"," ""palette1"", generateColorPalette(""#6ABAC4"", 100)," +"0"," #e07a5f tcga prediction" +"0"," ""palette2"", generateColorPalette(""#FA8072"", 100)," +"0"," #3d405b clinical prediction" +"0"," ""palette3"", generateColorPalette(""#FFE5B4"", 100)," +"0"," #81b29a usability" +"0"," ""palette4"", generateColorPalette(""#c9c7b9"", 100)," +"0",")" +"0","" +"0","palettes_new <- dynbenchmark_data$palettes" +"0","palettes <- rbind(palettes, palettes_new[1,])" +"0","palettes <- rbind(palettes, palettes_new[7,])" +"0","" +"0","print(benchmark_data)" diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/000018.metadata b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/000018.metadata new file mode 100644 index 0000000..c7e6b00 --- /dev/null +++ b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/000018.metadata @@ -0,0 +1 @@ +{"classes":["spec_tbl_df","tbl_df","tbl","data.frame"],"nrow":13,"ncol":48,"summary":{"A tibble":["13 × 48"]}} \ No newline at end of file diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/000018.rdf b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/000018.rdf new file mode 100644 index 0000000..9a04d1a Binary files /dev/null and b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/000018.rdf differ diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/000019.csv b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/000019.csv new file mode 100644 index 0000000..c4060e2 --- /dev/null +++ b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/000019.csv @@ -0,0 +1 @@ +"0","print(column_info)" diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001a.metadata b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001a.metadata new file mode 100644 index 0000000..0241b77 --- /dev/null +++ b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001a.metadata @@ -0,0 +1 @@ +{"classes":["tbl_df","tbl","data.frame"],"nrow":47,"ncol":6,"summary":{"A tibble":["47 × 6"]}} \ No newline at end of file diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001a.rdf b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001a.rdf new file mode 100644 index 0000000..6645650 Binary files /dev/null and b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001a.rdf differ diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001b.csv b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001b.csv new file mode 100644 index 0000000..fffc713 --- /dev/null +++ b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001b.csv @@ -0,0 +1 @@ +"0","print(column_groups)" diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001c.metadata b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001c.metadata new file mode 100644 index 0000000..b8d8509 --- /dev/null +++ b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001c.metadata @@ -0,0 +1 @@ +{"classes":["tbl_df","tbl","data.frame"],"nrow":11,"ncol":4,"summary":{"A tibble":["11 × 4"]}} \ No newline at end of file diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001c.rdf b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001c.rdf new file mode 100644 index 0000000..cf66757 Binary files /dev/null and b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001c.rdf differ diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001d.csv b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001d.csv new file mode 100644 index 0000000..1e71251 --- /dev/null +++ b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001d.csv @@ -0,0 +1 @@ +"0","print(palettes)" diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001e.metadata b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001e.metadata new file mode 100644 index 0000000..e705335 --- /dev/null +++ b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001e.metadata @@ -0,0 +1 @@ +{"classes":["tbl_df","tbl","data.frame"],"nrow":6,"ncol":2,"summary":{"A tibble":["6 × 2"]}} \ No newline at end of file diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001e.rdf b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001e.rdf new file mode 100644 index 0000000..f943dab Binary files /dev/null and b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001e.rdf differ diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001f.csv b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001f.csv new file mode 100644 index 0000000..09a63ae --- /dev/null +++ b/.Rproj.user/shared/notebooks/40548412-index/1/s/cim61bcjasb87/00001f.csv @@ -0,0 +1 @@ +"0","" diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cwn35p7ktqdlw/000011.csv b/.Rproj.user/shared/notebooks/40548412-index/1/s/cwn35p7ktqdlw/000011.csv new file mode 100644 index 0000000..55360db --- /dev/null +++ b/.Rproj.user/shared/notebooks/40548412-index/1/s/cwn35p7ktqdlw/000011.csv @@ -0,0 +1,40 @@ +"0","#| echo: false" +"0","" +"0","funky_heatmap(" +"0"," data = benchmark_data," +"0"," column_info = column_info," +"0"," column_groups = column_groups," +"0"," palettes = palettes," +"0"," scale_column = TRUE," +"0"," position_args = position_arguments(col_annot_offset = 3.2)" +"0",")" +"1","ℹ No row info was provided, assuming all rows in `data` are to be plotted. +" +"1","ℹ Row info did not contain group information, assuming rows are ungrouped. +" +"1","ℹ No legends were provided, trying to automatically infer legends. +" +"1","ℹ Some palettes were not used in the column info, adding legends for them. +" +"1","ℹ Legend 1 did not contain a geom, inferring from the column info. +" +"1","! Legend 1 has geom 'bar', which is not yet implemented. Disabling for now. +" +"1","ℹ Legend 2 did not contain a geom, inferring from the column info. +" +"1","! Legend 2 has geom 'bar', which is not yet implemented. Disabling for now. +" +"1","ℹ Legend 3 did not contain a geom, inferring from the column info. +" +"1","! Legend 3 has geom 'bar', which is not yet implemented. Disabling for now. +" +"1","ℹ Legend 4 did not contain a geom, inferring from the column info. +" +"1","! Legend 4 has geom 'bar', which is not yet implemented. Disabling for now. +" +"1","ℹ Legend 5 did not contain a geom, inferring from the column info. +" +"1","ℹ Legend 5 did not contain labels, inferring from the geom. +" +"1","! Legend 5 has geom 'text' but no specified labels, so disabling this legend for now. +" diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cwn35p7ktqdlw/000012.metadata b/.Rproj.user/shared/notebooks/40548412-index/1/s/cwn35p7ktqdlw/000012.metadata new file mode 100644 index 0000000..1e35f3c --- /dev/null +++ b/.Rproj.user/shared/notebooks/40548412-index/1/s/cwn35p7ktqdlw/000012.metadata @@ -0,0 +1 @@ +{"height":432.6328800988875,"width":700.0,"size_behavior":0,"conditions":[]} \ No newline at end of file diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cwn35p7ktqdlw/000012.png b/.Rproj.user/shared/notebooks/40548412-index/1/s/cwn35p7ktqdlw/000012.png new file mode 100644 index 0000000..5a309bd Binary files /dev/null and b/.Rproj.user/shared/notebooks/40548412-index/1/s/cwn35p7ktqdlw/000012.png differ diff --git a/.Rproj.user/shared/notebooks/40548412-index/1/s/cwn35p7ktqdlw/000012.snapshot b/.Rproj.user/shared/notebooks/40548412-index/1/s/cwn35p7ktqdlw/000012.snapshot new file mode 100644 index 0000000..05f2546 Binary files /dev/null and b/.Rproj.user/shared/notebooks/40548412-index/1/s/cwn35p7ktqdlw/000012.snapshot differ diff --git a/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/6A54F82261a2533f/chunks.json b/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/6A54F82261a2533f/chunks.json index ba7a3e2..af9e94a 100644 --- a/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/6A54F82261a2533f/chunks.json +++ b/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/6A54F82261a2533f/chunks.json @@ -1 +1 @@ -{"chunk_definitions":[{"row":15,"row_count":1,"visible":true,"expansion_state":0,"options":{"engine":"r","label":"unnamed-chunk-7","dev":"png"},"document_id":"AB873B71","chunk_id":"czhmzk351sdf6","chunk_label":"unnamed-chunk-1"},{"row":121,"row_count":1,"visible":true,"expansion_state":0,"options":{"engine":"r","label":"unnamed-chunk-17","dev":"png"},"document_id":"AB873B71","chunk_id":"chassic4lsizu","chunk_label":"unnamed-chunk-2"},{"row":153,"row_count":1,"visible":true,"expansion_state":0,"options":{"engine":"r","label":"unnamed-chunk-22","dev":"png"},"document_id":"AB873B71","chunk_id":"cgr6ehjgpf0xr","chunk_label":"unnamed-chunk-3"},{"row":189,"row_count":1,"visible":true,"expansion_state":0,"options":{"engine":"r","label":"unnamed-chunk-26","dev":"png"},"document_id":"AB873B71","chunk_id":"ckluvfb9lzwj2","chunk_label":"unnamed-chunk-4"}],"doc_write_time":1722998379} \ No newline at end of file +{"chunk_definitions":[{"row":15,"row_count":1,"visible":true,"expansion_state":0,"options":{"engine":"r","label":"unnamed-chunk-7","dev":"png"},"document_id":"AB873B71","chunk_id":"czhmzk351sdf6","chunk_label":"unnamed-chunk-1"},{"row":121,"row_count":1,"visible":true,"expansion_state":0,"options":{"engine":"r","label":"unnamed-chunk-40","dev":"png"},"document_id":"AB873B71","chunk_id":"chassic4lsizu","chunk_label":"unnamed-chunk-2"},{"row":153,"row_count":1,"visible":true,"expansion_state":0,"options":{"engine":"r","label":"unnamed-chunk-42","dev":"png"},"document_id":"AB873B71","chunk_id":"cgr6ehjgpf0xr","chunk_label":"unnamed-chunk-3"},{"row":189,"row_count":1,"visible":true,"expansion_state":0,"options":{"engine":"r","label":"unnamed-chunk-26","dev":"png"},"document_id":"AB873B71","chunk_id":"ckluvfb9lzwj2","chunk_label":"unnamed-chunk-4"}],"doc_write_time":1723073897} \ No newline at end of file diff --git a/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/cgr6ehjgpf0xr/000017.csv b/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/cgr6ehjgpf0xr/000017.csv deleted file mode 100644 index a7b0330..0000000 --- a/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/cgr6ehjgpf0xr/000017.csv +++ /dev/null @@ -1,5 +0,0 @@ -"0","write_csv(t(column_groups), file = paste0(curr_dir, ""column_groups.csv"")) -" -"2","Error in write_delim(x, file, delim = "","", na = na, append = append, col_names = col_names, : - is.data.frame(x) is not TRUE -" diff --git a/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/cgr6ehjgpf0xr/000018.error b/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/cgr6ehjgpf0xr/000018.error deleted file mode 100644 index 845ee44..0000000 --- a/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/cgr6ehjgpf0xr/000018.error +++ /dev/null @@ -1 +0,0 @@ -{"frames":[{"func":"write_csv(t(column_groups), file = paste0(curr_dir, \"column_groups.csv\"))","file":"","line_number":0,"end_line_number":0,"character_number":0,"end_character_number":0},{"func":"write_delim(x, file, delim = \",\", na = na, append = append, col_names = col_names, \n quote = quote, escape = escape, eol = eol, num_threads = num_threads, \n progress = progress)","file":"","line_number":0,"end_line_number":0,"character_number":0,"end_character_number":0},{"func":"stopifnot(is.data.frame(x))","file":"","line_number":0,"end_line_number":0,"character_number":0,"end_character_number":0},{"func":"stop(simpleError(msg, call = if (p <- sys.parent(1L)) sys.call(p)))","file":"","line_number":0,"end_line_number":0,"character_number":0,"end_character_number":0}],"message":"Error in write_delim(x, file, delim = \",\", na = na, append = append, col_names = col_names, : \n is.data.frame(x) is not TRUE\n"} \ No newline at end of file diff --git a/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/cgr6ehjgpf0xr/00001d.csv b/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/cgr6ehjgpf0xr/00001d.csv new file mode 100644 index 0000000..9f4fb97 --- /dev/null +++ b/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/cgr6ehjgpf0xr/00001d.csv @@ -0,0 +1,34 @@ +"0","final_data <- read_csv(paste0(curr_dir, ""data_sorted_final_NOTCHANGE.csv"")) +" +"1","New names: +• `` -> `...1` +" +"1","Rows: 13 Columns: 48 +" +"1","── Column specification ───────────────────────────────────────────────────────────────────────────────────────────────────────────── +Delimiter: "","" +chr (7): id, method, predstring_time_cells3000_features500, predstring_time_cells5000_features1000, predstring_memory_cells200_f... +dbl (41): ...1, overall_summary, data_pro_summary, spatial_task_summary, scalability_summary, spfracZero, spLibSize, spEffLibSize... +" +"1"," +ℹ Use `spec()` to retrieve the full column specification for this data. +ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message. +" +"0","#final_data$id <- NULL" +"0","final_data$...1 <- NULL" +"0","" +"0","adaptors <- c(""Yes"",""No"", ""Yes"", ""No"", ""Yes"",""Yes"",""No"",""Yes"",""Yes"",""Yes"",""No"",""Yes"",""Yes"")" +"0","" +"0","final_data <- final_data %>% add_column(adaptor = adaptors, .before = ""overall_summary"") #%>% relocate(method, .before = ""adaptor"")" +"0","" +"0","# Function to format numeric columns to 2 decimal places" +"0","format_numeric_columns <- function(df) {" +"0"," numeric_cols <- sapply(df, is.numeric) # Identify numeric columns" +"0"," df[numeric_cols] <- lapply(df[numeric_cols], function(x) formatC(x, format = ""f"", digits = 2))" +"0"," return(df)" +"0","}" +"0","" +"0","# Apply the function to the data" +"0","final_data <- format_numeric_columns(final_data)" +"0","" +"0","write_csv(final_data, file = paste0(curr_dir, ""final_data.csv""))" diff --git a/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/chunks.json b/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/chunks.json index ba7a3e2..af9e94a 100644 --- a/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/chunks.json +++ b/.Rproj.user/shared/notebooks/DA6E4627-data_json/1/s/chunks.json @@ -1 +1 @@ -{"chunk_definitions":[{"row":15,"row_count":1,"visible":true,"expansion_state":0,"options":{"engine":"r","label":"unnamed-chunk-7","dev":"png"},"document_id":"AB873B71","chunk_id":"czhmzk351sdf6","chunk_label":"unnamed-chunk-1"},{"row":121,"row_count":1,"visible":true,"expansion_state":0,"options":{"engine":"r","label":"unnamed-chunk-17","dev":"png"},"document_id":"AB873B71","chunk_id":"chassic4lsizu","chunk_label":"unnamed-chunk-2"},{"row":153,"row_count":1,"visible":true,"expansion_state":0,"options":{"engine":"r","label":"unnamed-chunk-22","dev":"png"},"document_id":"AB873B71","chunk_id":"cgr6ehjgpf0xr","chunk_label":"unnamed-chunk-3"},{"row":189,"row_count":1,"visible":true,"expansion_state":0,"options":{"engine":"r","label":"unnamed-chunk-26","dev":"png"},"document_id":"AB873B71","chunk_id":"ckluvfb9lzwj2","chunk_label":"unnamed-chunk-4"}],"doc_write_time":1722998379} \ No newline at end of file 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index 53239f2..39efe14 100644 --- a/.Rproj.user/shared/notebooks/paths +++ b/.Rproj.user/shared/notebooks/paths @@ -1,10 +1,15 @@ C:/Users/mtor0581/Downloads/metric_testcase.Rmd="5A293AFA" C:/Users/mtor0581/SPDS_Projects/Analysis/data_json.Rmd="DA6E4627" +C:/Users/mtor0581/SPDS_Projects/SpatialSimBench_ojs/_quarto.yml="C82B6E11" C:/Users/mtor0581/SPDS_Projects/SpatialSimBench_website/_quarto.yml="57E0C457" C:/Users/mtor0581/SPDS_Projects/SpatialSimBench_website/index.qmd="504847CD" +C:/Users/mtor0581/SPDS_Projects/SpatialSimBench_website/results/data/column_groups.JSON="8A694DC6" C:/Users/mtor0581/SPDS_Projects/SpatialSimBench_website/results/index.qmd="85E87991" C:/Users/mtor0581/SPDS_Projects/SpatialSimBench_website/results/styles.css="53B8B8DF" C:/Users/mtor0581/SPDS_Projects/SpatialSimBench_website/styles.css="FCDB9C25" C:/Users/mtor0581/SPDS_Projects/SpatialSimBenchmark_shinyapp/server.R="4FDC561E" -C:/Users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto/results/data/final_data.JSON="19E9F5FE" +C:/Users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto_shiny/_quarto.yml="9E99F3D2" +C:/Users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto_shiny/index.qmd="F61CDF76" +C:/Users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto_shiny/results/index.qmd="40548412" +C:/Users/mtor0581/SPDS_Projects/SpatialSimbench_Quarto_shiny/results/styles.css="0FE46F6C" C:/Users/mtor0581/SPDS_Projects/spatial_simulationV3/spatial_simulationV3/funkyheatmap_new.Rmd="6E850A1D" diff --git a/.quarto/_freeze/results/index/execute-results/html.json b/.quarto/_freeze/results/index/execute-results/html.json index efd0334..33a2aaa 100644 --- a/.quarto/_freeze/results/index/execute-results/html.json +++ b/.quarto/_freeze/results/index/execute-results/html.json @@ -2,7 +2,7 @@ "hash": "dc51a6f9569569074866b15eae5667c9", "result": { "engine": "knitr", - "markdown": "---\ntitle: \"Summary\"\nformat:\n html:\n code-link: true\neditor: visual\ntoc: false\npage-layout: full\n---\n\n```{ojs}\n//| echo: false\n\nfunkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\n\n```\n\n\n\n```{ojs}\n//| label: read data\n//| warning: false\n//| echo: false\n\n//color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\n//scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\n//show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.JSON\").json()\n\n/* console.log(final_data)\nconsole.log(column_info)\nconsole.log(column_groups) */\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Blues\",\n palette2: \"Reds\",\n palette3: \"Greens\",\n palette4: \"YlOrBr\",\n NA: \"Greys\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\n/* poss_method_ids = method_info\n .map(d => d.method)\n .filter(d => results.map(r => r.method).includes(d))\nposs_metric_ids = metric_info\n .map(d => d.metric)\n .filter(d => results.map(r => Object.keys(r.scaled_scores)).flat().includes(d)) */\n```\n\n```{ojs}\n//| echo: false\n\n\nfunction removeLastNColumns(data, n) {\n if (data.length === 0 || n <= 0) return data;\n\n // Extract the keys of the columns\n const keys = Object.keys(data[0]);\n\n // Determine the columns to keep\n const columnsToKeep = keys.slice(0, -n);\n\n // Filter columns for each row\n return data.map(row => {\n const newRow = {};\n columnsToKeep.forEach(key => {\n newRow[key] = row[key];\n });\n return newRow;\n });\n}\n\n// Remove the last 4 columns from the data\nfilteredData = removeLastNColumns(final_data, 6);\n\nfunction removeLastNItems(array, n) {\n return array.slice(0, -n);\n}\n\n\n// Remove the last 4 items\nfilteredColumnInfo = removeLastNItems(column_info, 12);\n\nfilteredColumnGroups = removeLastNItems(column_groups, 2);\n\nconsole.log(filteredColumnGroups)\n\n```\n\n\n\n\n## Results - Heatmap\n\n\n\n\n```{ojs}\n//| echo: false\n\nfunction transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\nfunkyheatmap(\n transpose_list_of_objects(filteredData),\n transpose_list_of_objects(filteredColumnInfo),\n [],\n transpose_list_of_objects(filteredColumnGroups),\n \n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: true\n }\n );\n\n```\n\n\n\n\n\n\n\n\n## Results - Table\n\n\n\n::: {.cell}\n::: {.cell-output-display}\n\n```{=html}\n
\n\n```\n\n:::\n:::\n", + "markdown": "---\ntitle: \"Summary\"\nformat:\n html:\n code-link: true\neditor: visual\ntoc: false\npage-layout: full\n---\n\n```{ojs}\n//| echo: false\n\nfunkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\n\n```\n\n\n\n```{ojs}\n//| label: read data\n//| warning: false\n//| echo: false\n\n//color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\n//scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\n//show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.JSON\").json()\n\n/* console.log(final_data)\nconsole.log(column_info)\nconsole.log(column_groups) */\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Blues\",\n palette2: \"Reds\",\n palette3: \"Greens\",\n palette4: \"YlOrBr\",\n NA: \"Greys\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\n/* poss_method_ids = method_info\n .map(d => d.method)\n .filter(d => results.map(r => r.method).includes(d))\nposs_metric_ids = metric_info\n .map(d => d.metric)\n .filter(d => results.map(r => Object.keys(r.scaled_scores)).flat().includes(d)) */\n```\n\n```{ojs}\n//| echo: false\n\n\nfunction removeLastNColumns(data, n) {\n if (data.length === 0 || n <= 0) return data;\n\n // Extract the keys of the columns\n const keys = Object.keys(data[0]);\n\n // Determine the columns to keep\n const columnsToKeep = keys.slice(0, -n);\n\n // Filter columns for each row\n return data.map(row => {\n const newRow = {};\n columnsToKeep.forEach(key => {\n newRow[key] = row[key];\n });\n return newRow;\n });\n}\n\n// Remove the last 4 columns from the data\nfilteredData = removeLastNColumns(final_data, 6);\n\nfunction removeLastNItems(array, n) {\n return array.slice(0, -n);\n}\n\n\n// Remove the last 4 items\nfilteredColumnInfo = removeLastNItems(column_info, 12);\n\nfilteredColumnGroups = removeLastNItems(column_groups, 2);\n\nconsole.log(filteredColumnGroups)\n\n```\n\n\n\n\n## Results - Heatmap\n\n\n\n\n```{ojs}\n//| echo: false\n\nfunction transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\nfunkyheatmap(\n transpose_list_of_objects(filteredData),\n transpose_list_of_objects(filteredColumnInfo),\n [],\n transpose_list_of_objects(filteredColumnGroups),\n \n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: true\n }\n );\n\n```\n\n\n\n\n\n\n\n\n## Results - Table\n\n\n\n::: {.cell}\n::: {.cell-output-display}\n\n```{=html}\n
\n\n```\n\n:::\n:::\n", "supporting": [], "filters": [ "rmarkdown/pagebreak.lua" diff --git a/.quarto/idx/results/index_old.qmd.json b/.quarto/idx/results/index_old.qmd.json deleted file mode 100644 index 77ce220..0000000 --- a/.quarto/idx/results/index_old.qmd.json +++ /dev/null @@ -1 +0,0 @@ -{"title":"Summary","markdown":{"yaml":{"title":"Summary","format":{"html":{"code-link":true}},"editor":"visual","toc":false},"headingText":"Results","containsRefs":false,"markdown":"\n\n\n```{ojs}\n//| echo: false\n\nfunkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\n\n```\n\n\n```{r setup}\n#| label: load-packages\n#| include: false\n#| error: true\n#| echo: false\n\nlibrary(tidyverse)\nlibrary(funkyheatmap)\nlibrary(kableExtra)\nlibrary(readr)\nlibrary(DT)\nlibrary(plotly)\nlibrary(jsonlite)\n``` \n\n\n\n```{ojs}\n//| label: read data\n//| warning: false\n//| echo: false\n\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\n/* \nasync function loadData() {\n try {\n const final_data = await FileAttachment(\"./data/final_data2.csv\").csv()\n const column_info = await FileAttachment(\"./data/column_info.csv\").csv()\n const column_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n //const palettes = await FileAttachment(\"./data/palettes.csv\").csv()\n\n console.log(\"FINAL DATA\", final_data)\n console.log(\"COLUMN INFO\", column_info)\n console.log(\"COLUMN GROUPS\", column_groups)\n //console.log(\"palettes\", palettes)\n\n\n const palettes = [\n {\n overall: \"Greys\",\n palette1: \"Set1\",\n palette2: \"Set2\",\n palette3: \"Set3\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Dark2\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\n function transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\n console.log(\"TRANSPOSE FINAL DATA\", transpose_list_of_objects(final_data))\n console.log(\"TRANSPOSE COLUMN INFO\", transpose_list_of_objects(column_info))\n console.log(\"TRANSPOSE COLUMN GROUPS\", transpose_list_of_objects(column_groups))\n\n funkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );\n\n \n \n //final_data.view()\n\n } catch (error) {\n console.error(\"Error loading data:\", error);\n }\n}\n\nloadData() */\n\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Greens\",\n palette2: \"Blues\",\n palette3: \"Greens\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\nfunction transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\nconsole.log(final_data)\n\n\nfunkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );\n\n\n\n\n\n\n\n\n\n\n\n```\n\n\n\n\n::: {.cell .panel-input .card .bg-light}\n
\n\nDisplay settings\n\n```{ojs}\n//| echo: false\n\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n```\n\n
\n\n
\n\nFilter methods\n\n```{ojs}\n//| echo: false\n\nviewof method_ids = Inputs.checkbox(\n final_data.map(item => item.method),\n {\n label: \"Methods:\"\n } \n)\n\n``` \n\n
\n\n
\n\nFilter metrics\n\n```{ojs}\n//| echo: false\n\nviewof metric_ids = Inputs.checkbox(\n Object.keys(final_data[0]),\n {\n label: \"Metrics:\"\n }\n)\n```\n\n
\n:::\n\n```{ojs}\n//| echo: false\n//| warning: false\n\n\nInputs.table(final_data)\n```\n\n\n```{r}\n#| echo: false\n#| warning: false\n\nlibrary(tibble)\nlibrary(dplyr)\n\nfinal_data_csv <- read_csv(\"./data/final_data.csv\", show_col_types = FALSE)\n# print(\"final_data_csv\")\n# print(final_data_csv)\nfinal_data_csv$...1 <- NULL\n\ndatatable(\n final_data_csv,\n options = list(\n pageLength = 15,\n scrollX = TRUE,\n searching = TRUE,\n autoWidth = TRUE\n \n ),\n filter = \"top\",\n class = 'compact',\n style = 'bootstrap'\n) %>%\n formatRound(columns = which(sapply(final_data_csv, is.numeric)), digits = 2)\n```\n\n","srcMarkdownNoYaml":"\n\n\n```{ojs}\n//| echo: false\n\nfunkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\n\n```\n\n\n```{r setup}\n#| label: load-packages\n#| include: false\n#| error: true\n#| echo: false\n\nlibrary(tidyverse)\nlibrary(funkyheatmap)\nlibrary(kableExtra)\nlibrary(readr)\nlibrary(DT)\nlibrary(plotly)\nlibrary(jsonlite)\n``` \n\n\n\n```{ojs}\n//| label: read data\n//| warning: false\n//| echo: false\n\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\n/* \nasync function loadData() {\n try {\n const final_data = await FileAttachment(\"./data/final_data2.csv\").csv()\n const column_info = await FileAttachment(\"./data/column_info.csv\").csv()\n const column_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n //const palettes = await FileAttachment(\"./data/palettes.csv\").csv()\n\n console.log(\"FINAL DATA\", final_data)\n console.log(\"COLUMN INFO\", column_info)\n console.log(\"COLUMN GROUPS\", column_groups)\n //console.log(\"palettes\", palettes)\n\n\n const palettes = [\n {\n overall: \"Greys\",\n palette1: \"Set1\",\n palette2: \"Set2\",\n palette3: \"Set3\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Dark2\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\n function transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\n console.log(\"TRANSPOSE FINAL DATA\", transpose_list_of_objects(final_data))\n console.log(\"TRANSPOSE COLUMN INFO\", transpose_list_of_objects(column_info))\n console.log(\"TRANSPOSE COLUMN GROUPS\", transpose_list_of_objects(column_groups))\n\n funkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );\n\n \n \n //final_data.view()\n\n } catch (error) {\n console.error(\"Error loading data:\", error);\n }\n}\n\nloadData() */\n\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Greens\",\n palette2: \"Blues\",\n palette3: \"Greens\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\nfunction transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\nconsole.log(final_data)\n\n\nfunkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );\n\n\n\n\n\n\n\n\n\n\n\n```\n\n## Results\n\n\n\n::: {.cell .panel-input .card .bg-light}\n
\n\nDisplay settings\n\n```{ojs}\n//| echo: false\n\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n```\n\n
\n\n
\n\nFilter methods\n\n```{ojs}\n//| echo: false\n\nviewof method_ids = Inputs.checkbox(\n final_data.map(item => item.method),\n {\n label: \"Methods:\"\n } \n)\n\n``` \n\n
\n\n
\n\nFilter metrics\n\n```{ojs}\n//| echo: false\n\nviewof metric_ids = Inputs.checkbox(\n Object.keys(final_data[0]),\n {\n label: \"Metrics:\"\n }\n)\n```\n\n
\n:::\n\n```{ojs}\n//| echo: false\n//| warning: false\n\n\nInputs.table(final_data)\n```\n\n\n```{r}\n#| echo: false\n#| warning: false\n\nlibrary(tibble)\nlibrary(dplyr)\n\nfinal_data_csv <- read_csv(\"./data/final_data.csv\", show_col_types = FALSE)\n# print(\"final_data_csv\")\n# print(final_data_csv)\nfinal_data_csv$...1 <- NULL\n\ndatatable(\n final_data_csv,\n options = list(\n pageLength = 15,\n scrollX = TRUE,\n searching = TRUE,\n autoWidth = TRUE\n \n ),\n filter = \"top\",\n class = 'compact',\n style = 'bootstrap'\n) %>%\n formatRound(columns = which(sapply(final_data_csv, is.numeric)), digits = 2)\n```\n\n"},"formats":{"html":{"identifier":{"display-name":"HTML","target-format":"html","base-format":"html"},"execute":{"fig-width":7,"fig-height":5,"fig-format":"retina","fig-dpi":96,"df-print":"default","error":false,"eval":true,"cache":null,"freeze":false,"echo":true,"output":true,"warning":true,"include":true,"keep-md":false,"keep-ipynb":false,"ipynb":null,"enabled":null,"daemon":null,"daemon-restart":false,"debug":false,"ipynb-filters":[],"ipynb-shell-interactivity":null,"plotly-connected":true,"center":"#© Sydney Precision Data Science 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top","search-no-results-text":"No results","search-matching-documents-text":"matching documents","search-copy-link-title":"Copy link to search","search-hide-matches-text":"Hide additional matches","search-more-match-text":"more match in this document","search-more-matches-text":"more matches in this document","search-clear-button-title":"Clear","search-text-placeholder":"","search-detached-cancel-button-title":"Cancel","search-submit-button-title":"Submit","search-label":"Search","toggle-section":"Toggle section","toggle-sidebar":"Toggle sidebar navigation","toggle-dark-mode":"Toggle dark mode","toggle-reader-mode":"Toggle reader mode","toggle-navigation":"Toggle navigation","crossref-fig-title":"Figure","crossref-tbl-title":"Table","crossref-lst-title":"Listing","crossref-thm-title":"Theorem","crossref-lem-title":"Lemma","crossref-cor-title":"Corollary","crossref-prp-title":"Proposition","crossref-cnj-title":"Conjecture","crossref-def-title":"Definition","crossref-exm-title":"Example","crossref-exr-title":"Exercise","crossref-ch-prefix":"Chapter","crossref-apx-prefix":"Appendix","crossref-sec-prefix":"Section","crossref-eq-prefix":"Equation","crossref-lof-title":"List of Figures","crossref-lot-title":"List of Tables","crossref-lol-title":"List of Listings","environment-proof-title":"Proof","environment-remark-title":"Remark","environment-solution-title":"Solution","listing-page-order-by":"Order By","listing-page-order-by-default":"Default","listing-page-order-by-date-asc":"Oldest","listing-page-order-by-date-desc":"Newest","listing-page-order-by-number-desc":"High to Low","listing-page-order-by-number-asc":"Low to 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a/SpatialSimBench_website_files/libs/jquery-3.5.1/jquery.min.map b/SpatialSimBench_Quarto_ojs/libs/jquery-3.5.1/jquery.min.map similarity index 100% rename from SpatialSimBench_website_files/libs/jquery-3.5.1/jquery.min.map rename to SpatialSimBench_Quarto_ojs/libs/jquery-3.5.1/jquery.min.map diff --git a/SpatialSimBench_website_files/libs/plotly-binding-4.10.4/plotly.js b/SpatialSimBench_Quarto_ojs/libs/plotly-binding-4.10.4/plotly.js similarity index 100% rename from SpatialSimBench_website_files/libs/plotly-binding-4.10.4/plotly.js rename to SpatialSimBench_Quarto_ojs/libs/plotly-binding-4.10.4/plotly.js diff --git a/SpatialSimBench_website_files/libs/plotly-htmlwidgets-css-2.11.1/plotly-htmlwidgets.css b/SpatialSimBench_Quarto_ojs/libs/plotly-htmlwidgets-css-2.11.1/plotly-htmlwidgets.css similarity index 100% rename from SpatialSimBench_website_files/libs/plotly-htmlwidgets-css-2.11.1/plotly-htmlwidgets.css rename to 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Multi-task benchmarking of spatially resolved gene expression simulation models

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Abstract

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Computational methods for spatially resolved transcriptomics (SRT) are frequently developed and assessed through data simulation. The effectiveness of these evaluations relies on the simulation methods’ ability to accurately reflect experimental data. However, a systematic evaluation framework for spatial simulators is lacking. Here, we present SpatialSimBench, a comprehensive evaluation framework that assesses 13 simulation methods using 10 distinct STR datasets. We introduce simAdaptor, a tool that extends single-cell simulators to incorporate spatial variables, thus enabling them to simulate spatial data. SimAdaptor enables SpatialSimBench to be “back-wards” compatible. That is, it facilitates direct comparison between spatially aware simulators and existing non-spatial single-cell simulators through the adaption. Through SpatialSimBench, we demonstrate the feasibility of leveraging existing single-cell simulators for SRT data and highlight performance differences among methods. Additionally, we evaluate the simulation methods based on a total of 35 metrics across data property estimation, various downstream analysis and scalability. In total, we generated 4550 results from 13 simulation methods, 10 spatial datasets and 35 metrics. Our findings reveal that model estimation can be impacted by distribution assumptions and dataset characteristics. In summary, our evaluation and the evaluation framework will provide guidelines for selecting appropriate methods for specific scenarios and informing future method development.

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Research paper link

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task","Category":"Deconvolute","group":"spatial_task_den","palette":"palette2"},{"Experiment":"Spatial task","Category":"Crosscorrelate","group":"spatial_task_cor","palette":"palette2"},{"Experiment":"Scalability","Category":"Predicted time","group":"scalability_time","palette":"palette3"},{"Experiment":"Scalability","Category":"Predicted memory","group":"scalability_memory","palette":"palette3"}] diff --git a/_site/results/data/column_groups.csv b/_site/results/data/column_groups.csv deleted file mode 100644 index 50f109e..0000000 --- a/_site/results/data/column_groups.csv +++ /dev/null @@ -1,12 +0,0 @@ -Experiment,Category,group,palette -Method,-,method,overall -Summary,Rank-based overall,summary,overall -Data proporties,Spot-level,data_pro_spot,palette1 -Data proporties,Gene-level,data_pro_gene,palette1 -Data proporties,Spatial-level,data_pro_spatial,palette1 -Spatial task,Cluster,spatial_task_clustering,palette2 -Spatial task,SVG,spatial_task_svg,palette2 -Spatial task,Deconvolute,spatial_task_den,palette2 -Spatial task,Crosscorrelate,spatial_task_cor,palette2 -Scalability,Predicted time,scalability_time,palette3 -Scalability,Predicted memory,scalability_memory,palette3 diff --git a/_site/results/data/column_info.csv b/_site/results/data/column_info.csv deleted file mode 100644 index 065f0bd..0000000 --- a/_site/results/data/column_info.csv +++ /dev/null @@ -1,48 +0,0 @@ -id,group,name,geom,palette,options -method,method,NA,text,NA, -adaptor,method,Adaptor,text,NA, -overall_summary,summary,Overall,bar,overall, -data_pro_summary,summary,data proporties,bar,palette1, -spatial_task_summary,summary,Spatial Task,bar,palette2, -scalability_summary,summary,Scalability,bar,palette3, -spfracZero,data_pro_spot,fracZero,funkyrect,palette1, -spLibSize,data_pro_spot,LibSize,funkyrect,palette1, -spEffLibSize,data_pro_spot,EffLibSize,funkyrect,palette1, -spTMM,data_pro_spot,TMM,funkyrect,palette1, -spScaledVar,data_pro_spot,ScaledVar,funkyrect,palette1, -spScaledMean,data_pro_spot,ScaledMean,funkyrect,palette1, -splibsizeFracezero,data_pro_spot,libFraczero(higher-order),funkyrect,palette1, -spCorPearson,data_pro_spot,Pearson(higher-order),funkyrect,palette1, -ftFracZero,data_pro_gene,fracZero,funkyrect,palette1, -ftScaledVar,data_pro_gene,ScaledVar,funkyrect,palette1, -ftScaledMean,data_pro_gene,ScaledMean,funkyrect,palette1, -ftPearson,data_pro_gene,Pearson(higher-order),funkyrect,palette1, -ftScaleMeanVal,data_pro_gene,MeanVal(higher-order),funkyrect,palette1, -ftMeanFraczero,data_pro_gene,MeanFracZero(higher-order),funkyrect,palette1, -TM,data_pro_spatial,TM,funkyrect,palette1, -NWE,data_pro_spatial,NWE,funkyrect,palette1, -CSM,data_pro_spatial,CSM,funkyrect,palette1, -celltype_interaction,data_pro_spatial,celltype_interaction,funkyrect,palette1, -L_stats,data_pro_spatial,L stats,funkyrect,palette1, -nn_correlation,data_pro_spatial,nn_correlation,funkyrect,palette1, -morans_I,data_pro_spatial,Moran's I,funkyrect,palette1, -ARI,spatial_task_clustering,ARI,funkyrect,palette2, -NMI,spatial_task_clustering,NMI,funkyrect,palette2, -recall_svg,spatial_task_svg,recall,funkyrect,palette2, -precision_svg,spatial_task_svg,precision,funkyrect,palette2, -rmse_ctprob,spatial_task_den,RMSE,funkyrect,palette2, -jsd_ctprob,spatial_task_den,JSD,funkyrect,palette2, -mantel_cor,spatial_task_cor,Mantel stat,funkyrect,palette2, -cosine_cor,spatial_task_cor,cosine similarity,funkyrect,palette2, -pred_time_cells200_features200,scalability_time,200 x 200,rect,palette3, -pred_time_cells200_features200,scalability_time,NA,text,white6black4, -pred_time_cells3000_features500,scalability_time,3k x 500,rect,palette3, -pred_time_cells3000_features500,scalability_time,NA,text,white6black4, -pred_time_cells5000_features1000,scalability_time,5k x 1k,rect,palette3, -pred_time_cells5000_features1000,scalability_time,NA,text,white6black4, -pred_memory_cells200_features200,scalability_memory,200 x 200,rect,palette3, -pred_memory_cells200_features200,scalability_memory,NA,text,white6black4, -pred_memory_cells3000_features500,scalability_memory,3k x 500,rect,palette3, -pred_memory_cells3000_features500,scalability_memory,NA,text,white6black4, -pred_memory_cells5000_features1000,scalability_memory,5k x 1k,rect,palette3, -pred_memory_cells5000_features1000,scalability_memory,NA,text,white6black4, diff --git a/_site/results/data/final_data2.csv b/_site/results/data/final_data2.csv deleted file mode 100644 index dd61750..0000000 --- a/_site/results/data/final_data2.csv +++ /dev/null @@ -1,14 +0,0 @@ -method,adaptor,overall_summary,data_pro_summary,spatial_task_summary,scalability_summary,spfracZero,spLibSize,spEffLibSize,spTMM,spScaledVar,spScaledMean,splibsizeFracezero,spCorPearson,ftFracZero,ftScaledVar,ftScaledMean,ftPearson,ftScaleMeanVal,ftMeanFraczero,TM,NWE,CSM,celltype_interaction,L_stats,nn_correlation,morans_I,ARI,NMI,recall_svg,precision_svg,rmse_ctprob,jsd_ctprob,mantel_cor,cosine_cor,pred_time_cells200_features200,pred_time_cells3000_features500,pred_time_cells5000_features1000,pred_memory_cells200_features200,pred_memory_cells3000_features500,pred_memory_cells5000_features1000,predstring_time_cells200_features200,predstring_time_cells3000_features500,predstring_time_cells5000_features1000,predstring_memory_cells200_features200,predstring_memory_cells3000_features500,predstring_memory_cells5000_features1000 -SRTsim_rf,Yes,12.50,10.43,10.12,11.83,0.87,0.81,-3.53,-0.50,-22.09,-0.34,-0.77,0.10,-0.05,-8.13,0.06,-0.01,-10.74,-11.15,-0.26,-0.84,-0.31,0.08,1.29,-0.77,-2.25,0.58,0.60,0.78,0.81,-0.03,-0.08,-0.91,0.91,-1.00,-11.00,-32.00,-1941204.00,-2059443.00,-2128216.00,1.00,11s,32s,1.9G,2G,2G -SRTsim,No,12.17,10.48,10.12,9.67,3.32,-0.02,-1.58,-0.98,-42.51,-2.21,-4.54,-2.80,0.24,-21.80,0.14,0.15,-21.37,-0.51,-0.30,-0.76,-0.26,1.29,1.22,0.95,-0.19,0.58,0.58,0.80,0.84,-0.03,-0.09,-0.95,0.95,-4.00,-19.00,-50.00,-2212423.00,-2232741.00,-2503995.00,4.00,19s,50s,2.1G,2.1G,2.4G -SPARsim,Yes,9.50,8.71,6.88,9.08,-3.88,1.29,-3.96,-3.66,-26.28,0.37,-11.08,-21.39,-0.73,-40.62,-20.28,-2.26,-148.98,-0.48,-0.18,-0.52,-0.24,2.64,0.74,-14.06,-5.18,0.93,0.92,0.52,0.63,-0.09,-0.24,-0.68,0.68,-21.00,-43.00,-66.00,-1696115.00,-3635721.00,-4001645.00,21.00,43s,1.1m,1.6G,3.5G,3.8G -scDesign3_poi_rf,No,7.50,6.95,8.38,5.25,-18.56,-17.25,-4.33,-5.00,-42.20,-2.23,-17.88,-11.69,-1.95,-2.55,0.26,-1.88,-8.55,-15.63,-0.55,-1.29,-0.54,0.73,1.18,-6.39,-10.12,0.26,0.27,0.83,0.67,-0.06,-0.15,-0.83,0.83,-21.00,-711.00,-2092.00,-1852625.00,-4336100.00,-7646784.00,21.00,11.8m,34.9m,1.8G,4.1G,7.3G -scDesign3_poi,Yes,6.50,7.10,8.38,3.67,-18.56,-17.25,-4.33,-5.00,-42.20,-2.23,-17.88,-11.08,-1.95,-2.55,0.26,-1.66,-8.55,-15.63,-0.55,-1.26,-0.54,0.73,1.18,-6.39,-10.12,0.26,0.27,0.83,0.67,-0.06,-0.15,-0.83,0.83,-23.00,-843.00,-2631.00,-1945085.00,-4274201.00,-7676111.00,23.00,14.1m,43.9m,1.9G,4.1G,7.3G -scDesign3_nb_rf,Yes,6.33,8.57,6.88,3.92,-4.38,-3.86,-1.42,-1.11,-39.03,-2.36,-4.48,-2.32,0.28,-13.27,0.07,-3.95,-30.98,-1.05,-0.44,-1.18,-0.39,0.88,0.97,-2.75,-1.61,0.21,0.21,0.74,0.75,-0.08,-0.19,-0.79,0.79,-54.00,-748.00,-2094.00,-1963884.00,-4302020.00,-6604235.00,54.00,12.5m,34.9m,1.9G,4.1G,6.3G -scDesign3_nb,No,6.17,8.67,6.38,3.92,-4.34,-3.83,-1.40,-1.19,-38.79,-2.35,-4.56,-1.26,0.28,-13.22,0.06,-3.64,-31.20,-1.04,-0.43,-1.19,-0.38,0.87,0.96,-2.76,-1.59,0.21,0.21,0.74,0.75,-0.08,-0.19,-0.79,0.79,-54.00,-762.00,-2113.00,-1942827.00,-4287208.00,-6648315.00,54.00,12.7m,35.2m,1.9G,4.1G,6.3G -zinbwave,Yes,6.00,6.76,7.00,5.00,2.21,0.74,-23.06,-6.79,-34.52,0.03,-0.62,-21.87,0.31,-41.77,0.07,-5.38,-68.11,0.35,-0.61,-1.73,-0.54,-0.68,1.00,-24.11,-6.00,0.45,0.47,0.50,0.63,-0.08,-0.18,-0.68,0.68,-3.00,-40.00,-248.00,-14291297.00,-17424745.00,-22860085.00,3.00,40s,4.1m,13.6G,16.6G,21.8G -splatter,Yes,5.83,4.33,5.50,11.33,-8.88,-1.37,-23.67,-15.20,-46.61,-2.69,-27.33,-40.61,-23.59,-114.15,-23.91,-8.79,-189.77,-31.88,-0.38,-1.11,-0.26,0.17,0.14,-11.41,-7.60,0.85,0.87,0.40,0.42,-0.15,-0.50,-0.52,0.52,-2.00,-6.00,-13.00,-2137601.00,-1842411.00,-2250095.00,2.00,6s,13s,2G,1.8G,2.1G -scDesign3_gau,Yes,5.83,4.43,6.00,7.58,-71.41,-23.24,-5.64,-4.44,-54.24,-5.88,-45.23,-12.00,-37.83,-0.48,-8.77,-2.13,-60.52,-102.29,-0.61,-1.57,-0.69,2.13,0.60,-14.44,-6.66,0.11,0.12,0.75,0.76,-0.09,-0.24,-0.72,0.72,-17.00,-598.00,-1656.00,-1817957.00,-4155757.00,-6441291.00,17.00,10m,27.6m,1.7G,4G,6.1G -scDesign3_gau_rf,No,4.83,4.24,6.00,7.25,-71.41,-23.24,-5.64,-4.44,-54.24,-5.88,-45.23,-12.04,-37.83,-0.48,-8.77,-2.82,-60.52,-102.29,-0.61,-1.59,-0.69,2.13,0.60,-14.44,-6.66,0.11,0.12,0.75,0.76,-0.09,-0.24,-0.72,0.72,-17.00,-600.00,-1650.00,-1853197.00,-4175684.00,-6293992.00,17.00,10m,27.5m,1.8G,4G,6G -scDesign2,Yes,4.33,6.81,3.88,5.67,-5.11,-4.32,-2.25,-0.94,-28.87,-1.37,-5.75,-0.87,-0.08,-1.91,-0.11,-3.05,-15.60,-1.12,-0.71,-1.37,-0.83,-0.01,0.07,-10.11,-18.96,0.05,0.06,0.48,0.46,-0.10,-0.23,-0.66,0.66,-12.00,-27.00,-70.00,-9880256.00,-9301012.00,-10174727.00,12.00,27s,1.2m,9.4G,8.9G,9.7G -symsim,Yes,3.50,3.52,5.50,6.83,-19.84,-21.20,-43.35,-24.37,-62.78,-4.31,-26.08,-36.05,-11.38,-176.97,-56.85,-7.55,-370.65,-37.50,-0.30,-0.91,-0.27,-7.65,0.20,-10.64,-9.39,0.94,0.95,0.23,0.41,-0.16,-0.53,-0.53,0.53,-47.00,-66.00,-98.00,-2539844.00,-2614711.00,-3403980.00,47.00,1.1m,1.6m,2.4G,2.5G,3.2G diff --git a/_site/results/index.html b/_site/results/index.html deleted file mode 100644 index 111f9be..0000000 --- a/_site/results/index.html +++ /dev/null @@ -1,857 +0,0 @@ - - - - - - -Summary – SpatialSimBench - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
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- - - - \ No newline at end of file diff --git a/_site/search.json b/_site/search.json deleted file mode 100644 index 865ab95..0000000 --- a/_site/search.json +++ /dev/null @@ -1,44 +0,0 @@ -[ - { - "objectID": "results/index_old.html", - "href": "results/index_old.html", - "title": "Summary", - "section": "", - "text": "funkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\n/* \nasync function loadData() {\n try {\n const final_data = await FileAttachment(\"./data/final_data2.csv\").csv()\n const column_info = await FileAttachment(\"./data/column_info.csv\").csv()\n const column_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n //const palettes = await FileAttachment(\"./data/palettes.csv\").csv()\n\n console.log(\"FINAL DATA\", final_data)\n console.log(\"COLUMN INFO\", column_info)\n console.log(\"COLUMN GROUPS\", column_groups)\n //console.log(\"palettes\", palettes)\n\n const palettes = [\n {\n overall: \"Greys\",\n palette1: \"Set1\",\n palette2: \"Set2\",\n palette3: \"Set3\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Dark2\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\n function transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\n console.log(\"TRANSPOSE FINAL DATA\", transpose_list_of_objects(final_data))\n console.log(\"TRANSPOSE COLUMN INFO\", transpose_list_of_objects(column_info))\n console.log(\"TRANSPOSE COLUMN GROUPS\", transpose_list_of_objects(column_groups))\n\n funkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );\n\n \n \n //final_data.view()\n\n } catch (error) {\n console.error(\"Error loading data:\", error);\n }\n}\n\nloadData() */\n\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Greens\",\n palette2: \"Blues\",\n palette3: \"Greens\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\nfunction transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\nconsole.log(final_data)\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\nfunkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );" - }, - { - "objectID": "results/index_old.html#results", - "href": "results/index_old.html#results", - "title": "Summary", - "section": "Results", - "text": "Results\n\n\n\nDisplay settings\n//| echo: false\n\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\nFilter methods\n\nviewof method_ids = Inputs.checkbox(\n final_data.map(item => item.method),\n {\n label: \"Methods:\"\n } \n)\n\n\n\n\n\n\n\nFilter metrics\n\nviewof metric_ids = Inputs.checkbox(\n Object.keys(final_data[0]),\n {\n label: \"Metrics:\"\n }\n)\n\n\n\n\n\n\n\n\n\nInputs.table(final_data)" - }, - { - "objectID": "index.html", - "href": "index.html", - "title": "About", - "section": "", - "text": "Multi-task benchmarking of spatially resolved gene expression simulation models\nAbstract\nComputational methods for spatially resolved transcriptomics (SRT) are frequently developed and assessed through data simulation. The effectiveness of these evaluations relies on the simulation methods’ ability to accurately reflect experimental data. However, a systematic evaluation framework for spatial simulators is lacking. Here, we present SpatialSimBench, a comprehensive evaluation framework that assesses 13 simulation methods using 10 distinct STR datasets. We introduce simAdaptor, a tool that extends single-cell simulators to incorporate spatial variables, thus enabling them to simulate spatial data. SimAdaptor enables SpatialSimBench to be “back-wards” compatible. That is, it facilitates direct comparison between spatially aware simulators and existing non-spatial single-cell simulators through the adaption. Through SpatialSimBench, we demonstrate the feasibility of leveraging existing single-cell simulators for SRT data and highlight performance differences among methods. Additionally, we evaluate the simulation methods based on a total of 35 metrics across data property estimation, various downstream analysis and scalability. In total, we generated 4550 results from 13 simulation methods, 10 spatial datasets and 35 metrics. Our findings reveal that model estimation can be impacted by distribution assumptions and dataset characteristics. In summary, our evaluation and the evaluation framework will provide guidelines for selecting appropriate methods for specific scenarios and informing future method development.\nResearch paper link" - }, - { - "objectID": "results/index.html", - "href": "results/index.html", - "title": "Summary", - "section": "", - "text": "funkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.JSON\").json()\n\n/* console.log(final_data)\nconsole.log(column_info)\nconsole.log(column_groups) */\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Blues\",\n palette2: \"Reds\",\n palette3: \"Greens\",\n palette4: \"YlOrBr\",\n NA: \"Greys\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0]\nfunction removeLastNColumns(data, n) {\n if (data.length === 0 || n <= 0) return data;\n\n // Extract the keys of the columns\n const keys = Object.keys(data[0]);\n\n // Determine the columns to keep\n const columnsToKeep = keys.slice(0, -n);\n\n // Filter columns for each row\n return data.map(row => {\n const newRow = {};\n columnsToKeep.forEach(key => {\n newRow[key] = row[key];\n });\n return newRow;\n });\n}\n\n// Remove the last 4 columns from the data\nfilteredData = removeLastNColumns(final_data, 6);\n\nfunction removeLastNItems(array, n) {\n return array.slice(0, -n);\n}\n\n\n// Remove the last 4 items\nfilteredColumnInfo = removeLastNItems(column_info, 12);\n\nfilteredColumnGroups = removeLastNItems(column_groups, 2);\n\nconsole.log(filteredColumnGroups)" - }, - { - "objectID": "results/index.html#results---heatmap", - "href": "results/index.html#results---heatmap", - "title": "Summary", - "section": "Results - Heatmap", - "text": "Results - Heatmap\n\nfunction transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\nfunkyheatmap(\n transpose_list_of_objects(filteredData),\n transpose_list_of_objects(filteredColumnInfo),\n [],\n transpose_list_of_objects(filteredColumnGroups),\n \n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: true\n }\n );" - }, - { - "objectID": "results/index.html#results---table", - "href": "results/index.html#results---table", - "title": "Summary", - "section": "Results - Table", - "text": "Results - Table" - } -] \ No newline at end of file diff --git a/_site/site_libs/bootstrap/bootstrap-icons.css b/_site/site_libs/bootstrap/bootstrap-icons.css deleted file mode 100644 index 285e444..0000000 --- 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.navbar-toggler{display:none}.navbar-expand-xxl .offcanvas{position:static;z-index:auto;flex-grow:1;-webkit-flex-grow:1;width:auto !important;height:auto !important;visibility:visible !important;background-color:rgba(0,0,0,0) !important;border:0 !important;transform:none !important;box-shadow:none;transition:none}.navbar-expand-xxl .offcanvas .offcanvas-header{display:none}.navbar-expand-xxl .offcanvas .offcanvas-body{display:flex;display:-webkit-flex;flex-grow:0;-webkit-flex-grow:0;padding:0;overflow-y:visible}}.navbar-expand{flex-wrap:nowrap;-webkit-flex-wrap:nowrap;justify-content:flex-start;-webkit-justify-content:flex-start}.navbar-expand .navbar-nav{flex-direction:row;-webkit-flex-direction:row}.navbar-expand .navbar-nav .dropdown-menu{position:absolute}.navbar-expand .navbar-nav .nav-link{padding-right:var(--bs-navbar-nav-link-padding-x);padding-left:var(--bs-navbar-nav-link-padding-x)}.navbar-expand .navbar-nav-scroll{overflow:visible}.navbar-expand 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url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 30 30'%3e%3cpath stroke='rgba%280, 0, 0, 0.6%29' stroke-linecap='round' stroke-miterlimit='10' stroke-width='2' d='M4 7h22M4 15h22M4 23h22'/%3e%3c/svg%3e")}[data-bs-theme=dark] .navbar-toggler-icon{--bs-navbar-toggler-icon-bg: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 30 30'%3e%3cpath stroke='rgba%280, 0, 0, 0.6%29' stroke-linecap='round' stroke-miterlimit='10' stroke-width='2' d='M4 7h22M4 15h22M4 23h22'/%3e%3c/svg%3e")}.card{--bs-card-spacer-y: 1rem;--bs-card-spacer-x: 1rem;--bs-card-title-spacer-y: 0.5rem;--bs-card-title-color: ;--bs-card-subtitle-color: ;--bs-card-border-width: 1px;--bs-card-border-color: #eeeeee;--bs-card-border-radius: 0.25rem;--bs-card-box-shadow: ;--bs-card-inner-border-radius: calc(0.25rem - 1px);--bs-card-cap-padding-y: 0.5rem;--bs-card-cap-padding-x: 1rem;--bs-card-cap-bg: rgba(52, 58, 64, 0.25);--bs-card-cap-color: ;--bs-card-height: 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var(--bs-accordion-border-color)}.accordion-button:not(.collapsed)::after{background-image:var(--bs-accordion-btn-active-icon);transform:var(--bs-accordion-btn-icon-transform)}.accordion-button::after{flex-shrink:0;-webkit-flex-shrink:0;width:var(--bs-accordion-btn-icon-width);height:var(--bs-accordion-btn-icon-width);margin-left:auto;content:"";background-image:var(--bs-accordion-btn-icon);background-repeat:no-repeat;background-size:var(--bs-accordion-btn-icon-width);transition:var(--bs-accordion-btn-icon-transition)}@media(prefers-reduced-motion: reduce){.accordion-button::after{transition:none}}.accordion-button:hover{z-index:2}.accordion-button:focus{z-index:3;border-color:var(--bs-accordion-btn-focus-border-color);outline:0;box-shadow:var(--bs-accordion-btn-focus-box-shadow)}.accordion-header{margin-bottom:0}.accordion-item{color:var(--bs-accordion-color);background-color:var(--bs-accordion-bg);border:var(--bs-accordion-border-width) solid var(--bs-accordion-border-color)}.accordion-item:first-of-type{border-top-left-radius:var(--bs-accordion-border-radius);border-top-right-radius:var(--bs-accordion-border-radius)}.accordion-item:first-of-type .accordion-button{border-top-left-radius:var(--bs-accordion-inner-border-radius);border-top-right-radius:var(--bs-accordion-inner-border-radius)}.accordion-item:not(:first-of-type){border-top:0}.accordion-item:last-of-type{border-bottom-right-radius:var(--bs-accordion-border-radius);border-bottom-left-radius:var(--bs-accordion-border-radius)}.accordion-item:last-of-type .accordion-button.collapsed{border-bottom-right-radius:var(--bs-accordion-inner-border-radius);border-bottom-left-radius:var(--bs-accordion-inner-border-radius)}.accordion-item:last-of-type .accordion-collapse{border-bottom-right-radius:var(--bs-accordion-border-radius);border-bottom-left-radius:var(--bs-accordion-border-radius)}.accordion-body{padding:var(--bs-accordion-body-padding-y) var(--bs-accordion-body-padding-x)}.accordion-flush .accordion-collapse{border-width:0}.accordion-flush .accordion-item{border-right:0;border-left:0;border-radius:0}.accordion-flush .accordion-item:first-child{border-top:0}.accordion-flush .accordion-item:last-child{border-bottom:0}.accordion-flush .accordion-item .accordion-button,.accordion-flush .accordion-item .accordion-button.collapsed{border-radius:0}[data-bs-theme=dark] .accordion-button::after{--bs-accordion-btn-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%23e87b6f'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e");--bs-accordion-btn-active-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%23e87b6f'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e")}.breadcrumb{--bs-breadcrumb-padding-x: 0.75rem;--bs-breadcrumb-padding-y: 0.375rem;--bs-breadcrumb-margin-bottom: 1rem;--bs-breadcrumb-bg: ;--bs-breadcrumb-border-radius: 0.25rem;--bs-breadcrumb-divider-color: rgba(33, 37, 41, 0.75);--bs-breadcrumb-item-padding-x: 0.5rem;--bs-breadcrumb-item-active-color: rgba(33, 37, 41, 0.75);display:flex;display:-webkit-flex;flex-wrap:wrap;-webkit-flex-wrap:wrap;padding:var(--bs-breadcrumb-padding-y) var(--bs-breadcrumb-padding-x);margin-bottom:var(--bs-breadcrumb-margin-bottom);font-size:var(--bs-breadcrumb-font-size);list-style:none;background-color:var(--bs-breadcrumb-bg);border-radius:var(--bs-breadcrumb-border-radius)}.breadcrumb-item+.breadcrumb-item{padding-left:var(--bs-breadcrumb-item-padding-x)}.breadcrumb-item+.breadcrumb-item::before{float:left;padding-right:var(--bs-breadcrumb-item-padding-x);color:var(--bs-breadcrumb-divider-color);content:var(--bs-breadcrumb-divider, ">") /* rtl: var(--bs-breadcrumb-divider, ">") */}.breadcrumb-item.active{color:var(--bs-breadcrumb-item-active-color)}.pagination{--bs-pagination-padding-x: 0.75rem;--bs-pagination-padding-y: 0.375rem;--bs-pagination-font-size:1rem;--bs-pagination-color: #d9230f;--bs-pagination-bg: #fcfcfc;--bs-pagination-border-width: 1px;--bs-pagination-border-color: #eeeeee;--bs-pagination-border-radius: 0.25rem;--bs-pagination-hover-color: #fff;--bs-pagination-hover-bg: #d9230f;--bs-pagination-hover-border-color: #d9230f;--bs-pagination-focus-color: #ae1c0c;--bs-pagination-focus-bg: #ddd;--bs-pagination-focus-box-shadow: 0 0 0 0.25rem rgba(217, 35, 15, 0.25);--bs-pagination-active-color: #fff;--bs-pagination-active-bg: #d9230f;--bs-pagination-active-border-color: #d9230f;--bs-pagination-disabled-color: #bbb;--bs-pagination-disabled-bg: #ddd;--bs-pagination-disabled-border-color: #eeeeee;display:flex;display:-webkit-flex;padding-left:0;list-style:none}.page-link{position:relative;display:block;padding:var(--bs-pagination-padding-y) var(--bs-pagination-padding-x);font-size:var(--bs-pagination-font-size);color:var(--bs-pagination-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background-color:var(--bs-pagination-bg);border:var(--bs-pagination-border-width) solid var(--bs-pagination-border-color);transition:color .15s ease-in-out,background-color .15s ease-in-out,border-color .15s ease-in-out,box-shadow .15s ease-in-out}@media(prefers-reduced-motion: reduce){.page-link{transition:none}}.page-link:hover{z-index:2;color:var(--bs-pagination-hover-color);background-color:var(--bs-pagination-hover-bg);border-color:var(--bs-pagination-hover-border-color)}.page-link:focus{z-index:3;color:var(--bs-pagination-focus-color);background-color:var(--bs-pagination-focus-bg);outline:0;box-shadow:var(--bs-pagination-focus-box-shadow)}.page-link.active,.active>.page-link{z-index:3;color:var(--bs-pagination-active-color);background-color:var(--bs-pagination-active-bg);border-color:var(--bs-pagination-active-border-color)}.page-link.disabled,.disabled>.page-link{color:var(--bs-pagination-disabled-color);pointer-events:none;background-color:var(--bs-pagination-disabled-bg);border-color:var(--bs-pagination-disabled-border-color)}.page-item:not(:first-child) .page-link{margin-left:calc(1px*-1)}.page-item:first-child .page-link{border-top-left-radius:var(--bs-pagination-border-radius);border-bottom-left-radius:var(--bs-pagination-border-radius)}.page-item:last-child .page-link{border-top-right-radius:var(--bs-pagination-border-radius);border-bottom-right-radius:var(--bs-pagination-border-radius)}.pagination-lg{--bs-pagination-padding-x: 1.5rem;--bs-pagination-padding-y: 0.75rem;--bs-pagination-font-size:1.25rem;--bs-pagination-border-radius: 0.5rem}.pagination-sm{--bs-pagination-padding-x: 0.5rem;--bs-pagination-padding-y: 0.25rem;--bs-pagination-font-size:0.875rem;--bs-pagination-border-radius: 0.2em}.badge{--bs-badge-padding-x: 0.65em;--bs-badge-padding-y: 0.35em;--bs-badge-font-size:0.75em;--bs-badge-font-weight: 700;--bs-badge-color: #fff;--bs-badge-border-radius: 0.25rem;display:inline-block;padding:var(--bs-badge-padding-y) var(--bs-badge-padding-x);font-size:var(--bs-badge-font-size);font-weight:var(--bs-badge-font-weight);line-height:1;color:var(--bs-badge-color);text-align:center;white-space:nowrap;vertical-align:baseline;border-radius:var(--bs-badge-border-radius)}.badge:empty{display:none}.btn .badge{position:relative;top:-1px}.alert{--bs-alert-bg: transparent;--bs-alert-padding-x: 1rem;--bs-alert-padding-y: 1rem;--bs-alert-margin-bottom: 1rem;--bs-alert-color: inherit;--bs-alert-border-color: transparent;--bs-alert-border: 1px solid var(--bs-alert-border-color);--bs-alert-border-radius: 0.25rem;--bs-alert-link-color: inherit;position:relative;padding:var(--bs-alert-padding-y) var(--bs-alert-padding-x);margin-bottom:var(--bs-alert-margin-bottom);color:var(--bs-alert-color);background-color:var(--bs-alert-bg);border:var(--bs-alert-border);border-radius:var(--bs-alert-border-radius)}.alert-heading{color:inherit}.alert-link{font-weight:700;color:var(--bs-alert-link-color)}.alert-dismissible{padding-right:3rem}.alert-dismissible .btn-close{position:absolute;top:0;right:0;z-index:2;padding:1.25rem 1rem}.alert-default{--bs-alert-color: var(--bs-default-text-emphasis);--bs-alert-bg: var(--bs-default-bg-subtle);--bs-alert-border-color: var(--bs-default-border-subtle);--bs-alert-link-color: var(--bs-default-text-emphasis)}.alert-primary{--bs-alert-color: var(--bs-primary-text-emphasis);--bs-alert-bg: var(--bs-primary-bg-subtle);--bs-alert-border-color: var(--bs-primary-border-subtle);--bs-alert-link-color: var(--bs-primary-text-emphasis)}.alert-secondary{--bs-alert-color: var(--bs-secondary-text-emphasis);--bs-alert-bg: var(--bs-secondary-bg-subtle);--bs-alert-border-color: var(--bs-secondary-border-subtle);--bs-alert-link-color: var(--bs-secondary-text-emphasis)}.alert-success{--bs-alert-color: var(--bs-success-text-emphasis);--bs-alert-bg: var(--bs-success-bg-subtle);--bs-alert-border-color: var(--bs-success-border-subtle);--bs-alert-link-color: var(--bs-success-text-emphasis)}.alert-info{--bs-alert-color: var(--bs-info-text-emphasis);--bs-alert-bg: var(--bs-info-bg-subtle);--bs-alert-border-color: var(--bs-info-border-subtle);--bs-alert-link-color: var(--bs-info-text-emphasis)}.alert-warning{--bs-alert-color: var(--bs-warning-text-emphasis);--bs-alert-bg: var(--bs-warning-bg-subtle);--bs-alert-border-color: var(--bs-warning-border-subtle);--bs-alert-link-color: var(--bs-warning-text-emphasis)}.alert-danger{--bs-alert-color: var(--bs-danger-text-emphasis);--bs-alert-bg: var(--bs-danger-bg-subtle);--bs-alert-border-color: var(--bs-danger-border-subtle);--bs-alert-link-color: var(--bs-danger-text-emphasis)}.alert-light{--bs-alert-color: var(--bs-light-text-emphasis);--bs-alert-bg: var(--bs-light-bg-subtle);--bs-alert-border-color: var(--bs-light-border-subtle);--bs-alert-link-color: var(--bs-light-text-emphasis)}.alert-dark{--bs-alert-color: var(--bs-dark-text-emphasis);--bs-alert-bg: var(--bs-dark-bg-subtle);--bs-alert-border-color: var(--bs-dark-border-subtle);--bs-alert-link-color: var(--bs-dark-text-emphasis)}@keyframes progress-bar-stripes{0%{background-position-x:1rem}}.progress,.progress-stacked{--bs-progress-height: 1rem;--bs-progress-font-size:0.75rem;--bs-progress-bg: #ddd;--bs-progress-border-radius: 0.25rem;--bs-progress-box-shadow: inset 0 1px 2px rgba(0, 0, 0, 0.075);--bs-progress-bar-color: #d9230f;--bs-progress-bar-bg: #d9230f;--bs-progress-bar-transition: width 0.6s ease;display:flex;display:-webkit-flex;height:var(--bs-progress-height);overflow:hidden;font-size:var(--bs-progress-font-size);background-color:var(--bs-progress-bg);border-radius:var(--bs-progress-border-radius);box-shadow:var(--bs-progress-box-shadow)}.progress-bar{display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;justify-content:center;-webkit-justify-content:center;overflow:hidden;color:var(--bs-progress-bar-color);text-align:center;white-space:nowrap;background-color:var(--bs-progress-bar-bg);transition:var(--bs-progress-bar-transition)}@media(prefers-reduced-motion: reduce){.progress-bar{transition:none}}.progress-bar-striped{background-image:linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent);background-size:var(--bs-progress-height) var(--bs-progress-height)}.progress-stacked>.progress{overflow:visible}.progress-stacked>.progress>.progress-bar{width:100%}.progress-bar-animated{animation:1s linear infinite progress-bar-stripes}@media(prefers-reduced-motion: reduce){.progress-bar-animated{animation:none}}.list-group{--bs-list-group-color: #212529;--bs-list-group-bg: #fcfcfc;--bs-list-group-border-color: #eeeeee;--bs-list-group-border-width: 1px;--bs-list-group-border-radius: 0.25rem;--bs-list-group-item-padding-x: 1rem;--bs-list-group-item-padding-y: 0.5rem;--bs-list-group-action-color: rgba(33, 37, 41, 0.75);--bs-list-group-action-hover-color: #000;--bs-list-group-action-hover-bg: #f8f9fa;--bs-list-group-action-active-color: #212529;--bs-list-group-action-active-bg: #ddd;--bs-list-group-disabled-color: rgba(33, 37, 41, 0.75);--bs-list-group-disabled-bg: #eeeeee;--bs-list-group-active-color: #fff;--bs-list-group-active-bg: #d9230f;--bs-list-group-active-border-color: #d9230f;display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;padding-left:0;margin-bottom:0;border-radius:var(--bs-list-group-border-radius)}.list-group-numbered{list-style-type:none;counter-reset:section}.list-group-numbered>.list-group-item::before{content:counters(section, ".") ". ";counter-increment:section}.list-group-item-action{width:100%;color:var(--bs-list-group-action-color);text-align:inherit}.list-group-item-action:hover,.list-group-item-action:focus{z-index:1;color:var(--bs-list-group-action-hover-color);text-decoration:none;background-color:var(--bs-list-group-action-hover-bg)}.list-group-item-action:active{color:var(--bs-list-group-action-active-color);background-color:var(--bs-list-group-action-active-bg)}.list-group-item{position:relative;display:block;padding:var(--bs-list-group-item-padding-y) var(--bs-list-group-item-padding-x);color:var(--bs-list-group-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background-color:var(--bs-list-group-bg);border:var(--bs-list-group-border-width) solid var(--bs-list-group-border-color)}.list-group-item:first-child{border-top-left-radius:inherit;border-top-right-radius:inherit}.list-group-item:last-child{border-bottom-right-radius:inherit;border-bottom-left-radius:inherit}.list-group-item.disabled,.list-group-item:disabled{color:var(--bs-list-group-disabled-color);pointer-events:none;background-color:var(--bs-list-group-disabled-bg)}.list-group-item.active{z-index:2;color:var(--bs-list-group-active-color);background-color:var(--bs-list-group-active-bg);border-color:var(--bs-list-group-active-border-color)}.list-group-item+.list-group-item{border-top-width:0}.list-group-item+.list-group-item.active{margin-top:calc(-1*var(--bs-list-group-border-width));border-top-width:var(--bs-list-group-border-width)}.list-group-horizontal{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal>.list-group-item.active{margin-top:0}.list-group-horizontal>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal>.list-group-item+.list-group-item.active{margin-left:calc(-1*var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}@media(min-width: 576px){.list-group-horizontal-sm{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-sm>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-sm>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-sm>.list-group-item.active{margin-top:0}.list-group-horizontal-sm>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-sm>.list-group-item+.list-group-item.active{margin-left:calc(-1*var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media(min-width: 768px){.list-group-horizontal-md{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-md>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-md>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-md>.list-group-item.active{margin-top:0}.list-group-horizontal-md>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-md>.list-group-item+.list-group-item.active{margin-left:calc(-1*var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media(min-width: 992px){.list-group-horizontal-lg{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-lg>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-lg>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-lg>.list-group-item.active{margin-top:0}.list-group-horizontal-lg>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-lg>.list-group-item+.list-group-item.active{margin-left:calc(-1*var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media(min-width: 1200px){.list-group-horizontal-xl{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-xl>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-xl>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-xl>.list-group-item.active{margin-top:0}.list-group-horizontal-xl>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-xl>.list-group-item+.list-group-item.active{margin-left:calc(-1*var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media(min-width: 1400px){.list-group-horizontal-xxl{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-xxl>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-xxl>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-xxl>.list-group-item.active{margin-top:0}.list-group-horizontal-xxl>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-xxl>.list-group-item+.list-group-item.active{margin-left:calc(-1*var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}.list-group-flush{border-radius:0}.list-group-flush>.list-group-item{border-width:0 0 var(--bs-list-group-border-width)}.list-group-flush>.list-group-item:last-child{border-bottom-width:0}.list-group-item-default{--bs-list-group-color: var(--bs-default-text-emphasis);--bs-list-group-bg: var(--bs-default-bg-subtle);--bs-list-group-border-color: var(--bs-default-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-default-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-default-border-subtle);--bs-list-group-active-color: var(--bs-default-bg-subtle);--bs-list-group-active-bg: var(--bs-default-text-emphasis);--bs-list-group-active-border-color: var(--bs-default-text-emphasis)}.list-group-item-primary{--bs-list-group-color: var(--bs-primary-text-emphasis);--bs-list-group-bg: var(--bs-primary-bg-subtle);--bs-list-group-border-color: var(--bs-primary-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-primary-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-primary-border-subtle);--bs-list-group-active-color: var(--bs-primary-bg-subtle);--bs-list-group-active-bg: var(--bs-primary-text-emphasis);--bs-list-group-active-border-color: var(--bs-primary-text-emphasis)}.list-group-item-secondary{--bs-list-group-color: var(--bs-secondary-text-emphasis);--bs-list-group-bg: var(--bs-secondary-bg-subtle);--bs-list-group-border-color: var(--bs-secondary-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-secondary-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-secondary-border-subtle);--bs-list-group-active-color: var(--bs-secondary-bg-subtle);--bs-list-group-active-bg: var(--bs-secondary-text-emphasis);--bs-list-group-active-border-color: var(--bs-secondary-text-emphasis)}.list-group-item-success{--bs-list-group-color: var(--bs-success-text-emphasis);--bs-list-group-bg: var(--bs-success-bg-subtle);--bs-list-group-border-color: var(--bs-success-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-success-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-success-border-subtle);--bs-list-group-active-color: var(--bs-success-bg-subtle);--bs-list-group-active-bg: var(--bs-success-text-emphasis);--bs-list-group-active-border-color: var(--bs-success-text-emphasis)}.list-group-item-info{--bs-list-group-color: var(--bs-info-text-emphasis);--bs-list-group-bg: var(--bs-info-bg-subtle);--bs-list-group-border-color: var(--bs-info-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-info-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-info-border-subtle);--bs-list-group-active-color: var(--bs-info-bg-subtle);--bs-list-group-active-bg: var(--bs-info-text-emphasis);--bs-list-group-active-border-color: var(--bs-info-text-emphasis)}.list-group-item-warning{--bs-list-group-color: var(--bs-warning-text-emphasis);--bs-list-group-bg: var(--bs-warning-bg-subtle);--bs-list-group-border-color: var(--bs-warning-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-warning-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-warning-border-subtle);--bs-list-group-active-color: var(--bs-warning-bg-subtle);--bs-list-group-active-bg: var(--bs-warning-text-emphasis);--bs-list-group-active-border-color: var(--bs-warning-text-emphasis)}.list-group-item-danger{--bs-list-group-color: var(--bs-danger-text-emphasis);--bs-list-group-bg: var(--bs-danger-bg-subtle);--bs-list-group-border-color: var(--bs-danger-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-danger-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-danger-border-subtle);--bs-list-group-active-color: var(--bs-danger-bg-subtle);--bs-list-group-active-bg: var(--bs-danger-text-emphasis);--bs-list-group-active-border-color: var(--bs-danger-text-emphasis)}.list-group-item-light{--bs-list-group-color: var(--bs-light-text-emphasis);--bs-list-group-bg: var(--bs-light-bg-subtle);--bs-list-group-border-color: var(--bs-light-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-light-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-light-border-subtle);--bs-list-group-active-color: var(--bs-light-bg-subtle);--bs-list-group-active-bg: var(--bs-light-text-emphasis);--bs-list-group-active-border-color: var(--bs-light-text-emphasis)}.list-group-item-dark{--bs-list-group-color: var(--bs-dark-text-emphasis);--bs-list-group-bg: var(--bs-dark-bg-subtle);--bs-list-group-border-color: var(--bs-dark-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-dark-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-dark-border-subtle);--bs-list-group-active-color: var(--bs-dark-bg-subtle);--bs-list-group-active-bg: var(--bs-dark-text-emphasis);--bs-list-group-active-border-color: var(--bs-dark-text-emphasis)}.btn-close{--bs-btn-close-color: #000;--bs-btn-close-bg: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%23000'%3e%3cpath d='M.293.293a1 1 0 0 1 1.414 0L8 6.586 14.293.293a1 1 0 1 1 1.414 1.414L9.414 8l6.293 6.293a1 1 0 0 1-1.414 1.414L8 9.414l-6.293 6.293a1 1 0 0 1-1.414-1.414L6.586 8 .293 1.707a1 1 0 0 1 0-1.414z'/%3e%3c/svg%3e");--bs-btn-close-opacity: 0.5;--bs-btn-close-hover-opacity: 0.75;--bs-btn-close-focus-shadow: 0 0 0 0.25rem rgba(217, 35, 15, 0.25);--bs-btn-close-focus-opacity: 1;--bs-btn-close-disabled-opacity: 0.25;--bs-btn-close-white-filter: invert(1) grayscale(100%) brightness(200%);box-sizing:content-box;width:1em;height:1em;padding:.25em .25em;color:var(--bs-btn-close-color);background:rgba(0,0,0,0) var(--bs-btn-close-bg) center/1em auto 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this._getItems().indexOf(t)}_setActiveIndicatorElement(t){if(!this._indicatorsElement)return;const e=z.findOne(wt,this._indicatorsElement);e.classList.remove(yt),e.removeAttribute("aria-current");const i=z.findOne(`[data-bs-slide-to="${t}"]`,this._indicatorsElement);i&&(i.classList.add(yt),i.setAttribute("aria-current","true"))}_updateInterval(){const t=this._activeElement||this._getActive();if(!t)return;const e=Number.parseInt(t.getAttribute("data-bs-interval"),10);this._config.interval=e||this._config.defaultInterval}_slide(t,e=null){if(this._isSliding)return;const i=this._getActive(),n=t===at,s=e||b(this._getItems(),i,n,this._config.wrap);if(s===i)return;const o=this._getItemIndex(s),r=e=>N.trigger(this._element,e,{relatedTarget:s,direction:this._orderToDirection(t),from:this._getItemIndex(i),to:o});if(r(dt).defaultPrevented)return;if(!i||!s)return;const a=Boolean(this._interval);this.pause(),this._isSliding=!0,this._setActiveIndicatorElement(o),this._activeElement=s;const 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Object.keys(f).sort((function(t,e){return f[t]-f[e]}))}const si={name:"flip",enabled:!0,phase:"main",fn:function(t){var e=t.state,i=t.options,n=t.name;if(!e.modifiersData[n]._skip){for(var s=i.mainAxis,o=void 0===s||s,r=i.altAxis,a=void 0===r||r,l=i.fallbackPlacements,c=i.padding,h=i.boundary,d=i.rootBoundary,u=i.altBoundary,f=i.flipVariations,p=void 0===f||f,m=i.allowedAutoPlacements,g=e.options.placement,_=be(g),b=l||(_!==g&&p?function(t){if(be(t)===Kt)return[];var e=Ve(t);return[Qe(t),e,Qe(e)]}(g):[Ve(g)]),v=[g].concat(b).reduce((function(t,i){return t.concat(be(i)===Kt?ni(e,{placement:i,boundary:h,rootBoundary:d,padding:c,flipVariations:p,allowedAutoPlacements:m}):i)}),[]),y=e.rects.reference,w=e.rects.popper,A=new Map,E=!0,T=v[0],C=0;C=0,S=L?"width":"height",D=ii(e,{placement:O,boundary:h,rootBoundary:d,altBoundary:u,padding:c}),$=L?k?qt:Vt:k?Rt:zt;y[S]>w[S]&&($=Ve($));var I=Ve($),N=[];if(o&&N.push(D[x]<=0),a&&N.push(D[$]<=0,D[I]<=0),N.every((function(t){return t}))){T=O,E=!1;break}A.set(O,N)}if(E)for(var P=function(t){var e=v.find((function(e){var i=A.get(e);if(i)return i.slice(0,t).every((function(t){return t}))}));if(e)return T=e,"break"},M=p?3:1;M>0&&"break"!==P(M);M--);e.placement!==T&&(e.modifiersData[n]._skip=!0,e.placement=T,e.reset=!0)}},requiresIfExists:["offset"],data:{_skip:!1}};function oi(t,e,i){return void 0===i&&(i={x:0,y:0}),{top:t.top-e.height-i.y,right:t.right-e.width+i.x,bottom:t.bottom-e.height+i.y,left:t.left-e.width-i.x}}function ri(t){return[zt,qt,Rt,Vt].some((function(e){return t[e]>=0}))}const ai={name:"hide",enabled:!0,phase:"main",requiresIfExists:["preventOverflow"],fn:function(t){var 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m?m(Object.assign({},e.rects,{placement:e.placement})):m,O="number"==typeof C?{mainAxis:C,altAxis:C}:Object.assign({mainAxis:0,altAxis:0},C),x=e.modifiersData.offset?e.modifiersData.offset[e.placement]:null,k={x:0,y:0};if(A){if(o){var L,S="y"===y?zt:Vt,D="y"===y?Rt:qt,$="y"===y?"height":"width",I=A[y],N=I+g[S],P=I-g[D],M=f?-T[$]/2:0,j=b===Xt?E[$]:T[$],F=b===Xt?-T[$]:-E[$],H=e.elements.arrow,W=f&&H?Ce(H):{width:0,height:0},B=e.modifiersData["arrow#persistent"]?e.modifiersData["arrow#persistent"].padding:{top:0,right:0,bottom:0,left:0},z=B[S],R=B[D],q=Ne(0,E[$],W[$]),V=v?E[$]/2-M-q-z-O.mainAxis:j-q-z-O.mainAxis,K=v?-E[$]/2+M+q+R+O.mainAxis:F+q+R+O.mainAxis,Q=e.elements.arrow&&$e(e.elements.arrow),X=Q?"y"===y?Q.clientTop||0:Q.clientLeft||0:0,Y=null!=(L=null==x?void 0:x[y])?L:0,U=I+K-Y,G=Ne(f?ye(N,I+V-Y-X):N,I,f?ve(P,U):P);A[y]=G,k[y]=G-I}if(a){var J,Z="x"===y?zt:Vt,tt="x"===y?Rt:qt,et=A[w],it="y"===w?"height":"width",nt=et+g[Z],st=et-g[tt],ot=-1!==[zt,Vt].indexOf(_),rt=null!=(J=null==x?void 0:x[w])?J:0,at=ot?nt:et-E[it]-T[it]-rt+O.altAxis,lt=ot?et+E[it]+T[it]-rt-O.altAxis:st,ct=f&&ot?function(t,e,i){var n=Ne(t,e,i);return n>i?i:n}(at,et,lt):Ne(f?at:nt,et,f?lt:st);A[w]=ct,k[w]=ct-et}e.modifiersData[n]=k}},requiresIfExists:["offset"]};function di(t,e,i){void 0===i&&(i=!1);var n,s,o=me(e),r=me(e)&&function(t){var e=t.getBoundingClientRect(),i=we(e.width)/t.offsetWidth||1,n=we(e.height)/t.offsetHeight||1;return 1!==i||1!==n}(e),a=Le(e),l=Te(t,r,i),c={scrollLeft:0,scrollTop:0},h={x:0,y:0};return(o||!o&&!i)&&(("body"!==ue(e)||Ue(a))&&(c=(n=e)!==fe(n)&&me(n)?{scrollLeft:(s=n).scrollLeft,scrollTop:s.scrollTop}:Xe(n)),me(e)?((h=Te(e,!0)).x+=e.clientLeft,h.y+=e.clientTop):a&&(h.x=Ye(a))),{x:l.left+c.scrollLeft-h.x,y:l.top+c.scrollTop-h.y,width:l.width,height:l.height}}function ui(t){var e=new Map,i=new Set,n=[];function s(t){i.add(t.name),[].concat(t.requires||[],t.requiresIfExists||[]).forEach((function(t){if(!i.has(t)){var n=e.get(t);n&&s(n)}})),n.push(t)}return t.forEach((function(t){e.set(t.name,t)})),t.forEach((function(t){i.has(t.name)||s(t)})),n}var fi={placement:"bottom",modifiers:[],strategy:"absolute"};function pi(){for(var t=arguments.length,e=new Array(t),i=0;iNumber.parseInt(t,10))):"function"==typeof t?e=>t(e,this._element):t}_getPopperConfig(){const t={placement:this._getPlacement(),modifiers:[{name:"preventOverflow",options:{boundary:this._config.boundary}},{name:"offset",options:{offset:this._getOffset()}}]};return(this._inNavbar||"static"===this._config.display)&&(F.setDataAttribute(this._menu,"popper","static"),t.modifiers=[{name:"applyStyles",enabled:!1}]),{...t,...g(this._config.popperConfig,[t])}}_selectMenuItem({key:t,target:e}){const i=z.find(".dropdown-menu 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e=/input|textarea/i.test(t.target.tagName),i="Escape"===t.key,n=[Ei,Ti].includes(t.key);if(!n&&!i)return;if(e&&!i)return;t.preventDefault();const s=this.matches(Ii)?this:z.prev(this,Ii)[0]||z.next(this,Ii)[0]||z.findOne(Ii,t.delegateTarget.parentNode),o=qi.getOrCreateInstance(s);if(n)return t.stopPropagation(),o.show(),void o._selectMenuItem(t);o._isShown()&&(t.stopPropagation(),o.hide(),s.focus())}}N.on(document,Si,Ii,qi.dataApiKeydownHandler),N.on(document,Si,Pi,qi.dataApiKeydownHandler),N.on(document,Li,qi.clearMenus),N.on(document,Di,qi.clearMenus),N.on(document,Li,Ii,(function(t){t.preventDefault(),qi.getOrCreateInstance(this).toggle()})),m(qi);const Vi="backdrop",Ki="show",Qi=`mousedown.bs.${Vi}`,Xi={className:"modal-backdrop",clickCallback:null,isAnimated:!1,isVisible:!0,rootElement:"body"},Yi={className:"string",clickCallback:"(function|null)",isAnimated:"boolean",isVisible:"boolean",rootElement:"(element|string)"};class Ui extends H{constructor(t){super(),this._config=this._getConfig(t),this._isAppended=!1,this._element=null}static get Default(){return Xi}static get DefaultType(){return Yi}static get NAME(){return Vi}show(t){if(!this._config.isVisible)return void g(t);this._append();const e=this._getElement();this._config.isAnimated&&d(e),e.classList.add(Ki),this._emulateAnimation((()=>{g(t)}))}hide(t){this._config.isVisible?(this._getElement().classList.remove(Ki),this._emulateAnimation((()=>{this.dispose(),g(t)}))):g(t)}dispose(){this._isAppended&&(N.off(this._element,Qi),this._element.remove(),this._isAppended=!1)}_getElement(){if(!this._element){const t=document.createElement("div");t.className=this._config.className,this._config.isAnimated&&t.classList.add("fade"),this._element=t}return this._element}_configAfterMerge(t){return t.rootElement=r(t.rootElement),t}_append(){if(this._isAppended)return;const t=this._getElement();this._config.rootElement.append(t),N.on(t,Qi,(()=>{g(this._config.clickCallback)})),this._isAppended=!0}_emulateAnimation(t){_(t,this._getElement(),this._config.isAnimated)}}const Gi=".bs.focustrap",Ji=`focusin${Gi}`,Zi=`keydown.tab${Gi}`,tn="backward",en={autofocus:!0,trapElement:null},nn={autofocus:"boolean",trapElement:"element"};class sn extends H{constructor(t){super(),this._config=this._getConfig(t),this._isActive=!1,this._lastTabNavDirection=null}static get Default(){return en}static get DefaultType(){return nn}static get NAME(){return"focustrap"}activate(){this._isActive||(this._config.autofocus&&this._config.trapElement.focus(),N.off(document,Gi),N.on(document,Ji,(t=>this._handleFocusin(t))),N.on(document,Zi,(t=>this._handleKeydown(t))),this._isActive=!0)}deactivate(){this._isActive&&(this._isActive=!1,N.off(document,Gi))}_handleFocusin(t){const{trapElement:e}=this._config;if(t.target===document||t.target===e||e.contains(t.target))return;const i=z.focusableChildren(e);0===i.length?e.focus():this._lastTabNavDirection===tn?i[i.length-1].focus():i[0].focus()}_handleKeydown(t){"Tab"===t.key&&(this._lastTabNavDirection=t.shiftKey?tn:"forward")}}const on=".fixed-top, .fixed-bottom, .is-fixed, .sticky-top",rn=".sticky-top",an="padding-right",ln="margin-right";class cn{constructor(){this._element=document.body}getWidth(){const t=document.documentElement.clientWidth;return Math.abs(window.innerWidth-t)}hide(){const t=this.getWidth();this._disableOverFlow(),this._setElementAttributes(this._element,an,(e=>e+t)),this._setElementAttributes(on,an,(e=>e+t)),this._setElementAttributes(rn,ln,(e=>e-t))}reset(){this._resetElementAttributes(this._element,"overflow"),this._resetElementAttributes(this._element,an),this._resetElementAttributes(on,an),this._resetElementAttributes(rn,ln)}isOverflowing(){return this.getWidth()>0}_disableOverFlow(){this._saveInitialAttribute(this._element,"overflow"),this._element.style.overflow="hidden"}_setElementAttributes(t,e,i){const n=this.getWidth();this._applyManipulationCallback(t,(t=>{if(t!==this._element&&window.innerWidth>t.clientWidth+n)return;this._saveInitialAttribute(t,e);const s=window.getComputedStyle(t).getPropertyValue(e);t.style.setProperty(e,`${i(Number.parseFloat(s))}px`)}))}_saveInitialAttribute(t,e){const i=t.style.getPropertyValue(e);i&&F.setDataAttribute(t,e,i)}_resetElementAttributes(t,e){this._applyManipulationCallback(t,(t=>{const i=F.getDataAttribute(t,e);null!==i?(F.removeDataAttribute(t,e),t.style.setProperty(e,i)):t.style.removeProperty(e)}))}_applyManipulationCallback(t,e){if(o(t))e(t);else for(const i of z.find(t,this._element))e(i)}}const hn=".bs.modal",dn=`hide${hn}`,un=`hidePrevented${hn}`,fn=`hidden${hn}`,pn=`show${hn}`,mn=`shown${hn}`,gn=`resize${hn}`,_n=`click.dismiss${hn}`,bn=`mousedown.dismiss${hn}`,vn=`keydown.dismiss${hn}`,yn=`click${hn}.data-api`,wn="modal-open",An="show",En="modal-static",Tn={backdrop:!0,focus:!0,keyboard:!0},Cn={backdrop:"(boolean|string)",focus:"boolean",keyboard:"boolean"};class On extends W{constructor(t,e){super(t,e),this._dialog=z.findOne(".modal-dialog",this._element),this._backdrop=this._initializeBackDrop(),this._focustrap=this._initializeFocusTrap(),this._isShown=!1,this._isTransitioning=!1,this._scrollBar=new cn,this._addEventListeners()}static get Default(){return Tn}static get DefaultType(){return Cn}static get NAME(){return"modal"}toggle(t){return this._isShown?this.hide():this.show(t)}show(t){this._isShown||this._isTransitioning||N.trigger(this._element,pn,{relatedTarget:t}).defaultPrevented||(this._isShown=!0,this._isTransitioning=!0,this._scrollBar.hide(),document.body.classList.add(wn),this._adjustDialog(),this._backdrop.show((()=>this._showElement(t))))}hide(){this._isShown&&!this._isTransitioning&&(N.trigger(this._element,dn).defaultPrevented||(this._isShown=!1,this._isTransitioning=!0,this._focustrap.deactivate(),this._element.classList.remove(An),this._queueCallback((()=>this._hideModal()),this._element,this._isAnimated())))}dispose(){N.off(window,hn),N.off(this._dialog,hn),this._backdrop.dispose(),this._focustrap.deactivate(),super.dispose()}handleUpdate(){this._adjustDialog()}_initializeBackDrop(){return new Ui({isVisible:Boolean(this._config.backdrop),isAnimated:this._isAnimated()})}_initializeFocusTrap(){return new sn({trapElement:this._element})}_showElement(t){document.body.contains(this._element)||document.body.append(this._element),this._element.style.display="block",this._element.removeAttribute("aria-hidden"),this._element.setAttribute("aria-modal",!0),this._element.setAttribute("role","dialog"),this._element.scrollTop=0;const e=z.findOne(".modal-body",this._dialog);e&&(e.scrollTop=0),d(this._element),this._element.classList.add(An),this._queueCallback((()=>{this._config.focus&&this._focustrap.activate(),this._isTransitioning=!1,N.trigger(this._element,mn,{relatedTarget:t})}),this._dialog,this._isAnimated())}_addEventListeners(){N.on(this._element,vn,(t=>{"Escape"===t.key&&(this._config.keyboard?this.hide():this._triggerBackdropTransition())})),N.on(window,gn,(()=>{this._isShown&&!this._isTransitioning&&this._adjustDialog()})),N.on(this._element,bn,(t=>{N.one(this._element,_n,(e=>{this._element===t.target&&this._element===e.target&&("static"!==this._config.backdrop?this._config.backdrop&&this.hide():this._triggerBackdropTransition())}))}))}_hideModal(){this._element.style.display="none",this._element.setAttribute("aria-hidden",!0),this._element.removeAttribute("aria-modal"),this._element.removeAttribute("role"),this._isTransitioning=!1,this._backdrop.hide((()=>{document.body.classList.remove(wn),this._resetAdjustments(),this._scrollBar.reset(),N.trigger(this._element,fn)}))}_isAnimated(){return this._element.classList.contains("fade")}_triggerBackdropTransition(){if(N.trigger(this._element,un).defaultPrevented)return;const t=this._element.scrollHeight>document.documentElement.clientHeight,e=this._element.style.overflowY;"hidden"===e||this._element.classList.contains(En)||(t||(this._element.style.overflowY="hidden"),this._element.classList.add(En),this._queueCallback((()=>{this._element.classList.remove(En),this._queueCallback((()=>{this._element.style.overflowY=e}),this._dialog)}),this._dialog),this._element.focus())}_adjustDialog(){const t=this._element.scrollHeight>document.documentElement.clientHeight,e=this._scrollBar.getWidth(),i=e>0;if(i&&!t){const t=p()?"paddingLeft":"paddingRight";this._element.style[t]=`${e}px`}if(!i&&t){const t=p()?"paddingRight":"paddingLeft";this._element.style[t]=`${e}px`}}_resetAdjustments(){this._element.style.paddingLeft="",this._element.style.paddingRight=""}static jQueryInterface(t,e){return this.each((function(){const i=On.getOrCreateInstance(this,t);if("string"==typeof t){if(void 0===i[t])throw new TypeError(`No method named "${t}"`);i[t](e)}}))}}N.on(document,yn,'[data-bs-toggle="modal"]',(function(t){const e=z.getElementFromSelector(this);["A","AREA"].includes(this.tagName)&&t.preventDefault(),N.one(e,pn,(t=>{t.defaultPrevented||N.one(e,fn,(()=>{a(this)&&this.focus()}))}));const i=z.findOne(".modal.show");i&&On.getInstance(i).hide(),On.getOrCreateInstance(e).toggle(this)})),R(On),m(On);const xn=".bs.offcanvas",kn=".data-api",Ln=`load${xn}${kn}`,Sn="show",Dn="showing",$n="hiding",In=".offcanvas.show",Nn=`show${xn}`,Pn=`shown${xn}`,Mn=`hide${xn}`,jn=`hidePrevented${xn}`,Fn=`hidden${xn}`,Hn=`resize${xn}`,Wn=`click${xn}${kn}`,Bn=`keydown.dismiss${xn}`,zn={backdrop:!0,keyboard:!0,scroll:!1},Rn={backdrop:"(boolean|string)",keyboard:"boolean",scroll:"boolean"};class qn extends W{constructor(t,e){super(t,e),this._isShown=!1,this._backdrop=this._initializeBackDrop(),this._focustrap=this._initializeFocusTrap(),this._addEventListeners()}static get Default(){return zn}static get DefaultType(){return Rn}static get NAME(){return"offcanvas"}toggle(t){return this._isShown?this.hide():this.show(t)}show(t){this._isShown||N.trigger(this._element,Nn,{relatedTarget:t}).defaultPrevented||(this._isShown=!0,this._backdrop.show(),this._config.scroll||(new cn).hide(),this._element.setAttribute("aria-modal",!0),this._element.setAttribute("role","dialog"),this._element.classList.add(Dn),this._queueCallback((()=>{this._config.scroll&&!this._config.backdrop||this._focustrap.activate(),this._element.classList.add(Sn),this._element.classList.remove(Dn),N.trigger(this._element,Pn,{relatedTarget:t})}),this._element,!0))}hide(){this._isShown&&(N.trigger(this._element,Mn).defaultPrevented||(this._focustrap.deactivate(),this._element.blur(),this._isShown=!1,this._element.classList.add($n),this._backdrop.hide(),this._queueCallback((()=>{this._element.classList.remove(Sn,$n),this._element.removeAttribute("aria-modal"),this._element.removeAttribute("role"),this._config.scroll||(new cn).reset(),N.trigger(this._element,Fn)}),this._element,!0)))}dispose(){this._backdrop.dispose(),this._focustrap.deactivate(),super.dispose()}_initializeBackDrop(){const t=Boolean(this._config.backdrop);return new Ui({className:"offcanvas-backdrop",isVisible:t,isAnimated:!0,rootElement:this._element.parentNode,clickCallback:t?()=>{"static"!==this._config.backdrop?this.hide():N.trigger(this._element,jn)}:null})}_initializeFocusTrap(){return new sn({trapElement:this._element})}_addEventListeners(){N.on(this._element,Bn,(t=>{"Escape"===t.key&&(this._config.keyboard?this.hide():N.trigger(this._element,jn))}))}static jQueryInterface(t){return this.each((function(){const e=qn.getOrCreateInstance(this,t);if("string"==typeof t){if(void 0===e[t]||t.startsWith("_")||"constructor"===t)throw new TypeError(`No method named "${t}"`);e[t](this)}}))}}N.on(document,Wn,'[data-bs-toggle="offcanvas"]',(function(t){const e=z.getElementFromSelector(this);if(["A","AREA"].includes(this.tagName)&&t.preventDefault(),l(this))return;N.one(e,Fn,(()=>{a(this)&&this.focus()}));const i=z.findOne(In);i&&i!==e&&qn.getInstance(i).hide(),qn.getOrCreateInstance(e).toggle(this)})),N.on(window,Ln,(()=>{for(const t of z.find(In))qn.getOrCreateInstance(t).show()})),N.on(window,Hn,(()=>{for(const t of z.find("[aria-modal][class*=show][class*=offcanvas-]"))"fixed"!==getComputedStyle(t).position&&qn.getOrCreateInstance(t).hide()})),R(qn),m(qn);const Vn={"*":["class","dir","id","lang","role",/^aria-[\w-]*$/i],a:["target","href","title","rel"],area:[],b:[],br:[],col:[],code:[],div:[],em:[],hr:[],h1:[],h2:[],h3:[],h4:[],h5:[],h6:[],i:[],img:["src","srcset","alt","title","width","height"],li:[],ol:[],p:[],pre:[],s:[],small:[],span:[],sub:[],sup:[],strong:[],u:[],ul:[]},Kn=new Set(["background","cite","href","itemtype","longdesc","poster","src","xlink:href"]),Qn=/^(?!javascript:)(?:[a-z0-9+.-]+:|[^&:/?#]*(?:[/?#]|$))/i,Xn=(t,e)=>{const i=t.nodeName.toLowerCase();return e.includes(i)?!Kn.has(i)||Boolean(Qn.test(t.nodeValue)):e.filter((t=>t instanceof RegExp)).some((t=>t.test(i)))},Yn={allowList:Vn,content:{},extraClass:"",html:!1,sanitize:!0,sanitizeFn:null,template:"
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")),e}_typeCheckConfig(t){super._typeCheckConfig(t),this._checkContent(t.content)}_checkContent(t){for(const[e,i]of Object.entries(t))super._typeCheckConfig({selector:e,entry:i},Gn)}_setContent(t,e,i){const n=z.findOne(i,t);n&&((e=this._resolvePossibleFunction(e))?o(e)?this._putElementInTemplate(r(e),n):this._config.html?n.innerHTML=this._maybeSanitize(e):n.textContent=e:n.remove())}_maybeSanitize(t){return this._config.sanitize?function(t,e,i){if(!t.length)return t;if(i&&"function"==typeof i)return i(t);const n=(new window.DOMParser).parseFromString(t,"text/html"),s=[].concat(...n.body.querySelectorAll("*"));for(const t of s){const i=t.nodeName.toLowerCase();if(!Object.keys(e).includes(i)){t.remove();continue}const n=[].concat(...t.attributes),s=[].concat(e["*"]||[],e[i]||[]);for(const e of n)Xn(e,s)||t.removeAttribute(e.nodeName)}return n.body.innerHTML}(t,this._config.allowList,this._config.sanitizeFn):t}_resolvePossibleFunction(t){return g(t,[this])}_putElementInTemplate(t,e){if(this._config.html)return e.innerHTML="",void e.append(t);e.textContent=t.textContent}}const Zn=new Set(["sanitize","allowList","sanitizeFn"]),ts="fade",es="show",is=".modal",ns="hide.bs.modal",ss="hover",os="focus",rs={AUTO:"auto",TOP:"top",RIGHT:p()?"left":"right",BOTTOM:"bottom",LEFT:p()?"right":"left"},as={allowList:Vn,animation:!0,boundary:"clippingParents",container:!1,customClass:"",delay:0,fallbackPlacements:["top","right","bottom","left"],html:!1,offset:[0,6],placement:"top",popperConfig:null,sanitize:!0,sanitizeFn:null,selector:!1,template:'',title:"",trigger:"hover focus"},ls={allowList:"object",animation:"boolean",boundary:"(string|element)",container:"(string|element|boolean)",customClass:"(string|function)",delay:"(number|object)",fallbackPlacements:"array",html:"boolean",offset:"(array|string|function)",placement:"(string|function)",popperConfig:"(null|object|function)",sanitize:"boolean",sanitizeFn:"(null|function)",selector:"(string|boolean)",template:"string",title:"(string|element|function)",trigger:"string"};class cs extends W{constructor(t,e){if(void 0===vi)throw new TypeError("Bootstrap's tooltips require Popper (https://popper.js.org)");super(t,e),this._isEnabled=!0,this._timeout=0,this._isHovered=null,this._activeTrigger={},this._popper=null,this._templateFactory=null,this._newContent=null,this.tip=null,this._setListeners(),this._config.selector||this._fixTitle()}static get Default(){return as}static get DefaultType(){return ls}static get NAME(){return"tooltip"}enable(){this._isEnabled=!0}disable(){this._isEnabled=!1}toggleEnabled(){this._isEnabled=!this._isEnabled}toggle(){this._isEnabled&&(this._activeTrigger.click=!this._activeTrigger.click,this._isShown()?this._leave():this._enter())}dispose(){clearTimeout(this._timeout),N.off(this._element.closest(is),ns,this._hideModalHandler),this._element.getAttribute("data-bs-original-title")&&this._element.setAttribute("title",this._element.getAttribute("data-bs-original-title")),this._disposePopper(),super.dispose()}show(){if("none"===this._element.style.display)throw new Error("Please use show on visible elements");if(!this._isWithContent()||!this._isEnabled)return;const t=N.trigger(this._element,this.constructor.eventName("show")),e=(c(this._element)||this._element.ownerDocument.documentElement).contains(this._element);if(t.defaultPrevented||!e)return;this._disposePopper();const i=this._getTipElement();this._element.setAttribute("aria-describedby",i.getAttribute("id"));const{container:n}=this._config;if(this._element.ownerDocument.documentElement.contains(this.tip)||(n.append(i),N.trigger(this._element,this.constructor.eventName("inserted"))),this._popper=this._createPopper(i),i.classList.add(es),"ontouchstart"in document.documentElement)for(const t of[].concat(...document.body.children))N.on(t,"mouseover",h);this._queueCallback((()=>{N.trigger(this._element,this.constructor.eventName("shown")),!1===this._isHovered&&this._leave(),this._isHovered=!1}),this.tip,this._isAnimated())}hide(){if(this._isShown()&&!N.trigger(this._element,this.constructor.eventName("hide")).defaultPrevented){if(this._getTipElement().classList.remove(es),"ontouchstart"in document.documentElement)for(const t of[].concat(...document.body.children))N.off(t,"mouseover",h);this._activeTrigger.click=!1,this._activeTrigger[os]=!1,this._activeTrigger[ss]=!1,this._isHovered=null,this._queueCallback((()=>{this._isWithActiveTrigger()||(this._isHovered||this._disposePopper(),this._element.removeAttribute("aria-describedby"),N.trigger(this._element,this.constructor.eventName("hidden")))}),this.tip,this._isAnimated())}}update(){this._popper&&this._popper.update()}_isWithContent(){return Boolean(this._getTitle())}_getTipElement(){return this.tip||(this.tip=this._createTipElement(this._newContent||this._getContentForTemplate())),this.tip}_createTipElement(t){const e=this._getTemplateFactory(t).toHtml();if(!e)return null;e.classList.remove(ts,es),e.classList.add(`bs-${this.constructor.NAME}-auto`);const i=(t=>{do{t+=Math.floor(1e6*Math.random())}while(document.getElementById(t));return t})(this.constructor.NAME).toString();return e.setAttribute("id",i),this._isAnimated()&&e.classList.add(ts),e}setContent(t){this._newContent=t,this._isShown()&&(this._disposePopper(),this.show())}_getTemplateFactory(t){return this._templateFactory?this._templateFactory.changeContent(t):this._templateFactory=new Jn({...this._config,content:t,extraClass:this._resolvePossibleFunction(this._config.customClass)}),this._templateFactory}_getContentForTemplate(){return{".tooltip-inner":this._getTitle()}}_getTitle(){return this._resolvePossibleFunction(this._config.title)||this._element.getAttribute("data-bs-original-title")}_initializeOnDelegatedTarget(t){return this.constructor.getOrCreateInstance(t.delegateTarget,this._getDelegateConfig())}_isAnimated(){return this._config.animation||this.tip&&this.tip.classList.contains(ts)}_isShown(){return this.tip&&this.tip.classList.contains(es)}_createPopper(t){const e=g(this._config.placement,[this,t,this._element]),i=rs[e.toUpperCase()];return bi(this._element,t,this._getPopperConfig(i))}_getOffset(){const{offset:t}=this._config;return"string"==typeof t?t.split(",").map((t=>Number.parseInt(t,10))):"function"==typeof t?e=>t(e,this._element):t}_resolvePossibleFunction(t){return g(t,[this._element])}_getPopperConfig(t){const e={placement:t,modifiers:[{name:"flip",options:{fallbackPlacements:this._config.fallbackPlacements}},{name:"offset",options:{offset:this._getOffset()}},{name:"preventOverflow",options:{boundary:this._config.boundary}},{name:"arrow",options:{element:`.${this.constructor.NAME}-arrow`}},{name:"preSetPlacement",enabled:!0,phase:"beforeMain",fn:t=>{this._getTipElement().setAttribute("data-popper-placement",t.state.placement)}}]};return{...e,...g(this._config.popperConfig,[e])}}_setListeners(){const t=this._config.trigger.split(" ");for(const e of t)if("click"===e)N.on(this._element,this.constructor.eventName("click"),this._config.selector,(t=>{this._initializeOnDelegatedTarget(t).toggle()}));else if("manual"!==e){const t=e===ss?this.constructor.eventName("mouseenter"):this.constructor.eventName("focusin"),i=e===ss?this.constructor.eventName("mouseleave"):this.constructor.eventName("focusout");N.on(this._element,t,this._config.selector,(t=>{const e=this._initializeOnDelegatedTarget(t);e._activeTrigger["focusin"===t.type?os:ss]=!0,e._enter()})),N.on(this._element,i,this._config.selector,(t=>{const e=this._initializeOnDelegatedTarget(t);e._activeTrigger["focusout"===t.type?os:ss]=e._element.contains(t.relatedTarget),e._leave()}))}this._hideModalHandler=()=>{this._element&&this.hide()},N.on(this._element.closest(is),ns,this._hideModalHandler)}_fixTitle(){const t=this._element.getAttribute("title");t&&(this._element.getAttribute("aria-label")||this._element.textContent.trim()||this._element.setAttribute("aria-label",t),this._element.setAttribute("data-bs-original-title",t),this._element.removeAttribute("title"))}_enter(){this._isShown()||this._isHovered?this._isHovered=!0:(this._isHovered=!0,this._setTimeout((()=>{this._isHovered&&this.show()}),this._config.delay.show))}_leave(){this._isWithActiveTrigger()||(this._isHovered=!1,this._setTimeout((()=>{this._isHovered||this.hide()}),this._config.delay.hide))}_setTimeout(t,e){clearTimeout(this._timeout),this._timeout=setTimeout(t,e)}_isWithActiveTrigger(){return Object.values(this._activeTrigger).includes(!0)}_getConfig(t){const e=F.getDataAttributes(this._element);for(const t of Object.keys(e))Zn.has(t)&&delete e[t];return t={...e,..."object"==typeof t&&t?t:{}},t=this._mergeConfigObj(t),t=this._configAfterMerge(t),this._typeCheckConfig(t),t}_configAfterMerge(t){return t.container=!1===t.container?document.body:r(t.container),"number"==typeof t.delay&&(t.delay={show:t.delay,hide:t.delay}),"number"==typeof t.title&&(t.title=t.title.toString()),"number"==typeof t.content&&(t.content=t.content.toString()),t}_getDelegateConfig(){const t={};for(const[e,i]of Object.entries(this._config))this.constructor.Default[e]!==i&&(t[e]=i);return t.selector=!1,t.trigger="manual",t}_disposePopper(){this._popper&&(this._popper.destroy(),this._popper=null),this.tip&&(this.tip.remove(),this.tip=null)}static jQueryInterface(t){return this.each((function(){const e=cs.getOrCreateInstance(this,t);if("string"==typeof t){if(void 0===e[t])throw new TypeError(`No method named "${t}"`);e[t]()}}))}}m(cs);const hs={...cs.Default,content:"",offset:[0,8],placement:"right",template:'',trigger:"click"},ds={...cs.DefaultType,content:"(null|string|element|function)"};class us extends cs{static get Default(){return hs}static get DefaultType(){return ds}static get 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e=this._observableSections.get(t.target.hash);if(e){t.preventDefault();const i=this._rootElement||window,n=e.offsetTop-this._element.offsetTop;if(i.scrollTo)return void i.scrollTo({top:n,behavior:"smooth"});i.scrollTop=n}})))}_getNewObserver(){const t={root:this._rootElement,threshold:this._config.threshold,rootMargin:this._config.rootMargin};return new IntersectionObserver((t=>this._observerCallback(t)),t)}_observerCallback(t){const e=t=>this._targetLinks.get(`#${t.target.id}`),i=t=>{this._previousScrollData.visibleEntryTop=t.target.offsetTop,this._process(e(t))},n=(this._rootElement||document.documentElement).scrollTop,s=n>=this._previousScrollData.parentScrollTop;this._previousScrollData.parentScrollTop=n;for(const o of t){if(!o.isIntersecting){this._activeTarget=null,this._clearActiveClass(e(o));continue}const t=o.target.offsetTop>=this._previousScrollData.visibleEntryTop;if(s&&t){if(i(o),!n)return}else s||t||i(o)}}_initializeTargetsAndObservables(){this._targetLinks=new Map,this._observableSections=new Map;const t=z.find(bs,this._config.target);for(const e of t){if(!e.hash||l(e))continue;const t=z.findOne(decodeURI(e.hash),this._element);a(t)&&(this._targetLinks.set(decodeURI(e.hash),e),this._observableSections.set(e.hash,t))}}_process(t){this._activeTarget!==t&&(this._clearActiveClass(this._config.target),this._activeTarget=t,t.classList.add(_s),this._activateParents(t),N.trigger(this._element,ps,{relatedTarget:t}))}_activateParents(t){if(t.classList.contains("dropdown-item"))z.findOne(".dropdown-toggle",t.closest(".dropdown")).classList.add(_s);else for(const e of z.parents(t,".nav, .list-group"))for(const t of z.prev(e,ys))t.classList.add(_s)}_clearActiveClass(t){t.classList.remove(_s);const e=z.find(`${bs}.${_s}`,t);for(const t of e)t.classList.remove(_s)}static jQueryInterface(t){return this.each((function(){const e=Es.getOrCreateInstance(this,t);if("string"==typeof t){if(void 0===e[t]||t.startsWith("_")||"constructor"===t)throw new TypeError(`No method named "${t}"`);e[t]()}}))}}N.on(window,gs,(()=>{for(const t of z.find('[data-bs-spy="scroll"]'))Es.getOrCreateInstance(t)})),m(Es);const Ts=".bs.tab",Cs=`hide${Ts}`,Os=`hidden${Ts}`,xs=`show${Ts}`,ks=`shown${Ts}`,Ls=`click${Ts}`,Ss=`keydown${Ts}`,Ds=`load${Ts}`,$s="ArrowLeft",Is="ArrowRight",Ns="ArrowUp",Ps="ArrowDown",Ms="Home",js="End",Fs="active",Hs="fade",Ws="show",Bs=":not(.dropdown-toggle)",zs='[data-bs-toggle="tab"], [data-bs-toggle="pill"], [data-bs-toggle="list"]',Rs=`.nav-link${Bs}, .list-group-item${Bs}, [role="tab"]${Bs}, ${zs}`,qs=`.${Fs}[data-bs-toggle="tab"], .${Fs}[data-bs-toggle="pill"], .${Fs}[data-bs-toggle="list"]`;class Vs extends W{constructor(t){super(t),this._parent=this._element.closest('.list-group, .nav, [role="tablist"]'),this._parent&&(this._setInitialAttributes(this._parent,this._getChildren()),N.on(this._element,Ss,(t=>this._keydown(t))))}static get NAME(){return"tab"}show(){const t=this._element;if(this._elemIsActive(t))return;const e=this._getActiveElem(),i=e?N.trigger(e,Cs,{relatedTarget:t}):null;N.trigger(t,xs,{relatedTarget:e}).defaultPrevented||i&&i.defaultPrevented||(this._deactivate(e,t),this._activate(t,e))}_activate(t,e){t&&(t.classList.add(Fs),this._activate(z.getElementFromSelector(t)),this._queueCallback((()=>{"tab"===t.getAttribute("role")?(t.removeAttribute("tabindex"),t.setAttribute("aria-selected",!0),this._toggleDropDown(t,!0),N.trigger(t,ks,{relatedTarget:e})):t.classList.add(Ws)}),t,t.classList.contains(Hs)))}_deactivate(t,e){t&&(t.classList.remove(Fs),t.blur(),this._deactivate(z.getElementFromSelector(t)),this._queueCallback((()=>{"tab"===t.getAttribute("role")?(t.setAttribute("aria-selected",!1),t.setAttribute("tabindex","-1"),this._toggleDropDown(t,!1),N.trigger(t,Os,{relatedTarget:e})):t.classList.remove(Ws)}),t,t.classList.contains(Hs)))}_keydown(t){if(![$s,Is,Ns,Ps,Ms,js].includes(t.key))return;t.stopPropagation(),t.preventDefault();const e=this._getChildren().filter((t=>!l(t)));let i;if([Ms,js].includes(t.key))i=e[t.key===Ms?0:e.length-1];else{const n=[Is,Ps].includes(t.key);i=b(e,t.target,n,!0)}i&&(i.focus({preventScroll:!0}),Vs.getOrCreateInstance(i).show())}_getChildren(){return z.find(Rs,this._parent)}_getActiveElem(){return this._getChildren().find((t=>this._elemIsActive(t)))||null}_setInitialAttributes(t,e){this._setAttributeIfNotExists(t,"role","tablist");for(const t of e)this._setInitialAttributesOnChild(t)}_setInitialAttributesOnChild(t){t=this._getInnerElement(t);const e=this._elemIsActive(t),i=this._getOuterElement(t);t.setAttribute("aria-selected",e),i!==t&&this._setAttributeIfNotExists(i,"role","presentation"),e||t.setAttribute("tabindex","-1"),this._setAttributeIfNotExists(t,"role","tab"),this._setInitialAttributesOnTargetPanel(t)}_setInitialAttributesOnTargetPanel(t){const 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R(ro),m(ro),{Alert:Q,Button:Y,Carousel:xt,Collapse:Bt,Dropdown:qi,Modal:On,Offcanvas:qn,Popover:us,ScrollSpy:Es,Tab:Vs,Toast:ro,Tooltip:cs}})); -//# sourceMappingURL=bootstrap.bundle.min.js.map \ No newline at end of file diff --git a/_site/site_libs/clipboard/clipboard.min.js b/_site/site_libs/clipboard/clipboard.min.js deleted file mode 100644 index 1103f81..0000000 --- a/_site/site_libs/clipboard/clipboard.min.js +++ /dev/null @@ -1,7 +0,0 @@ -/*! - * clipboard.js v2.0.11 - * https://clipboardjs.com/ - * - * Licensed MIT © Zeno Rocha - */ -!function(t,e){"object"==typeof exports&&"object"==typeof module?module.exports=e():"function"==typeof define&&define.amd?define([],e):"object"==typeof exports?exports.ClipboardJS=e():t.ClipboardJS=e()}(this,function(){return n={686:function(t,e,n){"use strict";n.d(e,{default:function(){return b}});var e=n(279),i=n.n(e),e=n(370),u=n.n(e),e=n(817),r=n.n(e);function c(t){try{return document.execCommand(t)}catch(t){return}}var a=function(t){t=r()(t);return c("cut"),t};function o(t,e){var n,o,t=(n=t,o="rtl"===document.documentElement.getAttribute("dir"),(t=document.createElement("textarea")).style.fontSize="12pt",t.style.border="0",t.style.padding="0",t.style.margin="0",t.style.position="absolute",t.style[o?"right":"left"]="-9999px",o=window.pageYOffset||document.documentElement.scrollTop,t.style.top="".concat(o,"px"),t.setAttribute("readonly",""),t.value=n,t);return e.container.appendChild(t),e=r()(t),c("copy"),t.remove(),e}var f=function(t){var e=1.container-fluid.crosstalk-bscols{margin-left:auto;margin-right:auto}.crosstalk-input-checkboxgroup .crosstalk-options-group .crosstalk-options-column{display:inline-block;padding-right:12px;vertical-align:top}@media only screen and (max-width: 480px){.crosstalk-input-checkboxgroup .crosstalk-options-group .crosstalk-options-column{display:block;padding-right:inherit}}.crosstalk-input{margin-bottom:15px}.crosstalk-input .control-label{margin-bottom:0;vertical-align:middle}.crosstalk-input input[type="checkbox"]{margin:4px 0 0;margin-top:1px;line-height:normal}.crosstalk-input .checkbox{position:relative;display:block;margin-top:10px;margin-bottom:10px}.crosstalk-input .checkbox>label{padding-left:20px;margin-bottom:0;font-weight:400;cursor:pointer}.crosstalk-input .checkbox input[type="checkbox"],.crosstalk-input .checkbox-inline input[type="checkbox"]{position:absolute;margin-top:2px;margin-left:-20px}.crosstalk-input .checkbox+.checkbox{margin-top:-5px}.crosstalk-input .checkbox-inline{position:relative;display:inline-block;padding-left:20px;margin-bottom:0;font-weight:400;vertical-align:middle;cursor:pointer}.crosstalk-input .checkbox-inline+.checkbox-inline{margin-top:0;margin-left:10px} diff --git a/_site/site_libs/crosstalk-1.2.1/js/crosstalk.js b/_site/site_libs/crosstalk-1.2.1/js/crosstalk.js deleted file mode 100644 index fd9eb53..0000000 --- a/_site/site_libs/crosstalk-1.2.1/js/crosstalk.js +++ /dev/null @@ -1,1474 +0,0 @@ -(function(){function e(t,n,r){function s(o,u){if(!n[o]){if(!t[o]){var a=typeof require=="function"&&require;if(!u&&a)return a(o,!0);if(i)return i(o,!0);var f=new Error("Cannot find module '"+o+"'");throw f.code="MODULE_NOT_FOUND",f}var l=n[o]={exports:{}};t[o][0].call(l.exports,function(e){var n=t[o][1][e];return s(n?n:e)},l,l.exports,e,t,n,r)}return n[o].exports}var i=typeof require=="function"&&require;for(var o=0;o b) { - return 1; - } -} - -/** - * @private - */ - -var FilterSet = function () { - function FilterSet() { - _classCallCheck(this, FilterSet); - - this.reset(); - } - - _createClass(FilterSet, [{ - key: "reset", - value: function reset() { - // Key: handle ID, Value: array of selected keys, or null - this._handles = {}; - // Key: key string, Value: count of handles that include it - this._keys = {}; - this._value = null; - this._activeHandles = 0; - } - }, { - key: "update", - value: function update(handleId, keys) { - if (keys !== null) { - keys = keys.slice(0); // clone before sorting - keys.sort(naturalComparator); - } - - var _diffSortedLists = (0, _util.diffSortedLists)(this._handles[handleId], keys), - added = _diffSortedLists.added, - removed = _diffSortedLists.removed; - - this._handles[handleId] = keys; - - for (var i = 0; i < added.length; i++) { - this._keys[added[i]] = (this._keys[added[i]] || 0) + 1; - } - for (var _i = 0; _i < removed.length; _i++) { - this._keys[removed[_i]]--; - } - - this._updateValue(keys); - } - - /** - * @param {string[]} keys Sorted array of strings that indicate - * a superset of possible keys. - * @private - */ - - }, { - key: "_updateValue", - value: function _updateValue() { - var keys = arguments.length > 0 && arguments[0] !== undefined ? arguments[0] : this._allKeys; - - var handleCount = Object.keys(this._handles).length; - if (handleCount === 0) { - this._value = null; - } else { - this._value = []; - for (var i = 0; i < keys.length; i++) { - var count = this._keys[keys[i]]; - if (count === handleCount) { - this._value.push(keys[i]); - } - } - } - } - }, { - key: "clear", - value: function clear(handleId) { - if (typeof this._handles[handleId] === "undefined") { - return; - } - - var keys = this._handles[handleId]; - if (!keys) { - keys = []; - } - - for (var i = 0; i < keys.length; i++) { - this._keys[keys[i]]--; - } - delete this._handles[handleId]; - - this._updateValue(); - } - }, { - key: "value", - get: function get() { - return this._value; - } - }, { - key: "_allKeys", - get: function get() { - var allKeys = Object.keys(this._keys); - allKeys.sort(naturalComparator); - return allKeys; - } - }]); - - return FilterSet; -}(); - -exports.default = FilterSet; - -},{"./util":11}],4:[function(require,module,exports){ -(function (global){ -"use strict"; - -Object.defineProperty(exports, "__esModule", { - value: true -}); - -var _createClass = function () { function defineProperties(target, props) { for (var i = 0; i < props.length; i++) { var descriptor = props[i]; descriptor.enumerable = descriptor.enumerable || false; descriptor.configurable = true; if ("value" in descriptor) descriptor.writable = true; Object.defineProperty(target, descriptor.key, descriptor); } } return function (Constructor, protoProps, staticProps) { if (protoProps) defineProperties(Constructor.prototype, protoProps); if (staticProps) defineProperties(Constructor, staticProps); return Constructor; }; }(); - -var _typeof = typeof Symbol === "function" && typeof Symbol.iterator === "symbol" ? function (obj) { return typeof obj; } : function (obj) { return obj && typeof Symbol === "function" && obj.constructor === Symbol && obj !== Symbol.prototype ? "symbol" : typeof obj; }; - -exports.default = group; - -var _var2 = require("./var"); - -var _var3 = _interopRequireDefault(_var2); - -function _interopRequireDefault(obj) { return obj && obj.__esModule ? obj : { default: obj }; } - -function _classCallCheck(instance, Constructor) { if (!(instance instanceof Constructor)) { throw new TypeError("Cannot call a class as a function"); } } - -// Use a global so that multiple copies of crosstalk.js can be loaded and still -// have groups behave as singletons across all copies. -global.__crosstalk_groups = global.__crosstalk_groups || {}; -var groups = global.__crosstalk_groups; - -function group(groupName) { - if (groupName && typeof groupName === "string") { - if (!groups.hasOwnProperty(groupName)) { - groups[groupName] = new Group(groupName); - } - return groups[groupName]; - } else if ((typeof groupName === "undefined" ? "undefined" : _typeof(groupName)) === "object" && groupName._vars && groupName.var) { - // Appears to already be a group object - return groupName; - } else if (Array.isArray(groupName) && groupName.length == 1 && typeof groupName[0] === "string") { - return group(groupName[0]); - } else { - throw new Error("Invalid groupName argument"); - } -} - -var Group = function () { - function Group(name) { - _classCallCheck(this, Group); - - this.name = name; - this._vars = {}; - } - - _createClass(Group, [{ - key: "var", - value: function _var(name) { - if (!name || typeof name !== "string") { - throw new Error("Invalid var name"); - } - - if (!this._vars.hasOwnProperty(name)) this._vars[name] = new _var3.default(this, name); - return this._vars[name]; - } - }, { - key: "has", - value: function has(name) { - if (!name || typeof name !== "string") { - throw new Error("Invalid var name"); - } - - return this._vars.hasOwnProperty(name); - } - }]); - - return Group; -}(); - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{"./var":12}],5:[function(require,module,exports){ -(function (global){ -"use strict"; - -Object.defineProperty(exports, "__esModule", { - value: true -}); - -var _group = require("./group"); - -var _group2 = _interopRequireDefault(_group); - -var _selection = require("./selection"); - -var _filter = require("./filter"); - -var _input = require("./input"); - -require("./input_selectize"); - -require("./input_checkboxgroup"); - -require("./input_slider"); - -function _interopRequireDefault(obj) { return obj && obj.__esModule ? obj : { default: obj }; } - -var defaultGroup = (0, _group2.default)("default"); - -function var_(name) { - return defaultGroup.var(name); -} - -function has(name) { - return defaultGroup.has(name); -} - -if (global.Shiny) { - global.Shiny.addCustomMessageHandler("update-client-value", function (message) { - if (typeof message.group === "string") { - (0, _group2.default)(message.group).var(message.name).set(message.value); - } else { - var_(message.name).set(message.value); - } - }); -} - -var crosstalk = { - group: _group2.default, - var: var_, - has: has, - SelectionHandle: _selection.SelectionHandle, - FilterHandle: _filter.FilterHandle, - bind: _input.bind -}; - -/** - * @namespace crosstalk - */ -exports.default = crosstalk; - -global.crosstalk = crosstalk; - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{"./filter":2,"./group":4,"./input":6,"./input_checkboxgroup":7,"./input_selectize":8,"./input_slider":9,"./selection":10}],6:[function(require,module,exports){ -(function (global){ -"use strict"; - -Object.defineProperty(exports, "__esModule", { - value: true -}); -exports.register = register; -exports.bind = bind; -var $ = global.jQuery; - -var bindings = {}; - -function register(reg) { - bindings[reg.className] = reg; - if (global.document && global.document.readyState !== "complete") { - $(function () { - bind(); - }); - } else if (global.document) { - setTimeout(bind, 100); - } -} - -function bind() { - Object.keys(bindings).forEach(function (className) { - var binding = bindings[className]; - $("." + binding.className).not(".crosstalk-input-bound").each(function (i, el) { - bindInstance(binding, el); - }); - }); -} - -// Escape jQuery identifier -function $escape(val) { - return val.replace(/([!"#$%&'()*+,./:;<=>?@[\\\]^`{|}~])/g, "\\$1"); -} - -function bindEl(el) { - var $el = $(el); - Object.keys(bindings).forEach(function (className) { - if ($el.hasClass(className) && !$el.hasClass("crosstalk-input-bound")) { - var binding = bindings[className]; - bindInstance(binding, el); - } - }); -} - -function bindInstance(binding, el) { - var jsonEl = $(el).find("script[type='application/json'][data-for='" + $escape(el.id) + "']"); - var data = JSON.parse(jsonEl[0].innerText); - - var instance = binding.factory(el, data); - $(el).data("crosstalk-instance", instance); - $(el).addClass("crosstalk-input-bound"); -} - -if (global.Shiny) { - var inputBinding = new global.Shiny.InputBinding(); - var _$ = global.jQuery; - _$.extend(inputBinding, { - find: function find(scope) { - return _$(scope).find(".crosstalk-input"); - }, - initialize: function initialize(el) { - if (!_$(el).hasClass("crosstalk-input-bound")) { - bindEl(el); - } - }, - getId: function getId(el) { - return el.id; - }, - getValue: function getValue(el) {}, - setValue: function setValue(el, value) {}, - receiveMessage: function receiveMessage(el, data) {}, - subscribe: function subscribe(el, callback) { - _$(el).data("crosstalk-instance").resume(); - }, - unsubscribe: function unsubscribe(el) { - _$(el).data("crosstalk-instance").suspend(); - } - }); - global.Shiny.inputBindings.register(inputBinding, "crosstalk.inputBinding"); -} - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{}],7:[function(require,module,exports){ -(function (global){ -"use strict"; - -var _input = require("./input"); - -var input = _interopRequireWildcard(_input); - -var _filter = require("./filter"); - -function _interopRequireWildcard(obj) { if (obj && obj.__esModule) { return obj; } else { var newObj = {}; if (obj != null) { for (var key in obj) { if (Object.prototype.hasOwnProperty.call(obj, key)) newObj[key] = obj[key]; } } newObj.default = obj; return newObj; } } - -var $ = global.jQuery; - -input.register({ - className: "crosstalk-input-checkboxgroup", - - factory: function factory(el, data) { - /* - * map: {"groupA": ["keyA", "keyB", ...], ...} - * group: "ct-groupname" - */ - var ctHandle = new _filter.FilterHandle(data.group); - - var lastKnownKeys = void 0; - var $el = $(el); - $el.on("change", "input[type='checkbox']", function () { - var checked = $el.find("input[type='checkbox']:checked"); - if (checked.length === 0) { - lastKnownKeys = null; - ctHandle.clear(); - } else { - var keys = {}; - checked.each(function () { - data.map[this.value].forEach(function (key) { - keys[key] = true; - }); - }); - var keyArray = Object.keys(keys); - keyArray.sort(); - lastKnownKeys = keyArray; - ctHandle.set(keyArray); - } - }); - - return { - suspend: function suspend() { - ctHandle.clear(); - }, - resume: function resume() { - if (lastKnownKeys) ctHandle.set(lastKnownKeys); - } - }; - } -}); - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{"./filter":2,"./input":6}],8:[function(require,module,exports){ -(function (global){ -"use strict"; - -var _input = require("./input"); - -var input = _interopRequireWildcard(_input); - -var _util = require("./util"); - -var util = _interopRequireWildcard(_util); - -var _filter = require("./filter"); - -function _interopRequireWildcard(obj) { if (obj && obj.__esModule) { return obj; } else { var newObj = {}; if (obj != null) { for (var key in obj) { if (Object.prototype.hasOwnProperty.call(obj, key)) newObj[key] = obj[key]; } } newObj.default = obj; return newObj; } } - -var $ = global.jQuery; - -input.register({ - className: "crosstalk-input-select", - - factory: function factory(el, data) { - /* - * items: {value: [...], label: [...]} - * map: {"groupA": ["keyA", "keyB", ...], ...} - * group: "ct-groupname" - */ - - var first = [{ value: "", label: "(All)" }]; - var items = util.dataframeToD3(data.items); - var opts = { - options: first.concat(items), - valueField: "value", - labelField: "label", - searchField: "label" - }; - - var select = $(el).find("select")[0]; - - var selectize = $(select).selectize(opts)[0].selectize; - - var ctHandle = new _filter.FilterHandle(data.group); - - var lastKnownKeys = void 0; - selectize.on("change", function () { - if (selectize.items.length === 0) { - lastKnownKeys = null; - ctHandle.clear(); - } else { - var keys = {}; - selectize.items.forEach(function (group) { - data.map[group].forEach(function (key) { - keys[key] = true; - }); - }); - var keyArray = Object.keys(keys); - keyArray.sort(); - lastKnownKeys = keyArray; - ctHandle.set(keyArray); - } - }); - - return { - suspend: function suspend() { - ctHandle.clear(); - }, - resume: function resume() { - if (lastKnownKeys) ctHandle.set(lastKnownKeys); - } - }; - } -}); - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{"./filter":2,"./input":6,"./util":11}],9:[function(require,module,exports){ -(function (global){ -"use strict"; - -var _slicedToArray = function () { function sliceIterator(arr, i) { var _arr = []; var _n = true; var _d = false; var _e = undefined; try { for (var _i = arr[Symbol.iterator](), _s; !(_n = (_s = _i.next()).done); _n = true) { _arr.push(_s.value); if (i && _arr.length === i) break; } } catch (err) { _d = true; _e = err; } finally { try { if (!_n && _i["return"]) _i["return"](); } finally { if (_d) throw _e; } } return _arr; } return function (arr, i) { if (Array.isArray(arr)) { return arr; } else if (Symbol.iterator in Object(arr)) { return sliceIterator(arr, i); } else { throw new TypeError("Invalid attempt to destructure non-iterable instance"); } }; }(); - -var _input = require("./input"); - -var input = _interopRequireWildcard(_input); - -var _filter = require("./filter"); - -function _interopRequireWildcard(obj) { if (obj && obj.__esModule) { return obj; } else { var newObj = {}; if (obj != null) { for (var key in obj) { if (Object.prototype.hasOwnProperty.call(obj, key)) newObj[key] = obj[key]; } } newObj.default = obj; return newObj; } } - -var $ = global.jQuery; -var strftime = global.strftime; - -input.register({ - className: "crosstalk-input-slider", - - factory: function factory(el, data) { - /* - * map: {"groupA": ["keyA", "keyB", ...], ...} - * group: "ct-groupname" - */ - var ctHandle = new _filter.FilterHandle(data.group); - - var opts = {}; - var $el = $(el).find("input"); - var dataType = $el.data("data-type"); - var timeFormat = $el.data("time-format"); - var round = $el.data("round"); - var timeFormatter = void 0; - - // Set up formatting functions - if (dataType === "date") { - timeFormatter = strftime.utc(); - opts.prettify = function (num) { - return timeFormatter(timeFormat, new Date(num)); - }; - } else if (dataType === "datetime") { - var timezone = $el.data("timezone"); - if (timezone) timeFormatter = strftime.timezone(timezone);else timeFormatter = strftime; - - opts.prettify = function (num) { - return timeFormatter(timeFormat, new Date(num)); - }; - } else if (dataType === "number") { - if (typeof round !== "undefined") opts.prettify = function (num) { - var factor = Math.pow(10, round); - return Math.round(num * factor) / factor; - }; - } - - $el.ionRangeSlider(opts); - - function getValue() { - var result = $el.data("ionRangeSlider").result; - - // Function for converting numeric value from slider to appropriate type. - var convert = void 0; - var dataType = $el.data("data-type"); - if (dataType === "date") { - convert = function convert(val) { - return formatDateUTC(new Date(+val)); - }; - } else if (dataType === "datetime") { - convert = function convert(val) { - // Convert ms to s - return +val / 1000; - }; - } else { - convert = function convert(val) { - return +val; - }; - } - - if ($el.data("ionRangeSlider").options.type === "double") { - return [convert(result.from), convert(result.to)]; - } else { - return convert(result.from); - } - } - - var lastKnownKeys = null; - - $el.on("change.crosstalkSliderInput", function (event) { - if (!$el.data("updating") && !$el.data("animating")) { - var _getValue = getValue(), - _getValue2 = _slicedToArray(_getValue, 2), - from = _getValue2[0], - to = _getValue2[1]; - - var keys = []; - for (var i = 0; i < data.values.length; i++) { - var val = data.values[i]; - if (val >= from && val <= to) { - keys.push(data.keys[i]); - } - } - keys.sort(); - ctHandle.set(keys); - lastKnownKeys = keys; - } - }); - - // let $el = $(el); - // $el.on("change", "input[type="checkbox"]", function() { - // let checked = $el.find("input[type="checkbox"]:checked"); - // if (checked.length === 0) { - // ctHandle.clear(); - // } else { - // let keys = {}; - // checked.each(function() { - // data.map[this.value].forEach(function(key) { - // keys[key] = true; - // }); - // }); - // let keyArray = Object.keys(keys); - // keyArray.sort(); - // ctHandle.set(keyArray); - // } - // }); - - return { - suspend: function suspend() { - ctHandle.clear(); - }, - resume: function resume() { - if (lastKnownKeys) ctHandle.set(lastKnownKeys); - } - }; - } -}); - -// Convert a number to a string with leading zeros -function padZeros(n, digits) { - var str = n.toString(); - while (str.length < digits) { - str = "0" + str; - }return str; -} - -// Given a Date object, return a string in yyyy-mm-dd format, using the -// UTC date. This may be a day off from the date in the local time zone. -function formatDateUTC(date) { - if (date instanceof Date) { - return date.getUTCFullYear() + "-" + padZeros(date.getUTCMonth() + 1, 2) + "-" + padZeros(date.getUTCDate(), 2); - } else { - return null; - } -} - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{"./filter":2,"./input":6}],10:[function(require,module,exports){ -"use strict"; - -Object.defineProperty(exports, "__esModule", { - value: true -}); -exports.SelectionHandle = undefined; - -var _createClass = function () { function defineProperties(target, props) { for (var i = 0; i < props.length; i++) { var descriptor = props[i]; descriptor.enumerable = descriptor.enumerable || false; descriptor.configurable = true; if ("value" in descriptor) descriptor.writable = true; Object.defineProperty(target, descriptor.key, descriptor); } } return function (Constructor, protoProps, staticProps) { if (protoProps) defineProperties(Constructor.prototype, protoProps); if (staticProps) defineProperties(Constructor, staticProps); return Constructor; }; }(); - -var _events = require("./events"); - -var _events2 = _interopRequireDefault(_events); - -var _group = require("./group"); - -var _group2 = _interopRequireDefault(_group); - -var _util = require("./util"); - -var util = _interopRequireWildcard(_util); - -function _interopRequireWildcard(obj) { if (obj && obj.__esModule) { return obj; } else { var newObj = {}; if (obj != null) { for (var key in obj) { if (Object.prototype.hasOwnProperty.call(obj, key)) newObj[key] = obj[key]; } } newObj.default = obj; return newObj; } } - -function _interopRequireDefault(obj) { return obj && obj.__esModule ? obj : { default: obj }; } - -function _classCallCheck(instance, Constructor) { if (!(instance instanceof Constructor)) { throw new TypeError("Cannot call a class as a function"); } } - -/** - * Use this class to read and write (and listen for changes to) the selection - * for a Crosstalk group. This is intended to be used for linked brushing. - * - * If two (or more) `SelectionHandle` instances in the same webpage share the - * same group name, they will share the same state. Setting the selection using - * one `SelectionHandle` instance will result in the `value` property instantly - * changing across the others, and `"change"` event listeners on all instances - * (including the one that initiated the sending) will fire. - * - * @param {string} [group] - The name of the Crosstalk group, or if none, - * null or undefined (or any other falsy value). This can be changed later - * via the [SelectionHandle#setGroup](#setGroup) method. - * @param {Object} [extraInfo] - An object whose properties will be copied to - * the event object whenever an event is emitted. - */ -var SelectionHandle = exports.SelectionHandle = function () { - function SelectionHandle() { - var group = arguments.length > 0 && arguments[0] !== undefined ? arguments[0] : null; - var extraInfo = arguments.length > 1 && arguments[1] !== undefined ? arguments[1] : null; - - _classCallCheck(this, SelectionHandle); - - this._eventRelay = new _events2.default(); - this._emitter = new util.SubscriptionTracker(this._eventRelay); - - // Name of the group we're currently tracking, if any. Can change over time. - this._group = null; - // The Var we're currently tracking, if any. Can change over time. - this._var = null; - // The event handler subscription we currently have on var.on("change"). - this._varOnChangeSub = null; - - this._extraInfo = util.extend({ sender: this }, extraInfo); - - this.setGroup(group); - } - - /** - * Changes the Crosstalk group membership of this SelectionHandle. The group - * being switched away from (if any) will not have its selection value - * modified as a result of calling `setGroup`, even if this handle was the - * most recent handle to set the selection of the group. - * - * The group being switched to (if any) will also not have its selection value - * modified as a result of calling `setGroup`. If you want to set the - * selection value of the new group, call `set` explicitly. - * - * @param {string} group - The name of the Crosstalk group, or null (or - * undefined) to clear the group. - */ - - - _createClass(SelectionHandle, [{ - key: "setGroup", - value: function setGroup(group) { - var _this = this; - - // If group is unchanged, do nothing - if (this._group === group) return; - // Treat null, undefined, and other falsy values the same - if (!this._group && !group) return; - - if (this._var) { - this._var.off("change", this._varOnChangeSub); - this._var = null; - this._varOnChangeSub = null; - } - - this._group = group; - - if (group) { - this._var = (0, _group2.default)(group).var("selection"); - var sub = this._var.on("change", function (e) { - _this._eventRelay.trigger("change", e, _this); - }); - this._varOnChangeSub = sub; - } - } - - /** - * Retrieves the current selection for the group represented by this - * `SelectionHandle`. - * - * - If no selection is active, then this value will be falsy. - * - If a selection is active, but no data points are selected, then this - * value will be an empty array. - * - If a selection is active, and data points are selected, then the keys - * of the selected data points will be present in the array. - */ - - }, { - key: "_mergeExtraInfo", - - - /** - * Combines the given `extraInfo` (if any) with the handle's default - * `_extraInfo` (if any). - * @private - */ - value: function _mergeExtraInfo(extraInfo) { - // Important incidental effect: shallow clone is returned - return util.extend({}, this._extraInfo ? this._extraInfo : null, extraInfo ? extraInfo : null); - } - - /** - * Overwrites the current selection for the group, and raises the `"change"` - * event among all of the group's '`SelectionHandle` instances (including - * this one). - * - * @fires SelectionHandle#change - * @param {string[]} selectedKeys - Falsy, empty array, or array of keys (see - * {@link SelectionHandle#value}). - * @param {Object} [extraInfo] - Extra properties to be included on the event - * object that's passed to listeners (in addition to any options that were - * passed into the `SelectionHandle` constructor). - */ - - }, { - key: "set", - value: function set(selectedKeys, extraInfo) { - if (this._var) this._var.set(selectedKeys, this._mergeExtraInfo(extraInfo)); - } - - /** - * Overwrites the current selection for the group, and raises the `"change"` - * event among all of the group's '`SelectionHandle` instances (including - * this one). - * - * @fires SelectionHandle#change - * @param {Object} [extraInfo] - Extra properties to be included on the event - * object that's passed to listeners (in addition to any that were passed - * into the `SelectionHandle` constructor). - */ - - }, { - key: "clear", - value: function clear(extraInfo) { - if (this._var) this.set(void 0, this._mergeExtraInfo(extraInfo)); - } - - /** - * Subscribes to events on this `SelectionHandle`. - * - * @param {string} eventType - Indicates the type of events to listen to. - * Currently, only `"change"` is supported. - * @param {SelectionHandle~listener} listener - The callback function that - * will be invoked when the event occurs. - * @return {string} - A token to pass to {@link SelectionHandle#off} to cancel - * this subscription. - */ - - }, { - key: "on", - value: function on(eventType, listener) { - return this._emitter.on(eventType, listener); - } - - /** - * Cancels event subscriptions created by {@link SelectionHandle#on}. - * - * @param {string} eventType - The type of event to unsubscribe. - * @param {string|SelectionHandle~listener} listener - Either the callback - * function previously passed into {@link SelectionHandle#on}, or the - * string that was returned from {@link SelectionHandle#on}. - */ - - }, { - key: "off", - value: function off(eventType, listener) { - return this._emitter.off(eventType, listener); - } - - /** - * Shuts down the `SelectionHandle` object. - * - * Removes all event listeners that were added through this handle. - */ - - }, { - key: "close", - value: function close() { - this._emitter.removeAllListeners(); - this.setGroup(null); - } - }, { - key: "value", - get: function get() { - return this._var ? this._var.get() : null; - } - }]); - - return SelectionHandle; -}(); - -/** - * @callback SelectionHandle~listener - * @param {Object} event - An object containing details of the event. For - * `"change"` events, this includes the properties `value` (the new - * value of the selection, or `undefined` if no selection is active), - * `oldValue` (the previous value of the selection), and `sender` (the - * `SelectionHandle` instance that made the change). - */ - -/** - * @event SelectionHandle#change - * @type {object} - * @property {object} value - The new value of the selection, or `undefined` - * if no selection is active. - * @property {object} oldValue - The previous value of the selection. - * @property {SelectionHandle} sender - The `SelectionHandle` instance that - * changed the value. - */ - -},{"./events":1,"./group":4,"./util":11}],11:[function(require,module,exports){ -"use strict"; - -Object.defineProperty(exports, "__esModule", { - value: true -}); - -var _createClass = function () { function defineProperties(target, props) { for (var i = 0; i < props.length; i++) { var descriptor = props[i]; descriptor.enumerable = descriptor.enumerable || false; descriptor.configurable = true; if ("value" in descriptor) descriptor.writable = true; Object.defineProperty(target, descriptor.key, descriptor); } } return function (Constructor, protoProps, staticProps) { if (protoProps) defineProperties(Constructor.prototype, protoProps); if (staticProps) defineProperties(Constructor, staticProps); return Constructor; }; }(); - -var _typeof = typeof Symbol === "function" && typeof Symbol.iterator === "symbol" ? function (obj) { return typeof obj; } : function (obj) { return obj && typeof Symbol === "function" && obj.constructor === Symbol && obj !== Symbol.prototype ? "symbol" : typeof obj; }; - -exports.extend = extend; -exports.checkSorted = checkSorted; -exports.diffSortedLists = diffSortedLists; -exports.dataframeToD3 = dataframeToD3; - -function _classCallCheck(instance, Constructor) { if (!(instance instanceof Constructor)) { throw new TypeError("Cannot call a class as a function"); } } - -function extend(target) { - for (var _len = arguments.length, sources = Array(_len > 1 ? _len - 1 : 0), _key = 1; _key < _len; _key++) { - sources[_key - 1] = arguments[_key]; - } - - for (var i = 0; i < sources.length; i++) { - var src = sources[i]; - if (typeof src === "undefined" || src === null) continue; - - for (var key in src) { - if (src.hasOwnProperty(key)) { - target[key] = src[key]; - } - } - } - return target; -} - -function checkSorted(list) { - for (var i = 1; i < list.length; i++) { - if (list[i] <= list[i - 1]) { - throw new Error("List is not sorted or contains duplicate"); - } - } -} - -function diffSortedLists(a, b) { - var i_a = 0; - var i_b = 0; - - if (!a) a = []; - if (!b) b = []; - - var a_only = []; - var b_only = []; - - checkSorted(a); - checkSorted(b); - - while (i_a < a.length && i_b < b.length) { - if (a[i_a] === b[i_b]) { - i_a++; - i_b++; - } else if (a[i_a] < b[i_b]) { - a_only.push(a[i_a++]); - } else { - b_only.push(b[i_b++]); - } - } - - if (i_a < a.length) a_only = a_only.concat(a.slice(i_a)); - if (i_b < b.length) b_only = b_only.concat(b.slice(i_b)); - return { - removed: a_only, - added: b_only - }; -} - -// Convert from wide: { colA: [1,2,3], colB: [4,5,6], ... } -// to long: [ {colA: 1, colB: 4}, {colA: 2, colB: 5}, ... ] -function dataframeToD3(df) { - var names = []; - var length = void 0; - for (var name in df) { - if (df.hasOwnProperty(name)) names.push(name); - if (_typeof(df[name]) !== "object" || typeof df[name].length === "undefined") { - throw new Error("All fields must be arrays"); - } else if (typeof length !== "undefined" && length !== df[name].length) { - throw new Error("All fields must be arrays of the same length"); - } - length = df[name].length; - } - var results = []; - var item = void 0; - for (var row = 0; row < length; row++) { - item = {}; - for (var col = 0; col < names.length; col++) { - item[names[col]] = df[names[col]][row]; - } - results.push(item); - } - return results; -} - -/** - * Keeps track of all event listener additions/removals and lets all active - * listeners be removed with a single operation. - * - * @private - */ - -var SubscriptionTracker = exports.SubscriptionTracker = function () { - function SubscriptionTracker(emitter) { - _classCallCheck(this, SubscriptionTracker); - - this._emitter = emitter; - this._subs = {}; - } - - _createClass(SubscriptionTracker, [{ - key: "on", - value: function on(eventType, listener) { - var sub = this._emitter.on(eventType, listener); - this._subs[sub] = eventType; - return sub; - } - }, { - key: "off", - value: function off(eventType, listener) { - var sub = this._emitter.off(eventType, listener); - if (sub) { - delete this._subs[sub]; - } - return sub; - } - }, { - key: "removeAllListeners", - value: function removeAllListeners() { - var _this = this; - - var current_subs = this._subs; - this._subs = {}; - Object.keys(current_subs).forEach(function (sub) { - _this._emitter.off(current_subs[sub], sub); - }); - } - }]); - - return SubscriptionTracker; -}(); - -},{}],12:[function(require,module,exports){ -(function (global){ -"use strict"; - -Object.defineProperty(exports, "__esModule", { - value: true -}); - -var _typeof = typeof Symbol === "function" && typeof Symbol.iterator === "symbol" ? function (obj) { return typeof obj; } : function (obj) { return obj && typeof Symbol === "function" && obj.constructor === Symbol && obj !== Symbol.prototype ? "symbol" : typeof obj; }; - -var _createClass = function () { function defineProperties(target, props) { for (var i = 0; i < props.length; i++) { var descriptor = props[i]; descriptor.enumerable = descriptor.enumerable || false; descriptor.configurable = true; if ("value" in descriptor) descriptor.writable = true; Object.defineProperty(target, descriptor.key, descriptor); } } return function (Constructor, protoProps, staticProps) { if (protoProps) defineProperties(Constructor.prototype, protoProps); if (staticProps) defineProperties(Constructor, staticProps); return Constructor; }; }(); - -var _events = require("./events"); - -var _events2 = _interopRequireDefault(_events); - -function _interopRequireDefault(obj) { return obj && obj.__esModule ? obj : { default: obj }; } - -function _classCallCheck(instance, Constructor) { if (!(instance instanceof Constructor)) { throw new TypeError("Cannot call a class as a function"); } } - -var Var = function () { - function Var(group, name, /*optional*/value) { - _classCallCheck(this, Var); - - this._group = group; - this._name = name; - this._value = value; - this._events = new _events2.default(); - } - - _createClass(Var, [{ - key: "get", - value: function get() { - return this._value; - } - }, { - key: "set", - value: function set(value, /*optional*/event) { - if (this._value === value) { - // Do nothing; the value hasn't changed - return; - } - var oldValue = this._value; - this._value = value; - // Alert JavaScript listeners that the value has changed - var evt = {}; - if (event && (typeof event === "undefined" ? "undefined" : _typeof(event)) === "object") { - for (var k in event) { - if (event.hasOwnProperty(k)) evt[k] = event[k]; - } - } - evt.oldValue = oldValue; - evt.value = value; - this._events.trigger("change", evt, this); - - // TODO: Make this extensible, to let arbitrary back-ends know that - // something has changed - if (global.Shiny && global.Shiny.onInputChange) { - global.Shiny.onInputChange(".clientValue-" + (this._group.name !== null ? this._group.name + "-" : "") + this._name, typeof value === "undefined" ? null : value); - } - } - }, { - key: "on", - value: function on(eventType, listener) { - return this._events.on(eventType, listener); - } - }, { - key: "off", - value: function off(eventType, listener) { - return this._events.off(eventType, listener); - } - }]); - - return Var; -}(); - -exports.default = Var; - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{"./events":1}]},{},[5]) -//# sourceMappingURL=crosstalk.js.map diff --git a/_site/site_libs/crosstalk-1.2.1/js/crosstalk.js.map b/_site/site_libs/crosstalk-1.2.1/js/crosstalk.js.map deleted file mode 100644 index cff94f0..0000000 --- a/_site/site_libs/crosstalk-1.2.1/js/crosstalk.js.map +++ /dev/null @@ -1,37 +0,0 @@ -{ - "version": 3, - "sources": [ - "node_modules/browser-pack/_prelude.js", - "javascript/src/events.js", - "javascript/src/filter.js", - "javascript/src/filterset.js", - "javascript/src/group.js", - "javascript/src/index.js", - "javascript/src/input.js", - "javascript/src/input_checkboxgroup.js", - "javascript/src/input_selectize.js", - "javascript/src/input_slider.js", - "javascript/src/selection.js", - "javascript/src/util.js", - "javascript/src/var.js" - ], - "names": [], - "mappings": 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- "file": "generated.js", - "sourceRoot": "", - "sourcesContent": [ - "(function(){function e(t,n,r){function s(o,u){if(!n[o]){if(!t[o]){var a=typeof require==\"function\"&&require;if(!u&&a)return a(o,!0);if(i)return i(o,!0);var f=new Error(\"Cannot find module '\"+o+\"'\");throw f.code=\"MODULE_NOT_FOUND\",f}var l=n[o]={exports:{}};t[o][0].call(l.exports,function(e){var n=t[o][1][e];return s(n?n:e)},l,l.exports,e,t,n,r)}return n[o].exports}var i=typeof require==\"function\"&&require;for(var o=0;o {\n this._eventRelay.trigger(\"change\", e, this);\n });\n this._varOnChangeSub = sub;\n }\n }\n\n /**\n * Combine the given `extraInfo` (if any) with the handle's default\n * `_extraInfo` (if any).\n * @private\n */\n _mergeExtraInfo(extraInfo) {\n return util.extend({},\n this._extraInfo ? this._extraInfo : null,\n extraInfo ? extraInfo : null);\n }\n\n /**\n * Close the handle. This clears this handle's contribution to the filter set,\n * and unsubscribes all event listeners.\n */\n close() {\n this._emitter.removeAllListeners();\n this.clear();\n this.setGroup(null);\n }\n\n /**\n * Clear this handle's contribution to the filter set.\n *\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any options that were\n * passed into the `FilterHandle` constructor).\n * \n * @fires FilterHandle#change\n */\n clear(extraInfo) {\n if (!this._filterSet)\n return;\n this._filterSet.clear(this._id);\n this._onChange(extraInfo);\n }\n\n /**\n * Set this handle's contribution to the filter set. This array should consist\n * of the keys of the rows that _should_ be displayed; any keys that are not\n * present in the array will be considered _filtered out_. Note that multiple\n * `FilterHandle` instances in the group may each contribute an array of keys,\n * and only those keys that appear in _all_ of the arrays make it through the\n * filter.\n *\n * @param {string[]} keys - Empty array, or array of keys. To clear the\n * filter, don't pass an empty array; instead, use the\n * {@link FilterHandle#clear} method.\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any options that were\n * passed into the `FilterHandle` constructor).\n * \n * @fires FilterHandle#change\n */\n set(keys, extraInfo) {\n if (!this._filterSet)\n return;\n this._filterSet.update(this._id, keys);\n this._onChange(extraInfo);\n }\n\n /**\n * @return {string[]|null} - Either: 1) an array of keys that made it through\n * all of the `FilterHandle` instances, or, 2) `null`, which means no filter\n * is being applied (all data should be displayed).\n */\n get filteredKeys() {\n return this._filterSet ? this._filterSet.value : null;\n }\n\n /**\n * Subscribe to events on this `FilterHandle`.\n *\n * @param {string} eventType - Indicates the type of events to listen to.\n * Currently, only `\"change\"` is supported.\n * @param {FilterHandle~listener} listener - The callback function that\n * will be invoked when the event occurs.\n * @return {string} - A token to pass to {@link FilterHandle#off} to cancel\n * this subscription.\n */\n on(eventType, listener) {\n return this._emitter.on(eventType, listener);\n }\n\n /**\n * Cancel event subscriptions created by {@link FilterHandle#on}.\n *\n * @param {string} eventType - The type of event to unsubscribe.\n * @param {string|FilterHandle~listener} listener - Either the callback\n * function previously passed into {@link FilterHandle#on}, or the\n * string that was returned from {@link FilterHandle#on}.\n */\n off(eventType, listener) {\n return this._emitter.off(eventType, listener);\n }\n\n _onChange(extraInfo) {\n if (!this._filterSet)\n return;\n this._filterVar.set(this._filterSet.value, this._mergeExtraInfo(extraInfo));\n }\n\n /**\n * @callback FilterHandle~listener\n * @param {Object} event - An object containing details of the event. For\n * `\"change\"` events, this includes the properties `value` (the new\n * value of the filter set, or `null` if no filter set is active),\n * `oldValue` (the previous value of the filter set), and `sender` (the\n * `FilterHandle` instance that made the change).\n */\n\n}\n\n/**\n * @event FilterHandle#change\n * @type {object}\n * @property {object} value - The new value of the filter set, or `null`\n * if no filter set is active.\n * @property {object} oldValue - The previous value of the filter set.\n * @property {FilterHandle} sender - The `FilterHandle` instance that\n * changed the value.\n */\n", - "import { diffSortedLists } from \"./util\";\n\nfunction naturalComparator(a, b) {\n if (a === b) {\n return 0;\n } else if (a < b) {\n return -1;\n } else if (a > b) {\n return 1;\n }\n}\n\n/**\n * @private\n */\nexport default class FilterSet {\n constructor() {\n this.reset();\n }\n\n reset() {\n // Key: handle ID, Value: array of selected keys, or null\n this._handles = {};\n // Key: key string, Value: count of handles that include it\n this._keys = {};\n this._value = null;\n this._activeHandles = 0;\n }\n\n get value() {\n return this._value;\n }\n\n update(handleId, keys) {\n if (keys !== null) {\n keys = keys.slice(0); // clone before sorting\n keys.sort(naturalComparator);\n }\n\n let {added, removed} = diffSortedLists(this._handles[handleId], keys);\n this._handles[handleId] = keys;\n\n for (let i = 0; i < added.length; i++) {\n this._keys[added[i]] = (this._keys[added[i]] || 0) + 1;\n }\n for (let i = 0; i < removed.length; i++) {\n this._keys[removed[i]]--;\n }\n\n this._updateValue(keys);\n }\n\n /**\n * @param {string[]} keys Sorted array of strings that indicate\n * a superset of possible keys.\n * @private\n */\n _updateValue(keys = this._allKeys) {\n let handleCount = Object.keys(this._handles).length;\n if (handleCount === 0) {\n this._value = null;\n } else {\n this._value = [];\n for (let i = 0; i < keys.length; i++) {\n let count = this._keys[keys[i]];\n if (count === handleCount) {\n this._value.push(keys[i]);\n }\n }\n }\n }\n\n clear(handleId) {\n if (typeof(this._handles[handleId]) === \"undefined\") {\n return;\n }\n\n let keys = this._handles[handleId];\n if (!keys) {\n keys = [];\n }\n\n for (let i = 0; i < keys.length; i++) {\n this._keys[keys[i]]--;\n }\n delete this._handles[handleId];\n\n this._updateValue();\n }\n\n get _allKeys() {\n let allKeys = Object.keys(this._keys);\n allKeys.sort(naturalComparator);\n return allKeys;\n }\n}\n", - "import Var from \"./var\";\n\n// Use a global so that multiple copies of crosstalk.js can be loaded and still\n// have groups behave as singletons across all copies.\nglobal.__crosstalk_groups = global.__crosstalk_groups || {};\nlet groups = global.__crosstalk_groups;\n\nexport default function group(groupName) {\n if (groupName && typeof(groupName) === \"string\") {\n if (!groups.hasOwnProperty(groupName)) {\n groups[groupName] = new Group(groupName);\n }\n return groups[groupName];\n } else if (typeof(groupName) === \"object\" && groupName._vars && groupName.var) {\n // Appears to already be a group object\n return groupName;\n } else if (Array.isArray(groupName) &&\n groupName.length == 1 &&\n typeof(groupName[0]) === \"string\") {\n return group(groupName[0]);\n } else {\n throw new Error(\"Invalid groupName argument\");\n }\n}\n\nclass Group {\n constructor(name) {\n this.name = name;\n this._vars = {};\n }\n\n var(name) {\n if (!name || typeof(name) !== \"string\") {\n throw new Error(\"Invalid var name\");\n }\n\n if (!this._vars.hasOwnProperty(name))\n this._vars[name] = new Var(this, name);\n return this._vars[name];\n }\n\n has(name) {\n if (!name || typeof(name) !== \"string\") {\n throw new Error(\"Invalid var name\");\n }\n\n return this._vars.hasOwnProperty(name);\n }\n}\n", - "import group from \"./group\";\nimport { SelectionHandle } from \"./selection\";\nimport { FilterHandle } from \"./filter\";\nimport { bind } from \"./input\";\nimport \"./input_selectize\";\nimport \"./input_checkboxgroup\";\nimport \"./input_slider\";\n\nconst defaultGroup = group(\"default\");\n\nfunction var_(name) {\n return defaultGroup.var(name);\n}\n\nfunction has(name) {\n return defaultGroup.has(name);\n}\n\nif (global.Shiny) {\n global.Shiny.addCustomMessageHandler(\"update-client-value\", function(message) {\n if (typeof(message.group) === \"string\") {\n group(message.group).var(message.name).set(message.value);\n } else {\n var_(message.name).set(message.value);\n }\n });\n}\n\nconst crosstalk = {\n group: group,\n var: var_,\n has: has,\n SelectionHandle: SelectionHandle,\n FilterHandle: FilterHandle,\n bind: bind\n};\n\n/**\n * @namespace crosstalk\n */\nexport default crosstalk;\nglobal.crosstalk = crosstalk;\n", - "let $ = global.jQuery;\n\nlet bindings = {};\n\nexport function register(reg) {\n bindings[reg.className] = reg;\n if (global.document && global.document.readyState !== \"complete\") {\n $(() => {\n bind();\n });\n } else if (global.document) {\n setTimeout(bind, 100);\n }\n}\n\nexport function bind() {\n Object.keys(bindings).forEach(function(className) {\n let binding = bindings[className];\n $(\".\" + binding.className).not(\".crosstalk-input-bound\").each(function(i, el) {\n bindInstance(binding, el);\n });\n });\n}\n\n// Escape jQuery identifier\nfunction $escape(val) {\n return val.replace(/([!\"#$%&'()*+,./:;<=>?@[\\\\\\]^`{|}~])/g, \"\\\\$1\");\n}\n\nfunction bindEl(el) {\n let $el = $(el);\n Object.keys(bindings).forEach(function(className) {\n if ($el.hasClass(className) && !$el.hasClass(\"crosstalk-input-bound\")) {\n let binding = bindings[className];\n bindInstance(binding, el);\n }\n });\n}\n\nfunction bindInstance(binding, el) {\n let jsonEl = $(el).find(\"script[type='application/json'][data-for='\" + $escape(el.id) + \"']\");\n let data = JSON.parse(jsonEl[0].innerText);\n\n let instance = binding.factory(el, data);\n $(el).data(\"crosstalk-instance\", instance);\n $(el).addClass(\"crosstalk-input-bound\");\n}\n\nif (global.Shiny) {\n let inputBinding = new global.Shiny.InputBinding();\n let $ = global.jQuery;\n $.extend(inputBinding, {\n find: function(scope) {\n return $(scope).find(\".crosstalk-input\");\n },\n initialize: function(el) {\n if (!$(el).hasClass(\"crosstalk-input-bound\")) {\n bindEl(el);\n }\n },\n getId: function(el) {\n return el.id;\n },\n getValue: function(el) {\n\n },\n setValue: function(el, value) {\n\n },\n receiveMessage: function(el, data) {\n\n },\n subscribe: function(el, callback) {\n $(el).data(\"crosstalk-instance\").resume();\n },\n unsubscribe: function(el) {\n $(el).data(\"crosstalk-instance\").suspend();\n }\n });\n global.Shiny.inputBindings.register(inputBinding, \"crosstalk.inputBinding\");\n}\n", - "import * as input from \"./input\";\nimport { FilterHandle } from \"./filter\";\n\nlet $ = global.jQuery;\n\ninput.register({\n className: \"crosstalk-input-checkboxgroup\",\n\n factory: function(el, data) {\n /*\n * map: {\"groupA\": [\"keyA\", \"keyB\", ...], ...}\n * group: \"ct-groupname\"\n */\n let ctHandle = new FilterHandle(data.group);\n\n let lastKnownKeys;\n let $el = $(el);\n $el.on(\"change\", \"input[type='checkbox']\", function() {\n let checked = $el.find(\"input[type='checkbox']:checked\");\n if (checked.length === 0) {\n lastKnownKeys = null;\n ctHandle.clear();\n } else {\n let keys = {};\n checked.each(function() {\n data.map[this.value].forEach(function(key) {\n keys[key] = true;\n });\n });\n let keyArray = Object.keys(keys);\n keyArray.sort();\n lastKnownKeys = keyArray;\n ctHandle.set(keyArray);\n }\n });\n\n return {\n suspend: function() {\n ctHandle.clear();\n },\n resume: function() {\n if (lastKnownKeys)\n ctHandle.set(lastKnownKeys);\n }\n };\n }\n});\n", - "import * as input from \"./input\";\nimport * as util from \"./util\";\nimport { FilterHandle } from \"./filter\";\n\nlet $ = global.jQuery;\n\ninput.register({\n className: \"crosstalk-input-select\",\n\n factory: function(el, data) {\n /*\n * items: {value: [...], label: [...]}\n * map: {\"groupA\": [\"keyA\", \"keyB\", ...], ...}\n * group: \"ct-groupname\"\n */\n\n let first = [{value: \"\", label: \"(All)\"}];\n let items = util.dataframeToD3(data.items);\n let opts = {\n options: first.concat(items),\n valueField: \"value\",\n labelField: \"label\",\n searchField: \"label\"\n };\n\n let select = $(el).find(\"select\")[0];\n\n let selectize = $(select).selectize(opts)[0].selectize;\n\n let ctHandle = new FilterHandle(data.group);\n\n let lastKnownKeys;\n selectize.on(\"change\", function() {\n if (selectize.items.length === 0) {\n lastKnownKeys = null;\n ctHandle.clear();\n } else {\n let keys = {};\n selectize.items.forEach(function(group) {\n data.map[group].forEach(function(key) {\n keys[key] = true;\n });\n });\n let keyArray = Object.keys(keys);\n keyArray.sort();\n lastKnownKeys = keyArray;\n ctHandle.set(keyArray);\n }\n });\n\n return {\n suspend: function() {\n ctHandle.clear();\n },\n resume: function() {\n if (lastKnownKeys)\n ctHandle.set(lastKnownKeys);\n }\n };\n }\n});\n", - "import * as input from \"./input\";\nimport { FilterHandle } from \"./filter\";\n\nlet $ = global.jQuery;\nlet strftime = global.strftime;\n\ninput.register({\n className: \"crosstalk-input-slider\",\n\n factory: function(el, data) {\n /*\n * map: {\"groupA\": [\"keyA\", \"keyB\", ...], ...}\n * group: \"ct-groupname\"\n */\n let ctHandle = new FilterHandle(data.group);\n\n let opts = {};\n let $el = $(el).find(\"input\");\n let dataType = $el.data(\"data-type\");\n let timeFormat = $el.data(\"time-format\");\n let round = $el.data(\"round\");\n let timeFormatter;\n\n // Set up formatting functions\n if (dataType === \"date\") {\n timeFormatter = strftime.utc();\n opts.prettify = function(num) {\n return timeFormatter(timeFormat, new Date(num));\n };\n\n } else if (dataType === \"datetime\") {\n let timezone = $el.data(\"timezone\");\n if (timezone)\n timeFormatter = strftime.timezone(timezone);\n else\n timeFormatter = strftime;\n\n opts.prettify = function(num) {\n return timeFormatter(timeFormat, new Date(num));\n };\n } else if (dataType === \"number\") {\n if (typeof round !== \"undefined\")\n opts.prettify = function(num) {\n let factor = Math.pow(10, round);\n return Math.round(num * factor) / factor;\n };\n }\n\n $el.ionRangeSlider(opts);\n\n function getValue() {\n let result = $el.data(\"ionRangeSlider\").result;\n\n // Function for converting numeric value from slider to appropriate type.\n let convert;\n let dataType = $el.data(\"data-type\");\n if (dataType === \"date\") {\n convert = function(val) {\n return formatDateUTC(new Date(+val));\n };\n } else if (dataType === \"datetime\") {\n convert = function(val) {\n // Convert ms to s\n return +val / 1000;\n };\n } else {\n convert = function(val) { return +val; };\n }\n\n if ($el.data(\"ionRangeSlider\").options.type === \"double\") {\n return [convert(result.from), convert(result.to)];\n } else {\n return convert(result.from);\n }\n }\n\n let lastKnownKeys = null;\n\n $el.on(\"change.crosstalkSliderInput\", function(event) {\n if (!$el.data(\"updating\") && !$el.data(\"animating\")) {\n let [from, to] = getValue();\n let keys = [];\n for (let i = 0; i < data.values.length; i++) {\n let val = data.values[i];\n if (val >= from && val <= to) {\n keys.push(data.keys[i]);\n }\n }\n keys.sort();\n ctHandle.set(keys);\n lastKnownKeys = keys;\n }\n });\n\n\n // let $el = $(el);\n // $el.on(\"change\", \"input[type=\"checkbox\"]\", function() {\n // let checked = $el.find(\"input[type=\"checkbox\"]:checked\");\n // if (checked.length === 0) {\n // ctHandle.clear();\n // } else {\n // let keys = {};\n // checked.each(function() {\n // data.map[this.value].forEach(function(key) {\n // keys[key] = true;\n // });\n // });\n // let keyArray = Object.keys(keys);\n // keyArray.sort();\n // ctHandle.set(keyArray);\n // }\n // });\n\n return {\n suspend: function() {\n ctHandle.clear();\n },\n resume: function() {\n if (lastKnownKeys)\n ctHandle.set(lastKnownKeys);\n }\n };\n }\n});\n\n\n// Convert a number to a string with leading zeros\nfunction padZeros(n, digits) {\n let str = n.toString();\n while (str.length < digits)\n str = \"0\" + str;\n return str;\n}\n\n// Given a Date object, return a string in yyyy-mm-dd format, using the\n// UTC date. This may be a day off from the date in the local time zone.\nfunction formatDateUTC(date) {\n if (date instanceof Date) {\n return date.getUTCFullYear() + \"-\" +\n padZeros(date.getUTCMonth()+1, 2) + \"-\" +\n padZeros(date.getUTCDate(), 2);\n\n } else {\n return null;\n }\n}\n", - "import Events from \"./events\";\nimport grp from \"./group\";\nimport * as util from \"./util\";\n\n/**\n * Use this class to read and write (and listen for changes to) the selection\n * for a Crosstalk group. This is intended to be used for linked brushing.\n *\n * If two (or more) `SelectionHandle` instances in the same webpage share the\n * same group name, they will share the same state. Setting the selection using\n * one `SelectionHandle` instance will result in the `value` property instantly\n * changing across the others, and `\"change\"` event listeners on all instances\n * (including the one that initiated the sending) will fire.\n *\n * @param {string} [group] - The name of the Crosstalk group, or if none,\n * null or undefined (or any other falsy value). This can be changed later\n * via the [SelectionHandle#setGroup](#setGroup) method.\n * @param {Object} [extraInfo] - An object whose properties will be copied to\n * the event object whenever an event is emitted.\n */\nexport class SelectionHandle {\n\n constructor(group = null, extraInfo = null) {\n this._eventRelay = new Events();\n this._emitter = new util.SubscriptionTracker(this._eventRelay);\n\n // Name of the group we're currently tracking, if any. Can change over time.\n this._group = null;\n // The Var we're currently tracking, if any. Can change over time.\n this._var = null;\n // The event handler subscription we currently have on var.on(\"change\").\n this._varOnChangeSub = null;\n\n this._extraInfo = util.extend({ sender: this }, extraInfo);\n\n this.setGroup(group);\n }\n\n /**\n * Changes the Crosstalk group membership of this SelectionHandle. The group\n * being switched away from (if any) will not have its selection value\n * modified as a result of calling `setGroup`, even if this handle was the\n * most recent handle to set the selection of the group.\n *\n * The group being switched to (if any) will also not have its selection value\n * modified as a result of calling `setGroup`. If you want to set the\n * selection value of the new group, call `set` explicitly.\n *\n * @param {string} group - The name of the Crosstalk group, or null (or\n * undefined) to clear the group.\n */\n setGroup(group) {\n // If group is unchanged, do nothing\n if (this._group === group)\n return;\n // Treat null, undefined, and other falsy values the same\n if (!this._group && !group)\n return;\n\n if (this._var) {\n this._var.off(\"change\", this._varOnChangeSub);\n this._var = null;\n this._varOnChangeSub = null;\n }\n\n this._group = group;\n\n if (group) {\n this._var = grp(group).var(\"selection\");\n let sub = this._var.on(\"change\", (e) => {\n this._eventRelay.trigger(\"change\", e, this);\n });\n this._varOnChangeSub = sub;\n }\n }\n\n /**\n * Retrieves the current selection for the group represented by this\n * `SelectionHandle`.\n *\n * - If no selection is active, then this value will be falsy.\n * - If a selection is active, but no data points are selected, then this\n * value will be an empty array.\n * - If a selection is active, and data points are selected, then the keys\n * of the selected data points will be present in the array.\n */\n get value() {\n return this._var ? this._var.get() : null;\n }\n\n /**\n * Combines the given `extraInfo` (if any) with the handle's default\n * `_extraInfo` (if any).\n * @private\n */\n _mergeExtraInfo(extraInfo) {\n // Important incidental effect: shallow clone is returned\n return util.extend({},\n this._extraInfo ? this._extraInfo : null,\n extraInfo ? extraInfo : null);\n }\n\n /**\n * Overwrites the current selection for the group, and raises the `\"change\"`\n * event among all of the group's '`SelectionHandle` instances (including\n * this one).\n *\n * @fires SelectionHandle#change\n * @param {string[]} selectedKeys - Falsy, empty array, or array of keys (see\n * {@link SelectionHandle#value}).\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any options that were\n * passed into the `SelectionHandle` constructor).\n */\n set(selectedKeys, extraInfo) {\n if (this._var)\n this._var.set(selectedKeys, this._mergeExtraInfo(extraInfo));\n }\n\n /**\n * Overwrites the current selection for the group, and raises the `\"change\"`\n * event among all of the group's '`SelectionHandle` instances (including\n * this one).\n *\n * @fires SelectionHandle#change\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any that were passed\n * into the `SelectionHandle` constructor).\n */\n clear(extraInfo) {\n if (this._var)\n this.set(void 0, this._mergeExtraInfo(extraInfo));\n }\n\n /**\n * Subscribes to events on this `SelectionHandle`.\n *\n * @param {string} eventType - Indicates the type of events to listen to.\n * Currently, only `\"change\"` is supported.\n * @param {SelectionHandle~listener} listener - The callback function that\n * will be invoked when the event occurs.\n * @return {string} - A token to pass to {@link SelectionHandle#off} to cancel\n * this subscription.\n */\n on(eventType, listener) {\n return this._emitter.on(eventType, listener);\n }\n\n /**\n * Cancels event subscriptions created by {@link SelectionHandle#on}.\n *\n * @param {string} eventType - The type of event to unsubscribe.\n * @param {string|SelectionHandle~listener} listener - Either the callback\n * function previously passed into {@link SelectionHandle#on}, or the\n * string that was returned from {@link SelectionHandle#on}.\n */\n off(eventType, listener) {\n return this._emitter.off(eventType, listener);\n }\n\n /**\n * Shuts down the `SelectionHandle` object.\n *\n * Removes all event listeners that were added through this handle.\n */\n close() {\n this._emitter.removeAllListeners();\n this.setGroup(null);\n }\n}\n\n/**\n * @callback SelectionHandle~listener\n * @param {Object} event - An object containing details of the event. For\n * `\"change\"` events, this includes the properties `value` (the new\n * value of the selection, or `undefined` if no selection is active),\n * `oldValue` (the previous value of the selection), and `sender` (the\n * `SelectionHandle` instance that made the change).\n */\n\n/**\n * @event SelectionHandle#change\n * @type {object}\n * @property {object} value - The new value of the selection, or `undefined`\n * if no selection is active.\n * @property {object} oldValue - The previous value of the selection.\n * @property {SelectionHandle} sender - The `SelectionHandle` instance that\n * changed the value.\n */\n", - "export function extend(target, ...sources) {\n for (let i = 0; i < sources.length; i++) {\n let src = sources[i];\n if (typeof(src) === \"undefined\" || src === null)\n continue;\n\n for (let key in src) {\n if (src.hasOwnProperty(key)) {\n target[key] = src[key];\n }\n }\n }\n return target;\n}\n\nexport function checkSorted(list) {\n for (let i = 1; i < list.length; i++) {\n if (list[i] <= list[i-1]) {\n throw new Error(\"List is not sorted or contains duplicate\");\n }\n }\n}\n\nexport function diffSortedLists(a, b) {\n let i_a = 0;\n let i_b = 0;\n\n if (!a) a = [];\n if (!b) b = [];\n\n let a_only = [];\n let b_only = [];\n\n checkSorted(a);\n checkSorted(b);\n\n while (i_a < a.length && i_b < b.length) {\n if (a[i_a] === b[i_b]) {\n i_a++;\n i_b++;\n } else if (a[i_a] < b[i_b]) {\n a_only.push(a[i_a++]);\n } else {\n b_only.push(b[i_b++]);\n }\n }\n\n if (i_a < a.length)\n a_only = a_only.concat(a.slice(i_a));\n if (i_b < b.length)\n b_only = b_only.concat(b.slice(i_b));\n return {\n removed: a_only,\n added: b_only\n };\n}\n\n// Convert from wide: { colA: [1,2,3], colB: [4,5,6], ... }\n// to long: [ {colA: 1, colB: 4}, {colA: 2, colB: 5}, ... ]\nexport function dataframeToD3(df) {\n let names = [];\n let length;\n for (let name in df) {\n if (df.hasOwnProperty(name))\n names.push(name);\n if (typeof(df[name]) !== \"object\" || typeof(df[name].length) === \"undefined\") {\n throw new Error(\"All fields must be arrays\");\n } else if (typeof(length) !== \"undefined\" && length !== df[name].length) {\n throw new Error(\"All fields must be arrays of the same length\");\n }\n length = df[name].length;\n }\n let results = [];\n let item;\n for (let row = 0; row < length; row++) {\n item = {};\n for (let col = 0; col < names.length; col++) {\n item[names[col]] = df[names[col]][row];\n }\n results.push(item);\n }\n return results;\n}\n\n/**\n * Keeps track of all event listener additions/removals and lets all active\n * listeners be removed with a single operation.\n *\n * @private\n */\nexport class SubscriptionTracker {\n constructor(emitter) {\n this._emitter = emitter;\n this._subs = {};\n }\n\n on(eventType, listener) {\n let sub = this._emitter.on(eventType, listener);\n this._subs[sub] = eventType;\n return sub;\n }\n\n off(eventType, listener) {\n let sub = this._emitter.off(eventType, listener);\n if (sub) {\n delete this._subs[sub];\n }\n return sub;\n }\n\n removeAllListeners() {\n let current_subs = this._subs;\n this._subs = {};\n Object.keys(current_subs).forEach((sub) => {\n this._emitter.off(current_subs[sub], sub);\n });\n }\n}\n", - "import Events from \"./events\";\n\nexport default class Var {\n constructor(group, name, /*optional*/ value) {\n this._group = group;\n this._name = name;\n this._value = value;\n this._events = new Events();\n }\n\n get() {\n return this._value;\n }\n\n set(value, /*optional*/ event) {\n if (this._value === value) {\n // Do nothing; the value hasn't changed\n return;\n }\n let oldValue = this._value;\n this._value = value;\n // Alert JavaScript listeners that the value has changed\n let evt = {};\n if (event && typeof(event) === \"object\") {\n for (let k in event) {\n if (event.hasOwnProperty(k))\n evt[k] = event[k];\n }\n }\n evt.oldValue = oldValue;\n evt.value = value;\n this._events.trigger(\"change\", evt, this);\n\n // TODO: Make this extensible, to let arbitrary back-ends know that\n // something has changed\n if (global.Shiny && global.Shiny.onInputChange) {\n global.Shiny.onInputChange(\n \".clientValue-\" +\n (this._group.name !== null ? this._group.name + \"-\" : \"\") +\n this._name,\n typeof(value) === \"undefined\" ? null : value\n );\n }\n }\n\n on(eventType, listener) {\n return this._events.on(eventType, listener);\n }\n\n off(eventType, listener) {\n return this._events.off(eventType, listener);\n }\n}\n" - ] -} \ No newline at end of file diff --git a/_site/site_libs/crosstalk-1.2.1/js/crosstalk.min.js b/_site/site_libs/crosstalk-1.2.1/js/crosstalk.min.js deleted file mode 100644 index b7ec0ac..0000000 --- a/_site/site_libs/crosstalk-1.2.1/js/crosstalk.min.js +++ /dev/null @@ -1,2 +0,0 @@ -!function o(u,a,l){function s(n,e){if(!a[n]){if(!u[n]){var t="function"==typeof require&&require;if(!e&&t)return t(n,!0);if(f)return f(n,!0);var r=new Error("Cannot find module '"+n+"'");throw r.code="MODULE_NOT_FOUND",r}var i=a[n]={exports:{}};u[n][0].call(i.exports,function(e){var t=u[n][1][e];return s(t||e)},i,i.exports,o,u,a,l)}return a[n].exports}for(var f="function"==typeof require&&require,e=0;e?@[\\\]^`{|}~])/g,"\\$1")+"']"),r=JSON.parse(n[0].innerText),i=e.factory(t,r);o(t).data("crosstalk-instance",i),o(t).addClass("crosstalk-input-bound")}if(t.Shiny){var e=new t.Shiny.InputBinding,u=t.jQuery;u.extend(e,{find:function(e){return u(e).find(".crosstalk-input")},initialize:function(e){var t,n;u(e).hasClass("crosstalk-input-bound")||(n=o(t=e),Object.keys(r).forEach(function(e){n.hasClass(e)&&!n.hasClass("crosstalk-input-bound")&&i(r[e],t)}))},getId:function(e){return e.id},getValue:function(e){},setValue:function(e,t){},receiveMessage:function(e,t){},subscribe:function(e,t){u(e).data("crosstalk-instance").resume()},unsubscribe:function(e){u(e).data("crosstalk-instance").suspend()}}),t.Shiny.inputBindings.register(e,"crosstalk.inputBinding")}}).call(this,"undefined"!=typeof global?global:"undefined"!=typeof self?self:"undefined"!=typeof window?window:{})},{}],7:[function(r,e,t){(function(e){"use strict";var t=function(e){{if(e&&e.__esModule)return e;var t={};if(null!=e)for(var n in e)Object.prototype.hasOwnProperty.call(e,n)&&(t[n]=e[n]);return t.default=e,t}}(r("./input")),n=r("./filter");var a=e.jQuery;t.register({className:"crosstalk-input-checkboxgroup",factory:function(e,r){var i=new n.FilterHandle(r.group),o=void 0,u=a(e);return u.on("change","input[type='checkbox']",function(){var e=u.find("input[type='checkbox']:checked");if(0===e.length)o=null,i.clear();else{var t={};e.each(function(){r.map[this.value].forEach(function(e){t[e]=!0})});var n=Object.keys(t);n.sort(),o=n,i.set(n)}}),{suspend:function(){i.clear()},resume:function(){o&&i.set(o)}}}})}).call(this,"undefined"!=typeof global?global:"undefined"!=typeof self?self:"undefined"!=typeof window?window:{})},{"./filter":2,"./input":6}],8:[function(r,e,t){(function(e){"use strict";var t=n(r("./input")),l=n(r("./util")),s=r("./filter");function n(e){if(e&&e.__esModule)return e;var t={};if(null!=e)for(var n in e)Object.prototype.hasOwnProperty.call(e,n)&&(t[n]=e[n]);return t.default=e,t}var f=e.jQuery;t.register({className:"crosstalk-input-select",factory:function(e,n){var t=l.dataframeToD3(n.items),r={options:[{value:"",label:"(All)"}].concat(t),valueField:"value",labelField:"label",searchField:"label"},i=f(e).find("select")[0],o=f(i).selectize(r)[0].selectize,u=new s.FilterHandle(n.group),a=void 0;return o.on("change",function(){if(0===o.items.length)a=null,u.clear();else{var t={};o.items.forEach(function(e){n.map[e].forEach(function(e){t[e]=!0})});var e=Object.keys(t);e.sort(),a=e,u.set(e)}}),{suspend:function(){u.clear()},resume:function(){a&&u.set(a)}}}})}).call(this,"undefined"!=typeof global?global:"undefined"!=typeof self?self:"undefined"!=typeof window?window:{})},{"./filter":2,"./input":6,"./util":11}],9:[function(n,e,t){(function(e){"use strict";var d=function(e,t){if(Array.isArray(e))return e;if(Symbol.iterator in Object(e))return function(e,t){var n=[],r=!0,i=!1,o=void 0;try{for(var u,a=e[Symbol.iterator]();!(r=(u=a.next()).done)&&(n.push(u.value),!t||n.length!==t);r=!0);}catch(e){i=!0,o=e}finally{try{!r&&a.return&&a.return()}finally{if(i)throw o}}return n}(e,t);throw new TypeError("Invalid attempt to destructure non-iterable instance")},t=function(e){{if(e&&e.__esModule)return e;var t={};if(null!=e)for(var n in e)Object.prototype.hasOwnProperty.call(e,n)&&(t[n]=e[n]);return t.default=e,t}}(n("./input")),a=n("./filter");var v=e.jQuery,p=e.strftime;function y(e,t){for(var n=e.toString();n.length {\n this._eventRelay.trigger(\"change\", e, this);\n });\n this._varOnChangeSub = sub;\n }\n }\n\n /**\n * Combine the given `extraInfo` (if any) with the handle's default\n * `_extraInfo` (if any).\n * @private\n */\n _mergeExtraInfo(extraInfo) {\n return util.extend({},\n this._extraInfo ? this._extraInfo : null,\n extraInfo ? extraInfo : null);\n }\n\n /**\n * Close the handle. This clears this handle's contribution to the filter set,\n * and unsubscribes all event listeners.\n */\n close() {\n this._emitter.removeAllListeners();\n this.clear();\n this.setGroup(null);\n }\n\n /**\n * Clear this handle's contribution to the filter set.\n *\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any options that were\n * passed into the `FilterHandle` constructor).\n * \n * @fires FilterHandle#change\n */\n clear(extraInfo) {\n if (!this._filterSet)\n return;\n this._filterSet.clear(this._id);\n this._onChange(extraInfo);\n }\n\n /**\n * Set this handle's contribution to the filter set. This array should consist\n * of the keys of the rows that _should_ be displayed; any keys that are not\n * present in the array will be considered _filtered out_. Note that multiple\n * `FilterHandle` instances in the group may each contribute an array of keys,\n * and only those keys that appear in _all_ of the arrays make it through the\n * filter.\n *\n * @param {string[]} keys - Empty array, or array of keys. To clear the\n * filter, don't pass an empty array; instead, use the\n * {@link FilterHandle#clear} method.\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any options that were\n * passed into the `FilterHandle` constructor).\n * \n * @fires FilterHandle#change\n */\n set(keys, extraInfo) {\n if (!this._filterSet)\n return;\n this._filterSet.update(this._id, keys);\n this._onChange(extraInfo);\n }\n\n /**\n * @return {string[]|null} - Either: 1) an array of keys that made it through\n * all of the `FilterHandle` instances, or, 2) `null`, which means no filter\n * is being applied (all data should be displayed).\n */\n get filteredKeys() {\n return this._filterSet ? this._filterSet.value : null;\n }\n\n /**\n * Subscribe to events on this `FilterHandle`.\n *\n * @param {string} eventType - Indicates the type of events to listen to.\n * Currently, only `\"change\"` is supported.\n * @param {FilterHandle~listener} listener - The callback function that\n * will be invoked when the event occurs.\n * @return {string} - A token to pass to {@link FilterHandle#off} to cancel\n * this subscription.\n */\n on(eventType, listener) {\n return this._emitter.on(eventType, listener);\n }\n\n /**\n * Cancel event subscriptions created by {@link FilterHandle#on}.\n *\n * @param {string} eventType - The type of event to unsubscribe.\n * @param {string|FilterHandle~listener} listener - Either the callback\n * function previously passed into {@link FilterHandle#on}, or the\n * string that was returned from {@link FilterHandle#on}.\n */\n off(eventType, listener) {\n return this._emitter.off(eventType, listener);\n }\n\n _onChange(extraInfo) {\n if (!this._filterSet)\n return;\n this._filterVar.set(this._filterSet.value, this._mergeExtraInfo(extraInfo));\n }\n\n /**\n * @callback FilterHandle~listener\n * @param {Object} event - An object containing details of the event. For\n * `\"change\"` events, this includes the properties `value` (the new\n * value of the filter set, or `null` if no filter set is active),\n * `oldValue` (the previous value of the filter set), and `sender` (the\n * `FilterHandle` instance that made the change).\n */\n\n}\n\n/**\n * @event FilterHandle#change\n * @type {object}\n * @property {object} value - The new value of the filter set, or `null`\n * if no filter set is active.\n * @property {object} oldValue - The previous value of the filter set.\n * @property {FilterHandle} sender - The `FilterHandle` instance that\n * changed the value.\n */\n","import { diffSortedLists } from \"./util\";\n\nfunction naturalComparator(a, b) {\n if (a === b) {\n return 0;\n } else if (a < b) {\n return -1;\n } else if (a > b) {\n return 1;\n }\n}\n\n/**\n * @private\n */\nexport default class FilterSet {\n constructor() {\n this.reset();\n }\n\n reset() {\n // Key: handle ID, Value: array of selected keys, or null\n this._handles = {};\n // Key: key string, Value: count of handles that include it\n this._keys = {};\n this._value = null;\n this._activeHandles = 0;\n }\n\n get value() {\n return this._value;\n }\n\n update(handleId, keys) {\n if (keys !== null) {\n keys = keys.slice(0); // clone before sorting\n keys.sort(naturalComparator);\n }\n\n let {added, removed} = diffSortedLists(this._handles[handleId], keys);\n this._handles[handleId] = keys;\n\n for (let i = 0; i < added.length; i++) {\n this._keys[added[i]] = (this._keys[added[i]] || 0) + 1;\n }\n for (let i = 0; i < removed.length; i++) {\n this._keys[removed[i]]--;\n }\n\n this._updateValue(keys);\n }\n\n /**\n * @param {string[]} keys Sorted array of strings that indicate\n * a superset of possible keys.\n * @private\n */\n _updateValue(keys = this._allKeys) {\n let handleCount = Object.keys(this._handles).length;\n if (handleCount === 0) {\n this._value = null;\n } else {\n this._value = [];\n for (let i = 0; i < keys.length; i++) {\n let count = this._keys[keys[i]];\n if (count === handleCount) {\n this._value.push(keys[i]);\n }\n }\n }\n }\n\n clear(handleId) {\n if (typeof(this._handles[handleId]) === \"undefined\") {\n return;\n }\n\n let keys = this._handles[handleId];\n if (!keys) {\n keys = [];\n }\n\n for (let i = 0; i < keys.length; i++) {\n this._keys[keys[i]]--;\n }\n delete this._handles[handleId];\n\n this._updateValue();\n }\n\n get _allKeys() {\n let allKeys = Object.keys(this._keys);\n allKeys.sort(naturalComparator);\n return allKeys;\n }\n}\n","import Var from \"./var\";\n\n// Use a global so that multiple copies of crosstalk.js can be loaded and still\n// have groups behave as singletons across all copies.\nglobal.__crosstalk_groups = global.__crosstalk_groups || {};\nlet groups = global.__crosstalk_groups;\n\nexport default function group(groupName) {\n if (groupName && typeof(groupName) === \"string\") {\n if (!groups.hasOwnProperty(groupName)) {\n groups[groupName] = new Group(groupName);\n }\n return groups[groupName];\n } else if (typeof(groupName) === \"object\" && groupName._vars && groupName.var) {\n // Appears to already be a group object\n return groupName;\n } else if (Array.isArray(groupName) &&\n groupName.length == 1 &&\n typeof(groupName[0]) === \"string\") {\n return group(groupName[0]);\n } else {\n throw new Error(\"Invalid groupName argument\");\n }\n}\n\nclass Group {\n constructor(name) {\n this.name = name;\n this._vars = {};\n }\n\n var(name) {\n if (!name || typeof(name) !== \"string\") {\n throw new Error(\"Invalid var name\");\n }\n\n if (!this._vars.hasOwnProperty(name))\n this._vars[name] = new Var(this, name);\n return this._vars[name];\n }\n\n has(name) {\n if (!name || typeof(name) !== \"string\") {\n throw new Error(\"Invalid var name\");\n }\n\n return this._vars.hasOwnProperty(name);\n }\n}\n","import group from \"./group\";\nimport { SelectionHandle } from \"./selection\";\nimport { FilterHandle } from \"./filter\";\nimport { bind } from \"./input\";\nimport \"./input_selectize\";\nimport \"./input_checkboxgroup\";\nimport \"./input_slider\";\n\nconst defaultGroup = group(\"default\");\n\nfunction var_(name) {\n return defaultGroup.var(name);\n}\n\nfunction has(name) {\n return defaultGroup.has(name);\n}\n\nif (global.Shiny) {\n global.Shiny.addCustomMessageHandler(\"update-client-value\", function(message) {\n if (typeof(message.group) === \"string\") {\n group(message.group).var(message.name).set(message.value);\n } else {\n var_(message.name).set(message.value);\n }\n });\n}\n\nconst crosstalk = {\n group: group,\n var: var_,\n has: has,\n SelectionHandle: SelectionHandle,\n FilterHandle: FilterHandle,\n bind: bind\n};\n\n/**\n * @namespace crosstalk\n */\nexport default crosstalk;\nglobal.crosstalk = crosstalk;\n","let $ = global.jQuery;\n\nlet bindings = {};\n\nexport function register(reg) {\n bindings[reg.className] = reg;\n if (global.document && global.document.readyState !== \"complete\") {\n $(() => {\n bind();\n });\n } else if (global.document) {\n setTimeout(bind, 100);\n }\n}\n\nexport function bind() {\n Object.keys(bindings).forEach(function(className) {\n let binding = bindings[className];\n $(\".\" + binding.className).not(\".crosstalk-input-bound\").each(function(i, el) {\n bindInstance(binding, el);\n });\n });\n}\n\n// Escape jQuery identifier\nfunction $escape(val) {\n return val.replace(/([!\"#$%&'()*+,./:;<=>?@[\\\\\\]^`{|}~])/g, \"\\\\$1\");\n}\n\nfunction bindEl(el) {\n let $el = $(el);\n Object.keys(bindings).forEach(function(className) {\n if ($el.hasClass(className) && !$el.hasClass(\"crosstalk-input-bound\")) {\n let binding = bindings[className];\n bindInstance(binding, el);\n }\n });\n}\n\nfunction bindInstance(binding, el) {\n let jsonEl = $(el).find(\"script[type='application/json'][data-for='\" + $escape(el.id) + \"']\");\n let data = JSON.parse(jsonEl[0].innerText);\n\n let instance = binding.factory(el, data);\n $(el).data(\"crosstalk-instance\", instance);\n $(el).addClass(\"crosstalk-input-bound\");\n}\n\nif (global.Shiny) {\n let inputBinding = new global.Shiny.InputBinding();\n let $ = global.jQuery;\n $.extend(inputBinding, {\n find: function(scope) {\n return $(scope).find(\".crosstalk-input\");\n },\n initialize: function(el) {\n if (!$(el).hasClass(\"crosstalk-input-bound\")) {\n bindEl(el);\n }\n },\n getId: function(el) {\n return el.id;\n },\n getValue: function(el) {\n\n },\n setValue: function(el, value) {\n\n },\n receiveMessage: function(el, data) {\n\n },\n subscribe: function(el, callback) {\n $(el).data(\"crosstalk-instance\").resume();\n },\n unsubscribe: function(el) {\n $(el).data(\"crosstalk-instance\").suspend();\n }\n });\n global.Shiny.inputBindings.register(inputBinding, \"crosstalk.inputBinding\");\n}\n","import * as input from \"./input\";\nimport { FilterHandle } from \"./filter\";\n\nlet $ = global.jQuery;\n\ninput.register({\n className: \"crosstalk-input-checkboxgroup\",\n\n factory: function(el, data) {\n /*\n * map: {\"groupA\": [\"keyA\", \"keyB\", ...], ...}\n * group: \"ct-groupname\"\n */\n let ctHandle = new FilterHandle(data.group);\n\n let lastKnownKeys;\n let $el = $(el);\n $el.on(\"change\", \"input[type='checkbox']\", function() {\n let checked = $el.find(\"input[type='checkbox']:checked\");\n if (checked.length === 0) {\n lastKnownKeys = null;\n ctHandle.clear();\n } else {\n let keys = {};\n checked.each(function() {\n data.map[this.value].forEach(function(key) {\n keys[key] = true;\n });\n });\n let keyArray = Object.keys(keys);\n keyArray.sort();\n lastKnownKeys = keyArray;\n ctHandle.set(keyArray);\n }\n });\n\n return {\n suspend: function() {\n ctHandle.clear();\n },\n resume: function() {\n if (lastKnownKeys)\n ctHandle.set(lastKnownKeys);\n }\n };\n }\n});\n","import * as input from \"./input\";\nimport * as util from \"./util\";\nimport { FilterHandle } from \"./filter\";\n\nlet $ = global.jQuery;\n\ninput.register({\n className: \"crosstalk-input-select\",\n\n factory: function(el, data) {\n /*\n * items: {value: [...], label: [...]}\n * map: {\"groupA\": [\"keyA\", \"keyB\", ...], ...}\n * group: \"ct-groupname\"\n */\n\n let first = [{value: \"\", label: \"(All)\"}];\n let items = util.dataframeToD3(data.items);\n let opts = {\n options: first.concat(items),\n valueField: \"value\",\n labelField: \"label\",\n searchField: \"label\"\n };\n\n let select = $(el).find(\"select\")[0];\n\n let selectize = $(select).selectize(opts)[0].selectize;\n\n let ctHandle = new FilterHandle(data.group);\n\n let lastKnownKeys;\n selectize.on(\"change\", function() {\n if (selectize.items.length === 0) {\n lastKnownKeys = null;\n ctHandle.clear();\n } else {\n let keys = {};\n selectize.items.forEach(function(group) {\n data.map[group].forEach(function(key) {\n keys[key] = true;\n });\n });\n let keyArray = Object.keys(keys);\n keyArray.sort();\n lastKnownKeys = keyArray;\n ctHandle.set(keyArray);\n }\n });\n\n return {\n suspend: function() {\n ctHandle.clear();\n },\n resume: function() {\n if (lastKnownKeys)\n ctHandle.set(lastKnownKeys);\n }\n };\n }\n});\n","import * as input from \"./input\";\nimport { FilterHandle } from \"./filter\";\n\nlet $ = global.jQuery;\nlet strftime = global.strftime;\n\ninput.register({\n className: \"crosstalk-input-slider\",\n\n factory: function(el, data) {\n /*\n * map: {\"groupA\": [\"keyA\", \"keyB\", ...], ...}\n * group: \"ct-groupname\"\n */\n let ctHandle = new FilterHandle(data.group);\n\n let opts = {};\n let $el = $(el).find(\"input\");\n let dataType = $el.data(\"data-type\");\n let timeFormat = $el.data(\"time-format\");\n let round = $el.data(\"round\");\n let timeFormatter;\n\n // Set up formatting functions\n if (dataType === \"date\") {\n timeFormatter = strftime.utc();\n opts.prettify = function(num) {\n return timeFormatter(timeFormat, new Date(num));\n };\n\n } else if (dataType === \"datetime\") {\n let timezone = $el.data(\"timezone\");\n if (timezone)\n timeFormatter = strftime.timezone(timezone);\n else\n timeFormatter = strftime;\n\n opts.prettify = function(num) {\n return timeFormatter(timeFormat, new Date(num));\n };\n } else if (dataType === \"number\") {\n if (typeof round !== \"undefined\")\n opts.prettify = function(num) {\n let factor = Math.pow(10, round);\n return Math.round(num * factor) / factor;\n };\n }\n\n $el.ionRangeSlider(opts);\n\n function getValue() {\n let result = $el.data(\"ionRangeSlider\").result;\n\n // Function for converting numeric value from slider to appropriate type.\n let convert;\n let dataType = $el.data(\"data-type\");\n if (dataType === \"date\") {\n convert = function(val) {\n return formatDateUTC(new Date(+val));\n };\n } else if (dataType === \"datetime\") {\n convert = function(val) {\n // Convert ms to s\n return +val / 1000;\n };\n } else {\n convert = function(val) { return +val; };\n }\n\n if ($el.data(\"ionRangeSlider\").options.type === \"double\") {\n return [convert(result.from), convert(result.to)];\n } else {\n return convert(result.from);\n }\n }\n\n let lastKnownKeys = null;\n\n $el.on(\"change.crosstalkSliderInput\", function(event) {\n if (!$el.data(\"updating\") && !$el.data(\"animating\")) {\n let [from, to] = getValue();\n let keys = [];\n for (let i = 0; i < data.values.length; i++) {\n let val = data.values[i];\n if (val >= from && val <= to) {\n keys.push(data.keys[i]);\n }\n }\n keys.sort();\n ctHandle.set(keys);\n lastKnownKeys = keys;\n }\n });\n\n\n // let $el = $(el);\n // $el.on(\"change\", \"input[type=\"checkbox\"]\", function() {\n // let checked = $el.find(\"input[type=\"checkbox\"]:checked\");\n // if (checked.length === 0) {\n // ctHandle.clear();\n // } else {\n // let keys = {};\n // checked.each(function() {\n // data.map[this.value].forEach(function(key) {\n // keys[key] = true;\n // });\n // });\n // let keyArray = Object.keys(keys);\n // keyArray.sort();\n // ctHandle.set(keyArray);\n // }\n // });\n\n return {\n suspend: function() {\n ctHandle.clear();\n },\n resume: function() {\n if (lastKnownKeys)\n ctHandle.set(lastKnownKeys);\n }\n };\n }\n});\n\n\n// Convert a number to a string with leading zeros\nfunction padZeros(n, digits) {\n let str = n.toString();\n while (str.length < digits)\n str = \"0\" + str;\n return str;\n}\n\n// Given a Date object, return a string in yyyy-mm-dd format, using the\n// UTC date. This may be a day off from the date in the local time zone.\nfunction formatDateUTC(date) {\n if (date instanceof Date) {\n return date.getUTCFullYear() + \"-\" +\n padZeros(date.getUTCMonth()+1, 2) + \"-\" +\n padZeros(date.getUTCDate(), 2);\n\n } else {\n return null;\n }\n}\n","import Events from \"./events\";\nimport grp from \"./group\";\nimport * as util from \"./util\";\n\n/**\n * Use this class to read and write (and listen for changes to) the selection\n * for a Crosstalk group. This is intended to be used for linked brushing.\n *\n * If two (or more) `SelectionHandle` instances in the same webpage share the\n * same group name, they will share the same state. Setting the selection using\n * one `SelectionHandle` instance will result in the `value` property instantly\n * changing across the others, and `\"change\"` event listeners on all instances\n * (including the one that initiated the sending) will fire.\n *\n * @param {string} [group] - The name of the Crosstalk group, or if none,\n * null or undefined (or any other falsy value). This can be changed later\n * via the [SelectionHandle#setGroup](#setGroup) method.\n * @param {Object} [extraInfo] - An object whose properties will be copied to\n * the event object whenever an event is emitted.\n */\nexport class SelectionHandle {\n\n constructor(group = null, extraInfo = null) {\n this._eventRelay = new Events();\n this._emitter = new util.SubscriptionTracker(this._eventRelay);\n\n // Name of the group we're currently tracking, if any. Can change over time.\n this._group = null;\n // The Var we're currently tracking, if any. Can change over time.\n this._var = null;\n // The event handler subscription we currently have on var.on(\"change\").\n this._varOnChangeSub = null;\n\n this._extraInfo = util.extend({ sender: this }, extraInfo);\n\n this.setGroup(group);\n }\n\n /**\n * Changes the Crosstalk group membership of this SelectionHandle. The group\n * being switched away from (if any) will not have its selection value\n * modified as a result of calling `setGroup`, even if this handle was the\n * most recent handle to set the selection of the group.\n *\n * The group being switched to (if any) will also not have its selection value\n * modified as a result of calling `setGroup`. If you want to set the\n * selection value of the new group, call `set` explicitly.\n *\n * @param {string} group - The name of the Crosstalk group, or null (or\n * undefined) to clear the group.\n */\n setGroup(group) {\n // If group is unchanged, do nothing\n if (this._group === group)\n return;\n // Treat null, undefined, and other falsy values the same\n if (!this._group && !group)\n return;\n\n if (this._var) {\n this._var.off(\"change\", this._varOnChangeSub);\n this._var = null;\n this._varOnChangeSub = null;\n }\n\n this._group = group;\n\n if (group) {\n this._var = grp(group).var(\"selection\");\n let sub = this._var.on(\"change\", (e) => {\n this._eventRelay.trigger(\"change\", e, this);\n });\n this._varOnChangeSub = sub;\n }\n }\n\n /**\n * Retrieves the current selection for the group represented by this\n * `SelectionHandle`.\n *\n * - If no selection is active, then this value will be falsy.\n * - If a selection is active, but no data points are selected, then this\n * value will be an empty array.\n * - If a selection is active, and data points are selected, then the keys\n * of the selected data points will be present in the array.\n */\n get value() {\n return this._var ? this._var.get() : null;\n }\n\n /**\n * Combines the given `extraInfo` (if any) with the handle's default\n * `_extraInfo` (if any).\n * @private\n */\n _mergeExtraInfo(extraInfo) {\n // Important incidental effect: shallow clone is returned\n return util.extend({},\n this._extraInfo ? this._extraInfo : null,\n extraInfo ? extraInfo : null);\n }\n\n /**\n * Overwrites the current selection for the group, and raises the `\"change\"`\n * event among all of the group's '`SelectionHandle` instances (including\n * this one).\n *\n * @fires SelectionHandle#change\n * @param {string[]} selectedKeys - Falsy, empty array, or array of keys (see\n * {@link SelectionHandle#value}).\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any options that were\n * passed into the `SelectionHandle` constructor).\n */\n set(selectedKeys, extraInfo) {\n if (this._var)\n this._var.set(selectedKeys, this._mergeExtraInfo(extraInfo));\n }\n\n /**\n * Overwrites the current selection for the group, and raises the `\"change\"`\n * event among all of the group's '`SelectionHandle` instances (including\n * this one).\n *\n * @fires SelectionHandle#change\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any that were passed\n * into the `SelectionHandle` constructor).\n */\n clear(extraInfo) {\n if (this._var)\n this.set(void 0, this._mergeExtraInfo(extraInfo));\n }\n\n /**\n * Subscribes to events on this `SelectionHandle`.\n *\n * @param {string} eventType - Indicates the type of events to listen to.\n * Currently, only `\"change\"` is supported.\n * @param {SelectionHandle~listener} listener - The callback function that\n * will be invoked when the event occurs.\n * @return {string} - A token to pass to {@link SelectionHandle#off} to cancel\n * this subscription.\n */\n on(eventType, listener) {\n return this._emitter.on(eventType, listener);\n }\n\n /**\n * Cancels event subscriptions created by {@link SelectionHandle#on}.\n *\n * @param {string} eventType - The type of event to unsubscribe.\n * @param {string|SelectionHandle~listener} listener - Either the callback\n * function previously passed into {@link SelectionHandle#on}, or the\n * string that was returned from {@link SelectionHandle#on}.\n */\n off(eventType, listener) {\n return this._emitter.off(eventType, listener);\n }\n\n /**\n * Shuts down the `SelectionHandle` object.\n *\n * Removes all event listeners that were added through this handle.\n */\n close() {\n this._emitter.removeAllListeners();\n this.setGroup(null);\n }\n}\n\n/**\n * @callback SelectionHandle~listener\n * @param {Object} event - An object containing details of the event. For\n * `\"change\"` events, this includes the properties `value` (the new\n * value of the selection, or `undefined` if no selection is active),\n * `oldValue` (the previous value of the selection), and `sender` (the\n * `SelectionHandle` instance that made the change).\n */\n\n/**\n * @event SelectionHandle#change\n * @type {object}\n * @property {object} value - The new value of the selection, or `undefined`\n * if no selection is active.\n * @property {object} oldValue - The previous value of the selection.\n * @property {SelectionHandle} sender - The `SelectionHandle` instance that\n * changed the value.\n */\n","export function extend(target, ...sources) {\n for (let i = 0; i < sources.length; i++) {\n let src = sources[i];\n if (typeof(src) === \"undefined\" || src === null)\n continue;\n\n for (let key in src) {\n if (src.hasOwnProperty(key)) {\n target[key] = src[key];\n }\n }\n }\n return target;\n}\n\nexport function checkSorted(list) {\n for (let i = 1; i < list.length; i++) {\n if (list[i] <= list[i-1]) {\n throw new Error(\"List is not sorted or contains duplicate\");\n }\n }\n}\n\nexport function diffSortedLists(a, b) {\n let i_a = 0;\n let i_b = 0;\n\n if (!a) a = [];\n if (!b) b = [];\n\n let a_only = [];\n let b_only = [];\n\n checkSorted(a);\n checkSorted(b);\n\n while (i_a < a.length && i_b < b.length) {\n if (a[i_a] === b[i_b]) {\n i_a++;\n i_b++;\n } else if (a[i_a] < b[i_b]) {\n a_only.push(a[i_a++]);\n } else {\n b_only.push(b[i_b++]);\n }\n }\n\n if (i_a < a.length)\n a_only = a_only.concat(a.slice(i_a));\n if (i_b < b.length)\n b_only = b_only.concat(b.slice(i_b));\n return {\n removed: a_only,\n added: b_only\n };\n}\n\n// Convert from wide: { colA: [1,2,3], colB: [4,5,6], ... }\n// to long: [ {colA: 1, colB: 4}, {colA: 2, colB: 5}, ... ]\nexport function dataframeToD3(df) {\n let names = [];\n let length;\n for (let name in df) {\n if (df.hasOwnProperty(name))\n names.push(name);\n if (typeof(df[name]) !== \"object\" || typeof(df[name].length) === \"undefined\") {\n throw new Error(\"All fields must be arrays\");\n } else if (typeof(length) !== \"undefined\" && length !== df[name].length) {\n throw new Error(\"All fields must be arrays of the same length\");\n }\n length = df[name].length;\n }\n let results = [];\n let item;\n for (let row = 0; row < length; row++) {\n item = {};\n for (let col = 0; col < names.length; col++) {\n item[names[col]] = df[names[col]][row];\n }\n results.push(item);\n }\n return results;\n}\n\n/**\n * Keeps track of all event listener additions/removals and lets all active\n * listeners be removed with a single operation.\n *\n * @private\n */\nexport class SubscriptionTracker {\n constructor(emitter) {\n this._emitter = emitter;\n this._subs = {};\n }\n\n on(eventType, listener) {\n let sub = this._emitter.on(eventType, listener);\n this._subs[sub] = eventType;\n return sub;\n }\n\n off(eventType, listener) {\n let sub = this._emitter.off(eventType, listener);\n if (sub) {\n delete this._subs[sub];\n }\n return sub;\n }\n\n removeAllListeners() {\n let current_subs = this._subs;\n this._subs = {};\n Object.keys(current_subs).forEach((sub) => {\n this._emitter.off(current_subs[sub], sub);\n });\n }\n}\n","import Events from \"./events\";\n\nexport default class Var {\n constructor(group, name, /*optional*/ value) {\n this._group = group;\n this._name = name;\n this._value = value;\n this._events = new Events();\n }\n\n get() {\n return this._value;\n }\n\n set(value, /*optional*/ event) {\n if (this._value === value) {\n // Do nothing; the value hasn't changed\n return;\n }\n let oldValue = this._value;\n this._value = value;\n // Alert JavaScript listeners that the value has changed\n let evt = {};\n if (event && typeof(event) === \"object\") {\n for (let k in event) {\n if (event.hasOwnProperty(k))\n evt[k] = event[k];\n }\n }\n evt.oldValue = oldValue;\n evt.value = value;\n this._events.trigger(\"change\", evt, this);\n\n // TODO: Make this extensible, to let arbitrary back-ends know that\n // something has changed\n if (global.Shiny && global.Shiny.onInputChange) {\n global.Shiny.onInputChange(\n \".clientValue-\" +\n (this._group.name !== null ? this._group.name + \"-\" : \"\") +\n this._name,\n typeof(value) === \"undefined\" ? null : value\n );\n }\n }\n\n on(eventType, listener) {\n return this._events.on(eventType, listener);\n }\n\n off(eventType, listener) {\n return this._events.off(eventType, listener);\n }\n}\n"]} \ No newline at end of file diff --git a/_site/site_libs/crosstalk-1.2.1/scss/crosstalk.scss b/_site/site_libs/crosstalk-1.2.1/scss/crosstalk.scss deleted file mode 100644 index 3566561..0000000 --- a/_site/site_libs/crosstalk-1.2.1/scss/crosstalk.scss +++ /dev/null @@ -1,75 +0,0 @@ -/* Adjust margins outwards, so column contents line up with the edges of the - parent of container-fluid. */ -.container-fluid.crosstalk-bscols { - margin-left: -30px; - margin-right: -30px; - white-space: normal; -} - -/* But don't adjust the margins outwards if we're directly under the body, - i.e. we were the top-level of something at the console. */ -body > .container-fluid.crosstalk-bscols { - margin-left: auto; - margin-right: auto; -} - -.crosstalk-input-checkboxgroup .crosstalk-options-group .crosstalk-options-column { - display: inline-block; - padding-right: 12px; - vertical-align: top; -} - -@media only screen and (max-width:480px) { - .crosstalk-input-checkboxgroup .crosstalk-options-group .crosstalk-options-column { - display: block; - padding-right: inherit; - } -} - -/* Relevant BS3 styles to make filter_checkbox() look reasonable without Bootstrap */ -.crosstalk-input { - margin-bottom: 15px; /* a la .form-group */ - .control-label { - margin-bottom: 0; - vertical-align: middle; - } - input[type="checkbox"] { - margin: 4px 0 0; - margin-top: 1px; - line-height: normal; - } - .checkbox { - position: relative; - display: block; - margin-top: 10px; - margin-bottom: 10px; - } - .checkbox > label{ - padding-left: 20px; - margin-bottom: 0; - font-weight: 400; - cursor: pointer; - } - .checkbox input[type="checkbox"], - .checkbox-inline input[type="checkbox"] { - position: absolute; - margin-top: 2px; - margin-left: -20px; - } - .checkbox + .checkbox { - margin-top: -5px; - } - .checkbox-inline { - position: relative; - display: inline-block; - padding-left: 20px; - margin-bottom: 0; - font-weight: 400; - vertical-align: middle; - cursor: pointer; - } - .checkbox-inline + .checkbox-inline { - margin-top: 0; - margin-left: 10px; - } -} diff --git a/_site/site_libs/datatables-binding-0.33/datatables.js b/_site/site_libs/datatables-binding-0.33/datatables.js deleted file mode 100644 index 765b53c..0000000 --- a/_site/site_libs/datatables-binding-0.33/datatables.js +++ /dev/null @@ -1,1539 +0,0 @@ -(function() { - -// some helper functions: using a global object DTWidget so that it can be used -// in JS() code, e.g. datatable(options = list(foo = JS('code'))); unlike R's -// dynamic scoping, when 'code' is eval'ed, JavaScript does not know objects -// from the "parent frame", e.g. JS('DTWidget') will not work unless it was made -// a global object -var DTWidget = {}; - -// 123456666.7890 -> 123,456,666.7890 -var markInterval = function(d, digits, interval, mark, decMark, precision) { - x = precision ? d.toPrecision(digits) : d.toFixed(digits); - if (!/^-?[\d.]+$/.test(x)) return x; - var xv = x.split('.'); - if (xv.length > 2) return x; // should have at most one decimal point - xv[0] = xv[0].replace(new RegExp('\\B(?=(\\d{' + interval + '})+(?!\\d))', 'g'), mark); - return xv.join(decMark); -}; - -DTWidget.formatCurrency = function(data, currency, digits, interval, mark, decMark, before, zeroPrint) { - var d = parseFloat(data); - if (isNaN(d)) return ''; - if (zeroPrint !== null && d === 0.0) return zeroPrint; - var res = markInterval(d, digits, interval, mark, decMark); - res = before ? (/^-/.test(res) ? '-' + currency + res.replace(/^-/, '') : currency + res) : - res + currency; - return res; -}; - -DTWidget.formatString = function(data, prefix, suffix) { - var d = data; - if (d === null) return ''; - return prefix + d + suffix; -}; - -DTWidget.formatPercentage = function(data, digits, interval, mark, decMark, zeroPrint) { - var d = parseFloat(data); - if (isNaN(d)) return ''; - if (zeroPrint !== null && d === 0.0) return zeroPrint; - return markInterval(d * 100, digits, interval, mark, decMark) + '%'; -}; - -DTWidget.formatRound = function(data, digits, interval, mark, decMark, zeroPrint) { - var d = parseFloat(data); - if (isNaN(d)) return ''; - if (zeroPrint !== null && d === 0.0) return zeroPrint; - return markInterval(d, digits, interval, mark, decMark); -}; - -DTWidget.formatSignif = function(data, digits, interval, mark, decMark, zeroPrint) { - var d = parseFloat(data); - if (isNaN(d)) return ''; - if (zeroPrint !== null && d === 0.0) return zeroPrint; - return markInterval(d, digits, interval, mark, decMark, true); -}; - -DTWidget.formatDate = function(data, method, params) { - var d = data; - if (d === null) return ''; - // (new Date('2015-10-28')).toDateString() may return 2015-10-27 because the - // actual time created could be like 'Tue Oct 27 2015 19:00:00 GMT-0500 (CDT)', - // i.e. the date-only string is treated as UTC time instead of local time - if ((method === 'toDateString' || method === 'toLocaleDateString') && /^\d{4,}\D\d{2}\D\d{2}$/.test(d)) { - d = d.split(/\D/); - d = new Date(d[0], d[1] - 1, d[2]); - } else { - d = new Date(d); - } - return d[method].apply(d, params); -}; - -window.DTWidget = DTWidget; - -// A helper function to update the properties of existing filters -var setFilterProps = function(td, props) { - // Update enabled/disabled state - var $input = $(td).find('input').first(); - var searchable = $input.data('searchable'); - $input.prop('disabled', !searchable || props.disabled); - - // Based on the filter type, set its new values - var type = td.getAttribute('data-type'); - if (['factor', 'logical'].includes(type)) { - // Reformat the new dropdown options for use with selectize - var new_vals = props.params.options.map(function(item) { - return { text: item, value: item }; - }); - - // Find the selectize object - var dropdown = $(td).find('.selectized').eq(0)[0].selectize; - - // Note the current values - var old_vals = dropdown.getValue(); - - // Remove the existing values - dropdown.clearOptions(); - - // Add the new options - dropdown.addOption(new_vals); - - // Preserve the existing values - dropdown.setValue(old_vals); - - } else if (['number', 'integer', 'date', 'time'].includes(type)) { - // Apply internal scaling to new limits. Updating scale not yet implemented. - var slider = $(td).find('.noUi-target').eq(0); - var scale = Math.pow(10, Math.max(0, +slider.data('scale') || 0)); - var new_vals = [props.params.min * scale, props.params.max * scale]; - - // Note what the new limits will be just for this filter - var new_lims = new_vals.slice(); - - // Determine the current values and limits - var old_vals = slider.val().map(Number); - var old_lims = slider.noUiSlider('options').range; - old_lims = [old_lims.min, old_lims.max]; - - // Preserve the current values if filters have been applied; otherwise, apply no filtering - if (old_vals[0] != old_lims[0]) { - new_vals[0] = Math.max(old_vals[0], new_vals[0]); - } - - if (old_vals[1] != old_lims[1]) { - new_vals[1] = Math.min(old_vals[1], new_vals[1]); - } - - // Update the endpoints of the slider - slider.noUiSlider({ - start: new_vals, - range: {'min': new_lims[0], 'max': new_lims[1]} - }, true); - } -}; - -var transposeArray2D = function(a) { - return a.length === 0 ? a : HTMLWidgets.transposeArray2D(a); -}; - -var crosstalkPluginsInstalled = false; - -function maybeInstallCrosstalkPlugins() { - if (crosstalkPluginsInstalled) - return; - crosstalkPluginsInstalled = true; - - $.fn.dataTable.ext.afnFiltering.push( - function(oSettings, aData, iDataIndex) { - var ctfilter = oSettings.nTable.ctfilter; - if (ctfilter && !ctfilter[iDataIndex]) - return false; - - var ctselect = oSettings.nTable.ctselect; - if (ctselect && !ctselect[iDataIndex]) - return false; - - return true; - } - ); -} - -HTMLWidgets.widget({ - name: "datatables", - type: "output", - renderOnNullValue: true, - initialize: function(el, width, height) { - // in order that the type=number inputs return a number - $.valHooks.number = { - get: function(el) { - var value = parseFloat(el.value); - return isNaN(value) ? "" : value; - } - }; - $(el).html(' '); - return { - data: null, - ctfilterHandle: new crosstalk.FilterHandle(), - ctfilterSubscription: null, - ctselectHandle: new crosstalk.SelectionHandle(), - ctselectSubscription: null - }; - }, - renderValue: function(el, data, instance) { - if (el.offsetWidth === 0 || el.offsetHeight === 0) { - instance.data = data; - return; - } - instance.data = null; - var $el = $(el); - $el.empty(); - - if (data === null) { - $el.append(' '); - // clear previous Shiny inputs (if any) - for (var i in instance.clearInputs) instance.clearInputs[i](); - instance.clearInputs = {}; - return; - } - - var crosstalkOptions = data.crosstalkOptions; - if (!crosstalkOptions) crosstalkOptions = { - 'key': null, 'group': null - }; - if (crosstalkOptions.group) { - maybeInstallCrosstalkPlugins(); - instance.ctfilterHandle.setGroup(crosstalkOptions.group); - instance.ctselectHandle.setGroup(crosstalkOptions.group); - } - - // if we are in the viewer then we always want to fillContainer and - // and autoHideNavigation (unless the user has explicitly set these) - if (window.HTMLWidgets.viewerMode) { - if (!data.hasOwnProperty("fillContainer")) - data.fillContainer = true; - if (!data.hasOwnProperty("autoHideNavigation")) - data.autoHideNavigation = true; - } - - // propagate fillContainer to instance (so we have it in resize) - instance.fillContainer = data.fillContainer; - - var cells = data.data; - - if (cells instanceof Array) cells = transposeArray2D(cells); - - $el.append(data.container); - var $table = $el.find('table'); - if (data.class) $table.addClass(data.class); - if (data.caption) $table.prepend(data.caption); - - if (!data.selection) data.selection = { - mode: 'none', selected: null, target: 'row', selectable: null - }; - if (HTMLWidgets.shinyMode && data.selection.mode !== 'none' && - data.selection.target === 'row+column') { - if ($table.children('tfoot').length === 0) { - $table.append($('')); - $table.find('thead tr').clone().appendTo($table.find('tfoot')); - } - } - - // column filters - var filterRow; - switch (data.filter) { - case 'top': - $table.children('thead').append(data.filterHTML); - filterRow = $table.find('thead tr:last td'); - break; - case 'bottom': - if ($table.children('tfoot').length === 0) { - $table.append($('')); - } - $table.children('tfoot').prepend(data.filterHTML); - filterRow = $table.find('tfoot tr:first td'); - break; - } - - var options = { searchDelay: 1000 }; - if (cells !== null) $.extend(options, { - data: cells - }); - - // options for fillContainer - var bootstrapActive = typeof($.fn.popover) != 'undefined'; - if (instance.fillContainer) { - - // force scrollX/scrollY and turn off autoWidth - options.scrollX = true; - options.scrollY = "100px"; // can be any value, we'll adjust below - - // if we aren't paginating then move around the info/filter controls - // to save space at the bottom and rephrase the info callback - if (data.options.paging === false) { - - // we know how to do this cleanly for bootstrap, not so much - // for other themes/layouts - if (bootstrapActive) { - options.dom = "<'row'<'col-sm-4'i><'col-sm-8'f>>" + - "<'row'<'col-sm-12'tr>>"; - } - - options.fnInfoCallback = function(oSettings, iStart, iEnd, - iMax, iTotal, sPre) { - return Number(iTotal).toLocaleString() + " records"; - }; - } - } - - // auto hide navigation if requested - // Note, this only works on client-side processing mode as on server-side, - // cells (data.data) is null; In addition, we require the pageLength option - // being provided explicitly to enable this. Despite we may be able to deduce - // the default value of pageLength, it may complicate things so we'd rather - // put this responsiblity to users and warn them on the R side. - if (data.autoHideNavigation === true && data.options.paging !== false) { - // strip all nav if length >= cells - if ((cells instanceof Array) && data.options.pageLength >= cells.length) - options.dom = bootstrapActive ? "<'row'<'col-sm-12'tr>>" : "t"; - // alternatively lean things out for flexdashboard mobile portrait - else if (bootstrapActive && window.FlexDashboard && window.FlexDashboard.isMobilePhone()) - options.dom = "<'row'<'col-sm-12'f>>" + - "<'row'<'col-sm-12'tr>>" + - "<'row'<'col-sm-12'p>>"; - } - - $.extend(true, options, data.options || {}); - - var searchCols = options.searchCols; - if (searchCols) { - searchCols = searchCols.map(function(x) { - return x === null ? '' : x.search; - }); - // FIXME: this means I don't respect the escapeRegex setting - delete options.searchCols; - } - - // server-side processing? - var server = options.serverSide === true; - - // use the dataSrc function to pre-process JSON data returned from R - var DT_rows_all = [], DT_rows_current = []; - if (server && HTMLWidgets.shinyMode && typeof options.ajax === 'object' && - /^session\/[\da-z]+\/dataobj/.test(options.ajax.url) && !options.ajax.dataSrc) { - options.ajax.dataSrc = function(json) { - DT_rows_all = $.makeArray(json.DT_rows_all); - DT_rows_current = $.makeArray(json.DT_rows_current); - var data = json.data; - if (!colReorderEnabled()) return data; - var table = $table.DataTable(), order = table.colReorder.order(), flag = true, i, j, row; - for (i = 0; i < order.length; ++i) if (order[i] !== i) flag = false; - if (flag) return data; - for (i = 0; i < data.length; ++i) { - row = data[i].slice(); - for (j = 0; j < order.length; ++j) data[i][j] = row[order[j]]; - } - return data; - }; - } - - var thiz = this; - if (instance.fillContainer) $table.on('init.dt', function(e) { - thiz.fillAvailableHeight(el, $(el).innerHeight()); - }); - // If the page contains serveral datatables and one of which enables colReorder, - // the table.colReorder.order() function will exist but throws error when called. - // So it seems like the only way to know if colReorder is enabled or not is to - // check the options. - var colReorderEnabled = function() { return "colReorder" in options; }; - var table = $table.DataTable(options); - $el.data('datatable', table); - - if ('rowGroup' in options) { - // Maintain RowGroup dataSrc when columns are reordered (#1109) - table.on('column-reorder', function(e, settings, details) { - var oldDataSrc = table.rowGroup().dataSrc(); - var newDataSrc = details.mapping[oldDataSrc]; - table.rowGroup().dataSrc(newDataSrc); - }); - } - - // Unregister previous Crosstalk event subscriptions, if they exist - if (instance.ctfilterSubscription) { - instance.ctfilterHandle.off("change", instance.ctfilterSubscription); - instance.ctfilterSubscription = null; - } - if (instance.ctselectSubscription) { - instance.ctselectHandle.off("change", instance.ctselectSubscription); - instance.ctselectSubscription = null; - } - - if (!crosstalkOptions.group) { - $table[0].ctfilter = null; - $table[0].ctselect = null; - } else { - var key = crosstalkOptions.key; - function keysToMatches(keys) { - if (!keys) { - return null; - } else { - var selectedKeys = {}; - for (var i = 0; i < keys.length; i++) { - selectedKeys[keys[i]] = true; - } - var matches = {}; - for (var j = 0; j < key.length; j++) { - if (selectedKeys[key[j]]) - matches[j] = true; - } - return matches; - } - } - - function applyCrosstalkFilter(e) { - $table[0].ctfilter = keysToMatches(e.value); - table.draw(); - } - instance.ctfilterSubscription = instance.ctfilterHandle.on("change", applyCrosstalkFilter); - applyCrosstalkFilter({value: instance.ctfilterHandle.filteredKeys}); - - function applyCrosstalkSelection(e) { - if (e.sender !== instance.ctselectHandle) { - table - .rows('.' + selClass, {search: 'applied'}) - .nodes() - .to$() - .removeClass(selClass); - if (selectedRows) - changeInput('rows_selected', selectedRows(), void 0, true); - } - - if (e.sender !== instance.ctselectHandle && e.value && e.value.length) { - var matches = keysToMatches(e.value); - - // persistent selection with plotly (& leaflet) - var ctOpts = crosstalk.var("plotlyCrosstalkOpts").get() || {}; - if (ctOpts.persistent === true) { - var matches = $.extend(matches, $table[0].ctselect); - } - - $table[0].ctselect = matches; - table.draw(); - } else { - if ($table[0].ctselect) { - $table[0].ctselect = null; - table.draw(); - } - } - } - instance.ctselectSubscription = instance.ctselectHandle.on("change", applyCrosstalkSelection); - // TODO: This next line doesn't seem to work when renderDataTable is used - applyCrosstalkSelection({value: instance.ctselectHandle.value}); - } - - var inArray = function(val, array) { - return $.inArray(val, $.makeArray(array)) > -1; - }; - - // search the i-th column - var searchColumn = function(i, value) { - var regex = false, ci = true; - if (options.search) { - regex = options.search.regex, - ci = options.search.caseInsensitive !== false; - } - // need to transpose the column index when colReorder is enabled - if (table.colReorder) i = table.colReorder.transpose(i); - return table.column(i).search(value, regex, !regex, ci); - }; - - if (data.filter !== 'none') { - if (!data.hasOwnProperty('filterSettings')) data.filterSettings = {}; - - filterRow.each(function(i, td) { - - var $td = $(td), type = $td.data('type'), filter; - var $input = $td.children('div').first().children('input'); - var disabled = $input.prop('disabled'); - var searchable = table.settings()[0].aoColumns[i].bSearchable; - $input.prop('disabled', !searchable || disabled); - $input.data('searchable', searchable); // for updating later - $input.on('input blur', function() { - $input.next('span').toggle(Boolean($input.val())); - }); - // Bootstrap sets pointer-events to none and we won't be able to click - // the clear button - $input.next('span').css('pointer-events', 'auto').hide().click(function() { - $(this).hide().prev('input').val('').trigger('input').focus(); - }); - var searchCol; // search string for this column - if (searchCols && searchCols[i]) { - searchCol = searchCols[i]; - $input.val(searchCol).trigger('input'); - } - var $x = $td.children('div').last(); - - // remove the overflow: hidden attribute of the scrollHead - // (otherwise the scrolling table body obscures the filters) - // The workaround and the discussion from - // https://github.com/rstudio/DT/issues/554#issuecomment-518007347 - // Otherwise the filter selection will not be anchored to the values - // when the columns number is many and scrollX is enabled. - var scrollHead = $(el).find('.dataTables_scrollHead,.dataTables_scrollFoot'); - var cssOverflowHead = scrollHead.css('overflow'); - var scrollBody = $(el).find('.dataTables_scrollBody'); - var cssOverflowBody = scrollBody.css('overflow'); - var scrollTable = $(el).find('.dataTables_scroll'); - var cssOverflowTable = scrollTable.css('overflow'); - if (cssOverflowHead === 'hidden') { - $x.on('show hide', function(e) { - if (e.type === 'show') { - scrollHead.css('overflow', 'visible'); - scrollBody.css('overflow', 'visible'); - scrollTable.css('overflow-x', 'scroll'); - } else { - scrollHead.css('overflow', cssOverflowHead); - scrollBody.css('overflow', cssOverflowBody); - scrollTable.css('overflow-x', cssOverflowTable); - } - }); - $x.css('z-index', 25); - } - - if (inArray(type, ['factor', 'logical'])) { - $input.on({ - click: function() { - $input.parent().hide(); $x.show().trigger('show'); filter[0].selectize.focus(); - }, - input: function() { - var v1 = JSON.stringify(filter[0].selectize.getValue()), v2 = $input.val(); - if (v1 === '[]') v1 = ''; - if (v1 !== v2) filter[0].selectize.setValue(v2 === '' ? [] : JSON.parse(v2)); - } - }); - var $input2 = $x.children('select'); - filter = $input2.selectize($.extend({ - options: $input2.data('options').map(function(v, i) { - return ({text: v, value: v}); - }), - plugins: ['remove_button'], - hideSelected: true, - onChange: function(value) { - if (value === null) value = []; // compatibility with jQuery 3.0 - $input.val(value.length ? JSON.stringify(value) : ''); - if (value.length) $input.trigger('input'); - $input.attr('title', $input.val()); - if (server) { - searchColumn(i, value.length ? JSON.stringify(value) : '').draw(); - return; - } - // turn off filter if nothing selected - $td.data('filter', value.length > 0); - table.draw(); // redraw table, and filters will be applied - } - }, data.filterSettings.select)); - filter[0].selectize.on('blur', function() { - $x.hide().trigger('hide'); $input.parent().show(); $input.trigger('blur'); - }); - filter.next('div').css('margin-bottom', 'auto'); - } else if (type === 'character') { - var fun = function() { - searchColumn(i, $input.val()).draw(); - }; - // throttle searching for server-side processing - var throttledFun = $.fn.dataTable.util.throttle(fun, options.searchDelay); - $input.on('input', function(e, immediate) { - // always bypass throttling when immediate = true (via the updateSearch method) - (immediate || !server) ? fun() : throttledFun(); - }); - } else if (inArray(type, ['number', 'integer', 'date', 'time'])) { - var $x0 = $x; - $x = $x0.children('div').first(); - $x0.css({ - 'background-color': '#fff', - 'border': '1px #ddd solid', - 'border-radius': '4px', - 'padding': data.vertical ? '35px 20px': '20px 20px 10px 20px' - }); - var $spans = $x0.children('span').css({ - 'margin-top': data.vertical ? '0' : '10px', - 'white-space': 'nowrap' - }); - var $span1 = $spans.first(), $span2 = $spans.last(); - var r1 = +$x.data('min'), r2 = +$x.data('max'); - // when the numbers are too small or have many decimal places, the - // slider may have numeric precision problems (#150) - var scale = Math.pow(10, Math.max(0, +$x.data('scale') || 0)); - r1 = Math.round(r1 * scale); r2 = Math.round(r2 * scale); - var scaleBack = function(x, scale) { - if (scale === 1) return x; - var d = Math.round(Math.log(scale) / Math.log(10)); - // to avoid problems like 3.423/100 -> 0.034230000000000003 - return (x / scale).toFixed(d); - }; - var slider_min = function() { - return filter.noUiSlider('options').range.min; - }; - var slider_max = function() { - return filter.noUiSlider('options').range.max; - }; - $input.on({ - focus: function() { - $x0.show().trigger('show'); - // first, make sure the slider div leaves at least 20px between - // the two (slider value) span's - $x0.width(Math.max(160, $span1.outerWidth() + $span2.outerWidth() + 20)); - // then, if the input is really wide or slider is vertical, - // make the slider the same width as the input - if ($x0.outerWidth() < $input.outerWidth() || data.vertical) { - $x0.outerWidth($input.outerWidth()); - } - // make sure the slider div does not reach beyond the right margin - if ($(window).width() < $x0.offset().left + $x0.width()) { - $x0.offset({ - 'left': $input.offset().left + $input.outerWidth() - $x0.outerWidth() - }); - } - }, - blur: function() { - $x0.hide().trigger('hide'); - }, - input: function() { - if ($input.val() === '') filter.val([slider_min(), slider_max()]); - }, - change: function() { - var v = $input.val().replace(/\s/g, ''); - if (v === '') return; - v = v.split('...'); - if (v.length !== 2) { - $input.parent().addClass('has-error'); - return; - } - if (v[0] === '') v[0] = slider_min(); - if (v[1] === '') v[1] = slider_max(); - $input.parent().removeClass('has-error'); - // treat date as UTC time at midnight - var strTime = function(x) { - var s = type === 'date' ? 'T00:00:00Z' : ''; - var t = new Date(x + s).getTime(); - // add 10 minutes to date since it does not hurt the date, and - // it helps avoid the tricky floating point arithmetic problems, - // e.g. sometimes the date may be a few milliseconds earlier - // than the midnight due to precision problems in noUiSlider - return type === 'date' ? t + 3600000 : t; - }; - if (inArray(type, ['date', 'time'])) { - v[0] = strTime(v[0]); - v[1] = strTime(v[1]); - } - if (v[0] != slider_min()) v[0] *= scale; - if (v[1] != slider_max()) v[1] *= scale; - filter.val(v); - } - }); - var formatDate = function(d) { - d = scaleBack(d, scale); - if (type === 'number') return d; - if (type === 'integer') return parseInt(d); - var x = new Date(+d); - if (type === 'date') { - var pad0 = function(x) { - return ('0' + x).substr(-2, 2); - }; - return x.getUTCFullYear() + '-' + pad0(1 + x.getUTCMonth()) - + '-' + pad0(x.getUTCDate()); - } else { - return x.toISOString(); - } - }; - var opts = type === 'date' ? { step: 60 * 60 * 1000 } : - type === 'integer' ? { step: 1 } : {}; - - opts.orientation = data.vertical ? 'vertical': 'horizontal'; - opts.direction = data.vertical ? 'rtl': 'ltr'; - - filter = $x.noUiSlider($.extend({ - start: [r1, r2], - range: {min: r1, max: r2}, - connect: true - }, opts, data.filterSettings.slider)); - if (scale > 1) (function() { - var t1 = r1, t2 = r2; - var val = filter.val(); - while (val[0] > r1 || val[1] < r2) { - if (val[0] > r1) { - t1 -= val[0] - r1; - } - if (val[1] < r2) { - t2 += r2 - val[1]; - } - filter = $x.noUiSlider($.extend({ - start: [t1, t2], - range: {min: t1, max: t2}, - connect: true - }, opts, data.filterSettings.slider), true); - val = filter.val(); - } - r1 = t1; r2 = t2; - })(); - // format with active column renderer, if defined - var colDef = data.options.columnDefs.find(function(def) { - return (def.targets === i || inArray(i, def.targets)) && 'render' in def; - }); - var updateSliderText = function(v1, v2) { - // we only know how to use function renderers - if (colDef && typeof colDef.render === 'function') { - var restore = function(v) { - v = scaleBack(v, scale); - return inArray(type, ['date', 'time']) ? new Date(+v) : v; - } - $span1.text(colDef.render(restore(v1), 'display')); - $span2.text(colDef.render(restore(v2), 'display')); - } else { - $span1.text(formatDate(v1)); - $span2.text(formatDate(v2)); - } - }; - updateSliderText(r1, r2); - var updateSlider = function(e) { - var val = filter.val(); - // turn off filter if in full range - $td.data('filter', val[0] > slider_min() || val[1] < slider_max()); - var v1 = formatDate(val[0]), v2 = formatDate(val[1]), ival; - if ($td.data('filter')) { - ival = v1 + ' ... ' + v2; - $input.attr('title', ival).val(ival).trigger('input'); - } else { - $input.attr('title', '').val(''); - } - updateSliderText(val[0], val[1]); - if (e.type === 'slide') return; // no searching when sliding only - if (server) { - searchColumn(i, $td.data('filter') ? ival : '').draw(); - return; - } - table.draw(); - }; - filter.on({ - set: updateSlider, - slide: updateSlider - }); - } - - // server-side processing will be handled by R (or whatever server - // language you use); the following code is only needed for client-side - // processing - if (server) { - // if a search string has been pre-set, search now - if (searchCol) $input.trigger('input').trigger('change'); - return; - } - - var customFilter = function(settings, data, dataIndex) { - // there is no way to attach a search function to a specific table, - // and we need to make sure a global search function is not applied to - // all tables (i.e. a range filter in a previous table should not be - // applied to the current table); we use the settings object to - // determine if we want to perform searching on the current table, - // since settings.sTableId will be different to different tables - if (table.settings()[0] !== settings) return true; - // no filter on this column or no need to filter this column - if (typeof filter === 'undefined' || !$td.data('filter')) return true; - - var r = filter.val(), v, r0, r1; - var i_data = function(i) { - if (!colReorderEnabled()) return i; - var order = table.colReorder.order(), k; - for (k = 0; k < order.length; ++k) if (order[k] === i) return k; - return i; // in theory it will never be here... - } - v = data[i_data(i)]; - if (type === 'number' || type === 'integer') { - v = parseFloat(v); - // how to handle NaN? currently exclude these rows - if (isNaN(v)) return(false); - r0 = parseFloat(scaleBack(r[0], scale)) - r1 = parseFloat(scaleBack(r[1], scale)); - if (v >= r0 && v <= r1) return true; - } else if (type === 'date' || type === 'time') { - v = new Date(v); - r0 = new Date(r[0] / scale); r1 = new Date(r[1] / scale); - if (v >= r0 && v <= r1) return true; - } else if (type === 'factor') { - if (r.length === 0 || inArray(v, r)) return true; - } else if (type === 'logical') { - if (r.length === 0) return true; - if (inArray(v === '' ? 'na' : v, r)) return true; - } - return false; - }; - - $.fn.dataTable.ext.search.push(customFilter); - - // search for the preset search strings if it is non-empty - if (searchCol) $input.trigger('input').trigger('change'); - - }); - - } - - // highlight search keywords - var highlight = function() { - var body = $(table.table().body()); - // removing the old highlighting first - body.unhighlight(); - - // don't highlight the "not found" row, so we get the rows using the api - if (table.rows({ filter: 'applied' }).data().length === 0) return; - // highlight global search keywords - body.highlight($.trim(table.search()).split(/\s+/)); - // then highlight keywords from individual column filters - if (filterRow) filterRow.each(function(i, td) { - var $td = $(td), type = $td.data('type'); - if (type !== 'character') return; - var $input = $td.children('div').first().children('input'); - var column = table.column(i).nodes().to$(), - val = $.trim($input.val()); - if (type !== 'character' || val === '') return; - column.highlight(val.split(/\s+/)); - }); - }; - - if (options.searchHighlight) { - table - .on('draw.dt.dth column-visibility.dt.dth column-reorder.dt.dth', highlight) - .on('destroy', function() { - // remove event handler - table.off('draw.dt.dth column-visibility.dt.dth column-reorder.dt.dth'); - }); - - // Set the option for escaping regex characters in our search string. This will be used - // for all future matching. - jQuery.fn.highlight.options.escapeRegex = (!options.search || !options.search.regex); - - // initial highlight for state saved conditions and initial states - highlight(); - } - - // run the callback function on the table instance - if (typeof data.callback === 'function') data.callback(table); - - // double click to edit the cell, row, column, or all cells - if (data.editable) table.on('dblclick.dt', 'tbody td', function(e) { - // only bring up the editor when the cell itself is dbclicked, and ignore - // other dbclick events bubbled up (e.g. from the ) - if (e.target !== this) return; - var target = [], immediate = false; - switch (data.editable.target) { - case 'cell': - target = [this]; - immediate = true; // edit will take effect immediately - break; - case 'row': - target = table.cells(table.cell(this).index().row, '*').nodes(); - break; - case 'column': - target = table.cells('*', table.cell(this).index().column).nodes(); - break; - case 'all': - target = table.cells().nodes(); - break; - default: - throw 'The editable parameter must be "cell", "row", "column", or "all"'; - } - var disableCols = data.editable.disable ? data.editable.disable.columns : null; - var numericCols = data.editable.numeric; - var areaCols = data.editable.area; - var dateCols = data.editable.date; - for (var i = 0; i < target.length; i++) { - (function(cell, current) { - var $cell = $(cell), html = $cell.html(); - var _cell = table.cell(cell), value = _cell.data(), index = _cell.index().column; - var $input; - if (inArray(index, numericCols)) { - $input = $(''); - } else if (inArray(index, areaCols)) { - $input = $(''); - } else if (inArray(index, dateCols)) { - $input = $(''); - } else { - $input = $(''); - } - if (!immediate) { - $cell.data('input', $input).data('html', html); - $input.attr('title', 'Hit Ctrl+Enter to finish editing, or Esc to cancel'); - } - $input.val(value); - if (inArray(index, disableCols)) { - $input.attr('readonly', '').css('filter', 'invert(25%)'); - } - $cell.empty().append($input); - if (cell === current) $input.focus(); - $input.css('width', '100%'); - - if (immediate) $input.on('blur', function(e) { - var valueNew = $input.val(); - if (valueNew !== value) { - _cell.data(valueNew); - if (HTMLWidgets.shinyMode) { - changeInput('cell_edit', [cellInfo(cell)], 'DT.cellInfo', null, {priority: 'event'}); - } - // for server-side processing, users have to call replaceData() to update the table - if (!server) table.draw(false); - } else { - $cell.html(html); - } - }).on('keyup', function(e) { - // hit Escape to cancel editing - if (e.keyCode === 27) $input.trigger('blur'); - }); - - // bulk edit (row, column, or all) - if (!immediate) $input.on('keyup', function(e) { - var removeInput = function($cell, restore) { - $cell.data('input').remove(); - if (restore) $cell.html($cell.data('html')); - } - if (e.keyCode === 27) { - for (var i = 0; i < target.length; i++) { - removeInput($(target[i]), true); - } - } else if (e.keyCode === 13 && e.ctrlKey) { - // Ctrl + Enter - var cell, $cell, _cell, cellData = []; - for (var i = 0; i < target.length; i++) { - cell = target[i]; $cell = $(cell); _cell = table.cell(cell); - _cell.data($cell.data('input').val()); - HTMLWidgets.shinyMode && cellData.push(cellInfo(cell)); - removeInput($cell, false); - } - if (HTMLWidgets.shinyMode) { - changeInput('cell_edit', cellData, 'DT.cellInfo', null, {priority: "event"}); - } - if (!server) table.draw(false); - } - }); - })(target[i], this); - } - }); - - // interaction with shiny - if (!HTMLWidgets.shinyMode && !crosstalkOptions.group) return; - - var methods = {}; - var shinyData = {}; - - methods.updateCaption = function(caption) { - if (!caption) return; - $table.children('caption').replaceWith(caption); - } - - // register clear functions to remove input values when the table is removed - instance.clearInputs = {}; - - var changeInput = function(id, value, type, noCrosstalk, opts) { - var event = id; - id = el.id + '_' + id; - if (type) id = id + ':' + type; - // do not update if the new value is the same as old value - if (event !== 'cell_edit' && !/_clicked$/.test(event) && shinyData.hasOwnProperty(id) && shinyData[id] === JSON.stringify(value)) - return; - shinyData[id] = JSON.stringify(value); - if (HTMLWidgets.shinyMode && Shiny.setInputValue) { - Shiny.setInputValue(id, value, opts); - if (!instance.clearInputs[id]) instance.clearInputs[id] = function() { - Shiny.setInputValue(id, null); - } - } - - // HACK - if (event === "rows_selected" && !noCrosstalk) { - if (crosstalkOptions.group) { - var keys = crosstalkOptions.key; - var selectedKeys = null; - if (value) { - selectedKeys = []; - for (var i = 0; i < value.length; i++) { - // The value array's contents use 1-based row numbers, so we must - // convert to 0-based before indexing into the keys array. - selectedKeys.push(keys[value[i] - 1]); - } - } - instance.ctselectHandle.set(selectedKeys); - } - } - }; - - var addOne = function(x) { - return x.map(function(i) { return 1 + i; }); - }; - - var unique = function(x) { - var ux = []; - $.each(x, function(i, el){ - if ($.inArray(el, ux) === -1) ux.push(el); - }); - return ux; - } - - // change the row index of a cell - var tweakCellIndex = function(cell) { - var info = cell.index(); - // some cell may not be valid. e.g, #759 - // when using the RowGroup extension, datatables will - // generate the row label and the cells are not part of - // the data thus contain no row/col info - if (info === undefined) - return {row: null, col: null}; - if (server) { - info.row = DT_rows_current[info.row]; - } else { - info.row += 1; - } - return {row: info.row, col: info.column}; - } - - var cleanSelectedValues = function() { - changeInput('rows_selected', []); - changeInput('columns_selected', []); - changeInput('cells_selected', transposeArray2D([]), 'shiny.matrix'); - } - // #828 we should clean the selection on the server-side when the table reloads - cleanSelectedValues(); - - // a flag to indicates if select extension is initialized or not - var flagSelectExt = table.settings()[0]._select !== undefined; - // the Select extension should only be used in the client mode and - // when the selection.mode is set to none - if (data.selection.mode === 'none' && !server && flagSelectExt) { - var updateRowsSelected = function() { - var rows = table.rows({selected: true}); - var selected = []; - $.each(rows.indexes().toArray(), function(i, v) { - selected.push(v + 1); - }); - changeInput('rows_selected', selected); - } - var updateColsSelected = function() { - var columns = table.columns({selected: true}); - changeInput('columns_selected', columns.indexes().toArray()); - } - var updateCellsSelected = function() { - var cells = table.cells({selected: true}); - var selected = []; - cells.every(function() { - var row = this.index().row; - var col = this.index().column; - selected = selected.concat([[row + 1, col]]); - }); - changeInput('cells_selected', transposeArray2D(selected), 'shiny.matrix'); - } - table.on('select deselect', function(e, dt, type, indexes) { - updateRowsSelected(); - updateColsSelected(); - updateCellsSelected(); - }) - updateRowsSelected(); - updateColsSelected(); - updateCellsSelected(); - } - - var selMode = data.selection.mode, selTarget = data.selection.target; - var selDisable = data.selection.selectable === false; - if (inArray(selMode, ['single', 'multiple'])) { - var selClass = inArray(data.style, ['bootstrap', 'bootstrap4']) ? 'active' : 'selected'; - // selected1: row indices; selected2: column indices - var initSel = function(x) { - if (x === null || typeof x === 'boolean' || selTarget === 'cell') { - return {rows: [], cols: []}; - } else if (selTarget === 'row') { - return {rows: $.makeArray(x), cols: []}; - } else if (selTarget === 'column') { - return {rows: [], cols: $.makeArray(x)}; - } else if (selTarget === 'row+column') { - return {rows: $.makeArray(x.rows), cols: $.makeArray(x.cols)}; - } - } - var selected = data.selection.selected; - var selected1 = initSel(selected).rows, selected2 = initSel(selected).cols; - // selectable should contain either all positive or all non-positive values, not both - // positive values indicate "selectable" while non-positive values means "nonselectable" - // the assertion is performed on R side. (only column indicides could be zero which indicates - // the row name) - var selectable = data.selection.selectable; - var selectable1 = initSel(selectable).rows, selectable2 = initSel(selectable).cols; - - // After users reorder the rows or filter the table, we cannot use the table index - // directly. Instead, we need this function to find out the rows between the two clicks. - // If user filter the table again between the start click and the end click, the behavior - // would be undefined, but it should not be a problem. - var shiftSelRowsIndex = function(start, end) { - var indexes = server ? DT_rows_all : table.rows({ search: 'applied' }).indexes().toArray(); - start = indexes.indexOf(start); end = indexes.indexOf(end); - // if start is larger than end, we need to swap - if (start > end) { - var tmp = end; end = start; start = tmp; - } - return indexes.slice(start, end + 1); - } - - var serverRowIndex = function(clientRowIndex) { - return server ? DT_rows_current[clientRowIndex] : clientRowIndex + 1; - } - - // row, column, or cell selection - var lastClickedRow; - if (inArray(selTarget, ['row', 'row+column'])) { - // Get the current selected rows. It will also - // update the selected1's value based on the current row selection state - // Note we can't put this function inside selectRows() directly, - // the reason is method.selectRows() will override selected1's value but this - // function will add rows to selected1 (keep the existing selection), which is - // inconsistent with column and cell selection. - var selectedRows = function() { - var rows = table.rows('.' + selClass); - var idx = rows.indexes().toArray(); - if (!server) { - selected1 = addOne(idx); - return selected1; - } - idx = idx.map(function(i) { - return DT_rows_current[i]; - }); - selected1 = selMode === 'multiple' ? unique(selected1.concat(idx)) : idx; - return selected1; - } - // Change selected1's value based on selectable1, then refresh the row state - var onlyKeepSelectableRows = function() { - if (selDisable) { // users can't select; useful when only want backend select - selected1 = []; - return; - } - if (selectable1.length === 0) return; - var nonselectable = selectable1[0] <= 0; - if (nonselectable) { - // should make selectable1 positive - selected1 = $(selected1).not(selectable1.map(function(i) { return -i; })).get(); - } else { - selected1 = $(selected1).filter(selectable1).get(); - } - } - // Change selected1's value based on selectable1, then - // refresh the row selection state according to values in selected1 - var selectRows = function(ignoreSelectable) { - if (!ignoreSelectable) onlyKeepSelectableRows(); - table.$('tr.' + selClass).removeClass(selClass); - if (selected1.length === 0) return; - if (server) { - table.rows({page: 'current'}).every(function() { - if (inArray(DT_rows_current[this.index()], selected1)) { - $(this.node()).addClass(selClass); - } - }); - } else { - var selected0 = selected1.map(function(i) { return i - 1; }); - $(table.rows(selected0).nodes()).addClass(selClass); - } - } - table.on('mousedown.dt', 'tbody tr', function(e) { - var $this = $(this), thisRow = table.row(this); - if (selMode === 'multiple') { - if (e.shiftKey && lastClickedRow !== undefined) { - // select or de-select depends on the last clicked row's status - var flagSel = !$this.hasClass(selClass); - var crtClickedRow = serverRowIndex(thisRow.index()); - if (server) { - var rowsIndex = shiftSelRowsIndex(lastClickedRow, crtClickedRow); - // update current page's selClass - rowsIndex.map(function(i) { - var rowIndex = DT_rows_current.indexOf(i); - if (rowIndex >= 0) { - var row = table.row(rowIndex).nodes().to$(); - var flagRowSel = !row.hasClass(selClass); - if (flagSel === flagRowSel) row.toggleClass(selClass); - } - }); - // update selected1 - if (flagSel) { - selected1 = unique(selected1.concat(rowsIndex)); - } else { - selected1 = selected1.filter(function(index) { - return !inArray(index, rowsIndex); - }); - } - } else { - // js starts from 0 - shiftSelRowsIndex(lastClickedRow - 1, crtClickedRow - 1).map(function(value) { - var row = table.row(value).nodes().to$(); - var flagRowSel = !row.hasClass(selClass); - if (flagSel === flagRowSel) row.toggleClass(selClass); - }); - } - e.preventDefault(); - } else { - $this.toggleClass(selClass); - } - } else { - if ($this.hasClass(selClass)) { - $this.removeClass(selClass); - } else { - table.$('tr.' + selClass).removeClass(selClass); - $this.addClass(selClass); - } - } - if (server && !$this.hasClass(selClass)) { - var id = DT_rows_current[thisRow.index()]; - // remove id from selected1 since its class .selected has been removed - if (inArray(id, selected1)) selected1.splice($.inArray(id, selected1), 1); - } - selectedRows(); // update selected1's value based on selClass - selectRows(false); // only keep the selectable rows - changeInput('rows_selected', selected1); - changeInput('row_last_clicked', serverRowIndex(thisRow.index()), null, null, {priority: 'event'}); - lastClickedRow = serverRowIndex(thisRow.index()); - }); - selectRows(false); // in case users have specified pre-selected rows - // restore selected rows after the table is redrawn (e.g. sort/search/page); - // client-side tables will preserve the selections automatically; for - // server-side tables, we have to *real* row indices are in `selected1` - changeInput('rows_selected', selected1); - if (server) table.on('draw.dt', function(e) { selectRows(false); }); - methods.selectRows = function(selected, ignoreSelectable) { - selected1 = $.makeArray(selected); - selectRows(ignoreSelectable); - changeInput('rows_selected', selected1); - } - } - - if (inArray(selTarget, ['column', 'row+column'])) { - if (selTarget === 'row+column') { - $(table.columns().footer()).css('cursor', 'pointer'); - } - // update selected2's value based on selectable2 - var onlyKeepSelectableCols = function() { - if (selDisable) { // users can't select; useful when only want backend select - selected2 = []; - return; - } - if (selectable2.length === 0) return; - var nonselectable = selectable2[0] <= 0; - if (nonselectable) { - // need to make selectable2 positive - selected2 = $(selected2).not(selectable2.map(function(i) { return -i; })).get(); - } else { - selected2 = $(selected2).filter(selectable2).get(); - } - } - // update selected2 and then - // refresh the col selection state according to values in selected2 - var selectCols = function(ignoreSelectable) { - if (!ignoreSelectable) onlyKeepSelectableCols(); - // if selected2 is not a valide index (e.g., larger than the column number) - // table.columns(selected2) will fail and result in a blank table - // this is different from the table.rows(), where the out-of-range indexes - // doesn't affect at all - selected2 = $(selected2).filter(table.columns().indexes()).get(); - table.columns().nodes().flatten().to$().removeClass(selClass); - if (selected2.length > 0) - table.columns(selected2).nodes().flatten().to$().addClass(selClass); - } - var callback = function() { - var colIdx = selTarget === 'column' ? table.cell(this).index().column : - $.inArray(this, table.columns().footer()), - thisCol = $(table.column(colIdx).nodes()); - if (colIdx === -1) return; - if (thisCol.hasClass(selClass)) { - thisCol.removeClass(selClass); - selected2.splice($.inArray(colIdx, selected2), 1); - } else { - if (selMode === 'single') $(table.cells().nodes()).removeClass(selClass); - thisCol.addClass(selClass); - selected2 = selMode === 'single' ? [colIdx] : unique(selected2.concat([colIdx])); - } - selectCols(false); // update selected2 based on selectable - changeInput('columns_selected', selected2); - } - if (selTarget === 'column') { - $(table.table().body()).on('click.dt', 'td', callback); - } else { - $(table.table().footer()).on('click.dt', 'tr th', callback); - } - selectCols(false); // in case users have specified pre-selected columns - changeInput('columns_selected', selected2); - if (server) table.on('draw.dt', function(e) { selectCols(false); }); - methods.selectColumns = function(selected, ignoreSelectable) { - selected2 = $.makeArray(selected); - selectCols(ignoreSelectable); - changeInput('columns_selected', selected2); - } - } - - if (selTarget === 'cell') { - var selected3 = [], selectable3 = []; - if (selected !== null) selected3 = selected; - if (selectable !== null && typeof selectable !== 'boolean') selectable3 = selectable; - var findIndex = function(ij, sel) { - for (var i = 0; i < sel.length; i++) { - if (ij[0] === sel[i][0] && ij[1] === sel[i][1]) return i; - } - return -1; - } - // Change selected3's value based on selectable3, then refresh the cell state - var onlyKeepSelectableCells = function() { - if (selDisable) { // users can't select; useful when only want backend select - selected3 = []; - return; - } - if (selectable3.length === 0) return; - var nonselectable = selectable3[0][0] <= 0; - var out = []; - if (nonselectable) { - selected3.map(function(ij) { - // should make selectable3 positive - if (findIndex([-ij[0], -ij[1]], selectable3) === -1) { out.push(ij); } - }); - } else { - selected3.map(function(ij) { - if (findIndex(ij, selectable3) > -1) { out.push(ij); } - }); - } - selected3 = out; - } - // Change selected3's value based on selectable3, then - // refresh the cell selection state according to values in selected3 - var selectCells = function(ignoreSelectable) { - if (!ignoreSelectable) onlyKeepSelectableCells(); - table.$('td.' + selClass).removeClass(selClass); - if (selected3.length === 0) return; - if (server) { - table.cells({page: 'current'}).every(function() { - var info = tweakCellIndex(this); - if (findIndex([info.row, info.col], selected3) > -1) - $(this.node()).addClass(selClass); - }); - } else { - selected3.map(function(ij) { - $(table.cell(ij[0] - 1, ij[1]).node()).addClass(selClass); - }); - } - }; - table.on('click.dt', 'tbody td', function() { - var $this = $(this), info = tweakCellIndex(table.cell(this)); - if ($this.hasClass(selClass)) { - $this.removeClass(selClass); - selected3.splice(findIndex([info.row, info.col], selected3), 1); - } else { - if (selMode === 'single') $(table.cells().nodes()).removeClass(selClass); - $this.addClass(selClass); - selected3 = selMode === 'single' ? [[info.row, info.col]] : - unique(selected3.concat([[info.row, info.col]])); - } - selectCells(false); // must call this to update selected3 based on selectable3 - changeInput('cells_selected', transposeArray2D(selected3), 'shiny.matrix'); - }); - selectCells(false); // in case users have specified pre-selected columns - changeInput('cells_selected', transposeArray2D(selected3), 'shiny.matrix'); - - if (server) table.on('draw.dt', function(e) { selectCells(false); }); - methods.selectCells = function(selected, ignoreSelectable) { - selected3 = selected ? selected : []; - selectCells(ignoreSelectable); - changeInput('cells_selected', transposeArray2D(selected3), 'shiny.matrix'); - } - } - } - - // expose some table info to Shiny - var updateTableInfo = function(e, settings) { - // TODO: is anyone interested in the page info? - // changeInput('page_info', table.page.info()); - var updateRowInfo = function(id, modifier) { - var idx; - if (server) { - idx = modifier.page === 'current' ? DT_rows_current : DT_rows_all; - } else { - var rows = table.rows($.extend({ - search: 'applied', - page: 'all' - }, modifier)); - idx = addOne(rows.indexes().toArray()); - } - changeInput('rows' + '_' + id, idx); - }; - updateRowInfo('current', {page: 'current'}); - updateRowInfo('all', {}); - } - table.on('draw.dt', updateTableInfo); - updateTableInfo(); - - // state info - table.on('draw.dt column-visibility.dt', function() { - changeInput('state', table.state()); - }); - changeInput('state', table.state()); - - // search info - var updateSearchInfo = function() { - changeInput('search', table.search()); - if (filterRow) changeInput('search_columns', filterRow.toArray().map(function(td) { - return $(td).find('input').first().val(); - })); - } - table.on('draw.dt', updateSearchInfo); - updateSearchInfo(); - - var cellInfo = function(thiz) { - var info = tweakCellIndex(table.cell(thiz)); - info.value = table.cell(thiz).data(); - return info; - } - // the current cell clicked on - table.on('click.dt', 'tbody td', function() { - changeInput('cell_clicked', cellInfo(this), null, null, {priority: 'event'}); - }) - changeInput('cell_clicked', {}); - - // do not trigger table selection when clicking on links unless they have classes - table.on('mousedown.dt', 'tbody td a', function(e) { - if (this.className === '') e.stopPropagation(); - }); - - methods.addRow = function(data, rowname, resetPaging) { - var n = table.columns().indexes().length, d = n - data.length; - if (d === 1) { - data = rowname.concat(data) - } else if (d !== 0) { - console.log(data); - console.log(table.columns().indexes()); - throw 'New data must be of the same length as current data (' + n + ')'; - }; - table.row.add(data).draw(resetPaging); - } - - methods.updateSearch = function(keywords) { - if (keywords.global !== null) - $(table.table().container()).find('input[type=search]').first() - .val(keywords.global).trigger('input'); - var columns = keywords.columns; - if (!filterRow || columns === null) return; - filterRow.toArray().map(function(td, i) { - var v = typeof columns === 'string' ? columns : columns[i]; - if (typeof v === 'undefined') { - console.log('The search keyword for column ' + i + ' is undefined') - return; - } - // Update column search string and values on linked filter widgets. - // 'input' for factor and char filters, 'change' for numeric filters. - $(td).find('input').first().val(v).trigger('input', [true]).trigger('change'); - }); - table.draw(); - } - - methods.hideCols = function(hide, reset) { - if (reset) table.columns().visible(true, false); - table.columns(hide).visible(false); - } - - methods.showCols = function(show, reset) { - if (reset) table.columns().visible(false, false); - table.columns(show).visible(true); - } - - methods.colReorder = function(order, origOrder) { - table.colReorder.order(order, origOrder); - } - - methods.selectPage = function(page) { - if (table.page.info().pages < page || page < 1) { - throw 'Selected page is out of range'; - }; - table.page(page - 1).draw(false); - } - - methods.reloadData = function(resetPaging, clearSelection) { - // empty selections first if necessary - if (methods.selectRows && inArray('row', clearSelection)) methods.selectRows([]); - if (methods.selectColumns && inArray('column', clearSelection)) methods.selectColumns([]); - if (methods.selectCells && inArray('cell', clearSelection)) methods.selectCells([]); - table.ajax.reload(null, resetPaging); - } - - // update table filters (set new limits of sliders) - methods.updateFilters = function(newProps) { - // loop through each filter in the filter row - filterRow.each(function(i, td) { - var k = i; - if (filterRow.length > newProps.length) { - if (i === 0) return; // first column is row names - k = i - 1; - } - // Update the filters to reflect the updated data. - // Allow "falsy" (e.g. NULL) to signify a no-op. - if (newProps[k]) { - setFilterProps(td, newProps[k]); - } - }); - }; - - table.shinyMethods = methods; - }, - resize: function(el, width, height, instance) { - if (instance.data) this.renderValue(el, instance.data, instance); - - // dynamically adjust height if fillContainer = TRUE - if (instance.fillContainer) - this.fillAvailableHeight(el, height); - - this.adjustWidth(el); - }, - - // dynamically set the scroll body to fill available height - // (used with fillContainer = TRUE) - fillAvailableHeight: function(el, availableHeight) { - - // see how much of the table is occupied by header/footer elements - // and use that to compute a target scroll body height - var dtWrapper = $(el).find('div.dataTables_wrapper'); - var dtScrollBody = $(el).find($('div.dataTables_scrollBody')); - var framingHeight = dtWrapper.innerHeight() - dtScrollBody.innerHeight(); - var scrollBodyHeight = availableHeight - framingHeight; - - // we need to set `max-height` to none as datatables library now sets this - // to a fixed height, disabling the ability to resize to fill the window, - // as it will be set to a fixed 100px under such circumstances, e.g., RStudio IDE, - // or FlexDashboard - // see https://github.com/rstudio/DT/issues/951#issuecomment-1026464509 - dtScrollBody.css('max-height', 'none'); - // set the height - dtScrollBody.height(scrollBodyHeight + 'px'); - }, - - // adjust the width of columns; remove the hard-coded widths on table and the - // scroll header when scrollX/Y are enabled - adjustWidth: function(el) { - var $el = $(el), table = $el.data('datatable'); - if (table) table.columns.adjust(); - $el.find('.dataTables_scrollHeadInner').css('width', '') - .children('table').css('margin-left', ''); - } -}); - - if (!HTMLWidgets.shinyMode) return; - - Shiny.addCustomMessageHandler('datatable-calls', function(data) { - var id = data.id; - var el = document.getElementById(id); - var table = el ? $(el).data('datatable') : null; - if (!table) { - console.log("Couldn't find table with id " + id); - return; - } - - var methods = table.shinyMethods, call = data.call; - if (methods[call.method]) { - methods[call.method].apply(table, call.args); - } else { - console.log("Unknown method " + call.method); - } - }); - -})(); diff --git a/_site/site_libs/datatables-css-0.0.0/datatables-crosstalk.css b/_site/site_libs/datatables-css-0.0.0/datatables-crosstalk.css deleted file mode 100644 index bd1159c..0000000 --- a/_site/site_libs/datatables-css-0.0.0/datatables-crosstalk.css +++ /dev/null @@ -1,32 +0,0 @@ -.dt-crosstalk-fade { - opacity: 0.2; -} - -html body div.DTS div.dataTables_scrollBody { - background: none; -} - - -/* -Fix https://github.com/rstudio/DT/issues/563 -If the `table.display` is set to "block" (e.g., pkgdown), the browser will display -datatable objects strangely. The search panel and the page buttons will still be -in full-width but the table body will be "compact" and shorter. -In therory, having this attributes will affect `dom="t"` -with `display: block` users. But in reality, there should be no one. -We may remove the below lines in the future if the upstream agree to have this there. -See https://github.com/DataTables/DataTablesSrc/issues/160 -*/ - -table.dataTable { - display: table; -} - - -/* -When DTOutput(fill = TRUE), it receives a .html-fill-item class (via htmltools::bindFillRole()), which effectively amounts to `flex: 1 1 auto`. That's mostly fine, but the case where `fillContainer=TRUE`+`height:auto`+`flex-basis:auto` and the container (e.g., a bslib::card()) doesn't have a defined height is a bit problematic since the table wants to fit the parent but the parent wants to fit the table, which results pretty small table height (maybe because there is a minimum height somewhere?). It seems better in this case to impose a 400px height default for the table, which we can do by setting `flex-basis` to 400px (the table is still allowed to grow/shrink when the container has an opinionated height). -*/ - -.html-fill-container > .html-fill-item.datatables { - flex-basis: 400px; -} diff --git a/_site/site_libs/dt-core-bootstrap-1.13.6/css/dataTables.bootstrap.extra.css b/_site/site_libs/dt-core-bootstrap-1.13.6/css/dataTables.bootstrap.extra.css deleted file mode 100644 index 2a14366..0000000 --- a/_site/site_libs/dt-core-bootstrap-1.13.6/css/dataTables.bootstrap.extra.css +++ /dev/null @@ -1,78 +0,0 @@ -table.dataTable th.dt-left, -table.dataTable td.dt-left { - text-align: left; -} -table.dataTable th.dt-center, -table.dataTable td.dt-center, -table.dataTable td.dataTables_empty { - text-align: center; -} -table.dataTable th.dt-right, -table.dataTable td.dt-right { - text-align: right; -} -table.dataTable th.dt-justify, -table.dataTable td.dt-justify { - text-align: justify; -} -table.dataTable th.dt-nowrap, -table.dataTable td.dt-nowrap { - white-space: nowrap; -} -table.dataTable thead th.dt-head-left, -table.dataTable thead td.dt-head-left, -table.dataTable tfoot th.dt-head-left, -table.dataTable tfoot td.dt-head-left { - text-align: left; -} -table.dataTable thead th.dt-head-center, -table.dataTable thead td.dt-head-center, -table.dataTable tfoot th.dt-head-center, -table.dataTable tfoot td.dt-head-center { - text-align: center; -} -table.dataTable thead th.dt-head-right, -table.dataTable thead td.dt-head-right, -table.dataTable tfoot th.dt-head-right, -table.dataTable tfoot td.dt-head-right { - text-align: right; -} -table.dataTable thead th.dt-head-justify, -table.dataTable thead td.dt-head-justify, -table.dataTable tfoot th.dt-head-justify, -table.dataTable tfoot td.dt-head-justify { - text-align: justify; -} -table.dataTable thead th.dt-head-nowrap, -table.dataTable thead td.dt-head-nowrap, -table.dataTable tfoot th.dt-head-nowrap, 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    - - - - \ No newline at end of file diff --git a/docs/search.json b/docs/search.json index 6b0057e..0f54895 100644 --- a/docs/search.json +++ b/docs/search.json @@ -1,40 +1,4 @@ [ - { -<<<<<<< HEAD - "objectID": "Spatial_benchmark_heatmap/results/index_old.html", - "href": "Spatial_benchmark_heatmap/results/index_old.html", -======= - "objectID": "results/index_old.html", - "href": "results/index_old.html", ->>>>>>> 9666e27f759c97a1ca5eb36cd17888fc2ca50d1e - "title": "Summary", - "section": "", - "text": "funkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\n/* \nasync function loadData() {\n try {\n const final_data = await FileAttachment(\"./data/final_data2.csv\").csv()\n const column_info = await FileAttachment(\"./data/column_info.csv\").csv()\n const column_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n //const palettes = await FileAttachment(\"./data/palettes.csv\").csv()\n\n console.log(\"FINAL DATA\", final_data)\n console.log(\"COLUMN INFO\", column_info)\n console.log(\"COLUMN GROUPS\", column_groups)\n //console.log(\"palettes\", palettes)\n\n const palettes = [\n {\n overall: \"Greys\",\n palette1: \"Set1\",\n palette2: \"Set2\",\n palette3: \"Set3\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Dark2\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\n function transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\n console.log(\"TRANSPOSE FINAL DATA\", transpose_list_of_objects(final_data))\n console.log(\"TRANSPOSE COLUMN INFO\", transpose_list_of_objects(column_info))\n console.log(\"TRANSPOSE COLUMN GROUPS\", transpose_list_of_objects(column_groups))\n\n funkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );\n\n \n \n //final_data.view()\n\n } catch (error) {\n console.error(\"Error loading data:\", error);\n }\n}\n\nloadData() */\n\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Greens\",\n palette2: \"Blues\",\n palette3: \"Greens\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\nfunction transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\nconsole.log(final_data)\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\nfunkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );" - }, - { -<<<<<<< HEAD - "objectID": "Spatial_benchmark_heatmap/results/index_old.html#results", - "href": "Spatial_benchmark_heatmap/results/index_old.html#results", -======= - "objectID": "results/index_old.html#results", - "href": "results/index_old.html#results", ->>>>>>> 9666e27f759c97a1ca5eb36cd17888fc2ca50d1e - "title": "Summary", - "section": "Results", - "text": "Results\n\n\n\nDisplay settings\n//| echo: false\n\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\nFilter methods\n\nviewof method_ids = Inputs.checkbox(\n final_data.map(item => item.method),\n {\n label: \"Methods:\"\n } \n)\n\n\n\n\n\n\n\nFilter metrics\n\nviewof metric_ids = Inputs.checkbox(\n Object.keys(final_data[0]),\n {\n label: \"Metrics:\"\n }\n)\n\n\n\n\n\n\n\n\n\nInputs.table(final_data)" - }, - { -<<<<<<< HEAD - "objectID": "Spatial_benchmark_heatmap/index.html", - "href": "Spatial_benchmark_heatmap/index.html", -======= - "objectID": "index.html", - "href": "index.html", ->>>>>>> 9666e27f759c97a1ca5eb36cd17888fc2ca50d1e - "title": "About", - "section": "", - "text": "Multi-task benchmarking of spatially resolved gene expression simulation models\nAbstract\nComputational methods for spatially resolved transcriptomics (SRT) are frequently developed and assessed through data simulation. The effectiveness of these evaluations relies on the simulation methods’ ability to accurately reflect experimental data. However, a systematic evaluation framework for spatial simulators is lacking. Here, we present SpatialSimBench, a comprehensive evaluation framework that assesses 13 simulation methods using 10 distinct STR datasets. We introduce simAdaptor, a tool that extends single-cell simulators to incorporate spatial variables, thus enabling them to simulate spatial data. SimAdaptor enables SpatialSimBench to be “back-wards” compatible. That is, it facilitates direct comparison between spatially aware simulators and existing non-spatial single-cell simulators through the adaption. Through SpatialSimBench, we demonstrate the feasibility of leveraging existing single-cell simulators for SRT data and highlight performance differences among methods. Additionally, we evaluate the simulation methods based on a total of 35 metrics across data property estimation, various downstream analysis and scalability. In total, we generated 4550 results from 13 simulation methods, 10 spatial datasets and 35 metrics. Our findings reveal that model estimation can be impacted by distribution assumptions and dataset characteristics. In summary, our evaluation and the evaluation framework will provide guidelines for selecting appropriate methods for specific scenarios and informing future method development.\nResearch paper link" - }, { "objectID": "results/index.html", "href": "results/index.html", @@ -55,7 +19,6 @@ "title": "Summary", "section": "Results - Table", "text": "Results - Table" -<<<<<<< HEAD }, { "objectID": "index.html", @@ -63,42 +26,5 @@ "title": "About", "section": "", "text": "Multi-task benchmarking of spatially resolved gene expression simulation models\nAbstract\nComputational methods for spatially resolved transcriptomics (SRT) are frequently developed and assessed through data simulation. The effectiveness of these evaluations relies on the simulation methods’ ability to accurately reflect experimental data. However, a systematic evaluation framework for spatial simulators is lacking. Here, we present SpatialSimBench, a comprehensive evaluation framework that assesses 13 simulation methods using 10 distinct STR datasets. We introduce simAdaptor, a tool that extends single-cell simulators to incorporate spatial variables, thus enabling them to simulate spatial data. SimAdaptor enables SpatialSimBench to be “back-wards” compatible. That is, it facilitates direct comparison between spatially aware simulators and existing non-spatial single-cell simulators through the adaption. Through SpatialSimBench, we demonstrate the feasibility of leveraging existing single-cell simulators for SRT data and highlight performance differences among methods. Additionally, we evaluate the simulation methods based on a total of 35 metrics across data property estimation, various downstream analysis and scalability. In total, we generated 4550 results from 13 simulation methods, 10 spatial datasets and 35 metrics. Our findings reveal that model estimation can be impacted by distribution assumptions and dataset characteristics. In summary, our evaluation and the evaluation framework will provide guidelines for selecting appropriate methods for specific scenarios and informing future method development.\nResearch paper link" - }, - { - "objectID": "results/index_old.html", - "href": "results/index_old.html", - "title": "Summary", - "section": "", - "text": "funkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\n/* \nasync function loadData() {\n try {\n const final_data = await FileAttachment(\"./data/final_data2.csv\").csv()\n const column_info = await FileAttachment(\"./data/column_info.csv\").csv()\n const column_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n //const palettes = await FileAttachment(\"./data/palettes.csv\").csv()\n\n console.log(\"FINAL DATA\", final_data)\n console.log(\"COLUMN INFO\", column_info)\n console.log(\"COLUMN GROUPS\", column_groups)\n //console.log(\"palettes\", palettes)\n\n const palettes = [\n {\n overall: \"Greys\",\n palette1: \"Set1\",\n palette2: \"Set2\",\n palette3: \"Set3\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Dark2\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\n function transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\n console.log(\"TRANSPOSE FINAL DATA\", transpose_list_of_objects(final_data))\n console.log(\"TRANSPOSE COLUMN INFO\", transpose_list_of_objects(column_info))\n console.log(\"TRANSPOSE COLUMN GROUPS\", transpose_list_of_objects(column_groups))\n\n funkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );\n\n \n \n //final_data.view()\n\n } catch (error) {\n console.error(\"Error loading data:\", error);\n }\n}\n\nloadData() */\n\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Greens\",\n palette2: \"Blues\",\n palette3: \"Greens\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\nfunction transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\nconsole.log(final_data)\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\nfunkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );" - }, - { - "objectID": "results/index_old.html#results", - "href": "results/index_old.html#results", - "title": "Summary", - "section": "Results", - "text": "Results\n\n\n\nDisplay settings\n//| echo: false\n\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\nFilter methods\n\nviewof method_ids = Inputs.checkbox(\n final_data.map(item => item.method),\n {\n label: \"Methods:\"\n } \n)\n\n\n\n\n\n\n\nFilter metrics\n\nviewof metric_ids = Inputs.checkbox(\n Object.keys(final_data[0]),\n {\n label: \"Metrics:\"\n }\n)\n\n\n\n\n\n\n\n\n\nInputs.table(final_data)" - }, - { - "objectID": "Spatial_benchmark_heatmap/results/index.html", - "href": "Spatial_benchmark_heatmap/results/index.html", - "title": "Summary", - "section": "", - "text": "funkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.JSON\").json()\n\n/* console.log(final_data)\nconsole.log(column_info)\nconsole.log(column_groups) */\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Blues\",\n palette2: \"Reds\",\n palette3: \"Greens\",\n palette4: \"YlOrBr\",\n NA: \"Greys\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0]\nfunction removeLastNColumns(data, n) {\n if (data.length === 0 || n <= 0) return data;\n\n // Extract the keys of the columns\n const keys = Object.keys(data[0]);\n\n // Determine the columns to keep\n const columnsToKeep = keys.slice(0, -n);\n\n // Filter columns for each row\n return data.map(row => {\n const newRow = {};\n columnsToKeep.forEach(key => {\n newRow[key] = row[key];\n });\n return newRow;\n });\n}\n\n// Remove the last 4 columns from the data\nfilteredData = removeLastNColumns(final_data, 6);\n\nfunction removeLastNItems(array, n) {\n return array.slice(0, -n);\n}\n\n\n// Remove the last 4 items\nfilteredColumnInfo = removeLastNItems(column_info, 12);\n\nfilteredColumnGroups = removeLastNItems(column_groups, 2);\n\nconsole.log(filteredColumnGroups)" - }, - { - "objectID": "Spatial_benchmark_heatmap/results/index.html#results---heatmap", - "href": "Spatial_benchmark_heatmap/results/index.html#results---heatmap", - "title": "Summary", - "section": "Results - Heatmap", - "text": "Results - Heatmap\n\nfunction transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\nfunkyheatmap(\n transpose_list_of_objects(filteredData),\n transpose_list_of_objects(filteredColumnInfo),\n [],\n transpose_list_of_objects(filteredColumnGroups),\n \n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: true\n }\n );" - }, - { - "objectID": "Spatial_benchmark_heatmap/results/index.html#results---table", - "href": "Spatial_benchmark_heatmap/results/index.html#results---table", - "title": "Summary", - "section": "Results - Table", - "text": "Results - Table" -======= ->>>>>>> 9666e27f759c97a1ca5eb36cd17888fc2ca50d1e } ] \ No newline at end of file diff --git a/results/index_old.qmd b/results/index_old.qmd deleted file mode 100644 index 99d4fd2..0000000 --- a/results/index_old.qmd +++ /dev/null @@ -1,334 +0,0 @@ ---- -title: "Summary" -format: - html: - code-link: true -editor: visual -toc: false ---- - - -```{ojs} -//| echo: false - -funkyheatmap = (await require('d3@7').then(d3 => { - - window.d3 = d3; - - window._ = _; - - return import('https://unpkg.com/funkyheatmapjs@0.2.5'); - -})).default; - -``` - - -```{r setup} -#| label: load-packages -#| include: false -#| error: true -#| echo: false - -library(tidyverse) -library(funkyheatmap) -library(kableExtra) -library(readr) -library(DT) -library(plotly) -library(jsonlite) -``` - - - -```{ojs} -//| label: read data -//| warning: false -//| echo: false - -viewof color_by_rank = Inputs.toggle({label: "Color by rank:", value: true}) -viewof scale_column = Inputs.toggle({label: "Minmax column:", value: false}) -viewof show_con = Inputs.toggle({label: "Show control methods:", value: true}) - -/* -async function loadData() { - try { - const final_data = await FileAttachment("./data/final_data2.csv").csv() - const column_info = await FileAttachment("./data/column_info.csv").csv() - const column_groups = await FileAttachment("./data/column_groups.csv").csv() - //const palettes = await FileAttachment("./data/palettes.csv").csv() - - console.log("FINAL DATA", final_data) - console.log("COLUMN INFO", column_info) - console.log("COLUMN GROUPS", column_groups) - //console.log("palettes", palettes) - - - const palettes = [ - { - overall: "Greys", - palette1: "Set1", - palette2: "Set2", - palette3: "Set3", - palette4: "Blues", - NA: "Greens", - white6black4: "Dark2", - error_reason: { - colors: ["#8DD3C7", "#FFFFB3", "#BEBADA", "#FFFFFF"], - names: ["Memory limit exceeded", "Time limit exceeded", "Execution error", "No error"] - } - } - ][0] - - function transpose_list_of_objects(list) { - return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])])) - } - - console.log("TRANSPOSE FINAL DATA", transpose_list_of_objects(final_data)) - console.log("TRANSPOSE COLUMN INFO", transpose_list_of_objects(column_info)) - console.log("TRANSPOSE COLUMN GROUPS", transpose_list_of_objects(column_groups)) - - funkyheatmap( - transpose_list_of_objects(final_data), - transpose_list_of_objects(column_info), - [], - transpose_list_of_objects(column_groups), - [], - palettes, - { - fontSize: 14, - rowHeight: 26, - rootStyle: 'max-width: none', - colorByRank: color_by_rank, - theme: { - oddRowBackground: 'var(--bs-body-bg)', - evenRowBackground: 'var(--bs-button-hover)', - textColor: 'var(--bs-body-color)', - strokeColor: 'var(--bs-body-color)', - headerColor: 'var(--bs-body-color)', - hoverColor: 'var(--bs-body-color)' - } - } - ); - - - - //final_data.view() - - } catch (error) { - console.error("Error loading data:", error); - } -} - -loadData() */ - -final_data = FileAttachment("./data/final_data2.csv").csv() -column_info = await FileAttachment("./data/column_info.csv").csv() -column_groups = await FileAttachment("./data/column_groups.csv").csv() - - -p1 = ["#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF"] - -palettes = [ - { - overall: "Greys", - palette1: "Greens", - palette2: "Blues", - palette3: "Greens", - palette4: "Blues", - NA: "Greens", - white6black4: "Greys", - error_reason: { - colors: ["#8DD3C7", "#FFFFB3", "#BEBADA", "#FFFFFF"], - names: ["Memory limit exceeded", "Time limit exceeded", "Execution error", "No error"] - } - } - ][0] - -function transpose_list_of_objects(list) { - return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])])) - } - -console.log(final_data) - - -funkyheatmap( - transpose_list_of_objects(final_data), - transpose_list_of_objects(column_info), - [], - transpose_list_of_objects(column_groups), - [], - palettes, - { - fontSize: 14, - rowHeight: 26, - rootStyle: 'max-width: none', - colorByRank: color_by_rank, - theme: { - oddRowBackground: 'var(--bs-body-bg)', - evenRowBackground: 'var(--bs-button-hover)', - textColor: 'var(--bs-body-color)', - strokeColor: 'var(--bs-body-color)', - headerColor: 'var(--bs-body-color)', - hoverColor: 'var(--bs-body-color)' - } - } - ); - - - - - - - - - - - -``` - -## Results - - - -::: {.cell .panel-input .card .bg-light} -
    - -Display settings - -```{ojs} -//| echo: false - -viewof color_by_rank = Inputs.toggle({label: "Color by rank:", value: true}) -viewof scale_column = Inputs.toggle({label: "Minmax column:", value: false}) -viewof show_con = Inputs.toggle({label: "Show control methods:", value: true}) -``` - -
    - -
    - -Filter methods - -```{ojs} -//| echo: false - -viewof method_ids = Inputs.checkbox( - final_data.map(item => item.method), - { - label: "Methods:" - } -) - -``` - -
    - -
    - -Filter metrics - -```{ojs} -//| echo: false - -viewof metric_ids = Inputs.checkbox( - Object.keys(final_data[0]), - { - label: "Metrics:" - } -) -``` - -
    -::: - -```{ojs} -//| echo: false -//| warning: false - - -Inputs.table(final_data) -``` - - -```{r} -#| echo: false -#| warning: false - -library(tibble) -library(dplyr) - -final_data_csv <- read_csv("./data/final_data.csv", show_col_types = FALSE) -# print("final_data_csv") -# print(final_data_csv) -final_data_csv$...1 <- NULL - -datatable( - final_data_csv, - options = list( - pageLength = 15, - scrollX = TRUE, - searching = TRUE, - autoWidth = TRUE - - ), - filter = "top", - class = 'compact', - style = 'bootstrap' -) %>% - formatRound(columns = which(sapply(final_data_csv, is.numeric)), digits = 2) -``` - diff --git a/src/Spatial_benchmark_heatmap/index.html b/src/Spatial_benchmark_heatmap/index.html deleted file mode 100644 index 257144c..0000000 --- a/src/Spatial_benchmark_heatmap/index.html +++ /dev/null @@ -1,568 +0,0 @@ - - - - - - - - - -About – SpatialSimBench - - - - - - - - - - - - - - - - - - - - - - - - - - - -
    -
    - -
    - -
    - - - - -
    - -
    -
    -

    About

    -
    - - - -
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    - - - -
    - - -
    -

    Multi-task benchmarking of spatially resolved gene expression simulation models

    -

    Abstract

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    Computational methods for spatially resolved transcriptomics (SRT) are frequently developed and assessed through data simulation. The effectiveness of these evaluations relies on the simulation methods’ ability to accurately reflect experimental data. However, a systematic evaluation framework for spatial simulators is lacking. Here, we present SpatialSimBench, a comprehensive evaluation framework that assesses 13 simulation methods using 10 distinct STR datasets. We introduce simAdaptor, a tool that extends single-cell simulators to incorporate spatial variables, thus enabling them to simulate spatial data. SimAdaptor enables SpatialSimBench to be “back-wards” compatible. That is, it facilitates direct comparison between spatially aware simulators and existing non-spatial single-cell simulators through the adaption. Through SpatialSimBench, we demonstrate the feasibility of leveraging existing single-cell simulators for SRT data and highlight performance differences among methods. Additionally, we evaluate the simulation methods based on a total of 35 metrics across data property estimation, various downstream analysis and scalability. In total, we generated 4550 results from 13 simulation methods, 10 spatial datasets and 35 metrics. Our findings reveal that model estimation can be impacted by distribution assumptions and dataset characteristics. In summary, our evaluation and the evaluation framework will provide guidelines for selecting appropriate methods for specific scenarios and informing future method development.

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    Research paper link

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    - -
    - - - - - \ No newline at end of file diff --git a/src/Spatial_benchmark_heatmap/results/data/column_groups.JSON b/src/Spatial_benchmark_heatmap/results/data/column_groups.JSON deleted file mode 100644 index f378612..0000000 --- a/src/Spatial_benchmark_heatmap/results/data/column_groups.JSON +++ /dev/null @@ -1 +0,0 @@ -[{"Experiment":"Method","Category":"","group":"method","palette":"overall"},{"Experiment":"Summary","Category":"Rank-based overall","group":"summary","palette":"overall"},{"Experiment":"Data proporties","Category":"Spot-level","group":"data_pro_spot","palette":"palette1"},{"Experiment":"Data proporties","Category":"Gene-level","group":"data_pro_gene","palette":"palette1"},{"Experiment":"Data proporties","Category":"Spatial-level","group":"data_pro_spatial","palette":"palette1"},{"Experiment":"Spatial task","Category":"Cluster","group":"spatial_task_clustering","palette":"palette2"},{"Experiment":"Spatial task","Category":"SVG","group":"spatial_task_svg","palette":"palette2"},{"Experiment":"Spatial task","Category":"Deconvolute","group":"spatial_task_den","palette":"palette2"},{"Experiment":"Spatial task","Category":"Crosscorrelate","group":"spatial_task_cor","palette":"palette2"},{"Experiment":"Scalability","Category":"Predicted time","group":"scalability_time","palette":"palette3"},{"Experiment":"Scalability","Category":"Predicted memory","group":"scalability_memory","palette":"palette3"}] diff --git a/src/Spatial_benchmark_heatmap/results/data/column_groups.csv b/src/Spatial_benchmark_heatmap/results/data/column_groups.csv deleted file mode 100644 index 50f109e..0000000 --- a/src/Spatial_benchmark_heatmap/results/data/column_groups.csv +++ /dev/null @@ -1,12 +0,0 @@ -Experiment,Category,group,palette -Method,-,method,overall -Summary,Rank-based overall,summary,overall -Data proporties,Spot-level,data_pro_spot,palette1 -Data proporties,Gene-level,data_pro_gene,palette1 -Data proporties,Spatial-level,data_pro_spatial,palette1 -Spatial task,Cluster,spatial_task_clustering,palette2 -Spatial task,SVG,spatial_task_svg,palette2 -Spatial task,Deconvolute,spatial_task_den,palette2 -Spatial task,Crosscorrelate,spatial_task_cor,palette2 -Scalability,Predicted time,scalability_time,palette3 -Scalability,Predicted memory,scalability_memory,palette3 diff --git a/src/Spatial_benchmark_heatmap/results/data/column_info.csv b/src/Spatial_benchmark_heatmap/results/data/column_info.csv deleted file mode 100644 index 065f0bd..0000000 --- a/src/Spatial_benchmark_heatmap/results/data/column_info.csv +++ /dev/null @@ -1,48 +0,0 @@ -id,group,name,geom,palette,options -method,method,NA,text,NA, -adaptor,method,Adaptor,text,NA, -overall_summary,summary,Overall,bar,overall, -data_pro_summary,summary,data proporties,bar,palette1, -spatial_task_summary,summary,Spatial Task,bar,palette2, -scalability_summary,summary,Scalability,bar,palette3, -spfracZero,data_pro_spot,fracZero,funkyrect,palette1, -spLibSize,data_pro_spot,LibSize,funkyrect,palette1, -spEffLibSize,data_pro_spot,EffLibSize,funkyrect,palette1, -spTMM,data_pro_spot,TMM,funkyrect,palette1, -spScaledVar,data_pro_spot,ScaledVar,funkyrect,palette1, -spScaledMean,data_pro_spot,ScaledMean,funkyrect,palette1, -splibsizeFracezero,data_pro_spot,libFraczero(higher-order),funkyrect,palette1, -spCorPearson,data_pro_spot,Pearson(higher-order),funkyrect,palette1, -ftFracZero,data_pro_gene,fracZero,funkyrect,palette1, -ftScaledVar,data_pro_gene,ScaledVar,funkyrect,palette1, -ftScaledMean,data_pro_gene,ScaledMean,funkyrect,palette1, -ftPearson,data_pro_gene,Pearson(higher-order),funkyrect,palette1, -ftScaleMeanVal,data_pro_gene,MeanVal(higher-order),funkyrect,palette1, -ftMeanFraczero,data_pro_gene,MeanFracZero(higher-order),funkyrect,palette1, -TM,data_pro_spatial,TM,funkyrect,palette1, -NWE,data_pro_spatial,NWE,funkyrect,palette1, -CSM,data_pro_spatial,CSM,funkyrect,palette1, -celltype_interaction,data_pro_spatial,celltype_interaction,funkyrect,palette1, -L_stats,data_pro_spatial,L stats,funkyrect,palette1, -nn_correlation,data_pro_spatial,nn_correlation,funkyrect,palette1, -morans_I,data_pro_spatial,Moran's I,funkyrect,palette1, -ARI,spatial_task_clustering,ARI,funkyrect,palette2, -NMI,spatial_task_clustering,NMI,funkyrect,palette2, -recall_svg,spatial_task_svg,recall,funkyrect,palette2, -precision_svg,spatial_task_svg,precision,funkyrect,palette2, -rmse_ctprob,spatial_task_den,RMSE,funkyrect,palette2, -jsd_ctprob,spatial_task_den,JSD,funkyrect,palette2, -mantel_cor,spatial_task_cor,Mantel stat,funkyrect,palette2, -cosine_cor,spatial_task_cor,cosine similarity,funkyrect,palette2, -pred_time_cells200_features200,scalability_time,200 x 200,rect,palette3, -pred_time_cells200_features200,scalability_time,NA,text,white6black4, -pred_time_cells3000_features500,scalability_time,3k x 500,rect,palette3, -pred_time_cells3000_features500,scalability_time,NA,text,white6black4, -pred_time_cells5000_features1000,scalability_time,5k x 1k,rect,palette3, -pred_time_cells5000_features1000,scalability_time,NA,text,white6black4, -pred_memory_cells200_features200,scalability_memory,200 x 200,rect,palette3, -pred_memory_cells200_features200,scalability_memory,NA,text,white6black4, -pred_memory_cells3000_features500,scalability_memory,3k x 500,rect,palette3, -pred_memory_cells3000_features500,scalability_memory,NA,text,white6black4, -pred_memory_cells5000_features1000,scalability_memory,5k x 1k,rect,palette3, -pred_memory_cells5000_features1000,scalability_memory,NA,text,white6black4, diff --git a/src/Spatial_benchmark_heatmap/results/data/final_data2.csv b/src/Spatial_benchmark_heatmap/results/data/final_data2.csv deleted file mode 100644 index dd61750..0000000 --- a/src/Spatial_benchmark_heatmap/results/data/final_data2.csv +++ /dev/null @@ -1,14 +0,0 @@ -method,adaptor,overall_summary,data_pro_summary,spatial_task_summary,scalability_summary,spfracZero,spLibSize,spEffLibSize,spTMM,spScaledVar,spScaledMean,splibsizeFracezero,spCorPearson,ftFracZero,ftScaledVar,ftScaledMean,ftPearson,ftScaleMeanVal,ftMeanFraczero,TM,NWE,CSM,celltype_interaction,L_stats,nn_correlation,morans_I,ARI,NMI,recall_svg,precision_svg,rmse_ctprob,jsd_ctprob,mantel_cor,cosine_cor,pred_time_cells200_features200,pred_time_cells3000_features500,pred_time_cells5000_features1000,pred_memory_cells200_features200,pred_memory_cells3000_features500,pred_memory_cells5000_features1000,predstring_time_cells200_features200,predstring_time_cells3000_features500,predstring_time_cells5000_features1000,predstring_memory_cells200_features200,predstring_memory_cells3000_features500,predstring_memory_cells5000_features1000 -SRTsim_rf,Yes,12.50,10.43,10.12,11.83,0.87,0.81,-3.53,-0.50,-22.09,-0.34,-0.77,0.10,-0.05,-8.13,0.06,-0.01,-10.74,-11.15,-0.26,-0.84,-0.31,0.08,1.29,-0.77,-2.25,0.58,0.60,0.78,0.81,-0.03,-0.08,-0.91,0.91,-1.00,-11.00,-32.00,-1941204.00,-2059443.00,-2128216.00,1.00,11s,32s,1.9G,2G,2G -SRTsim,No,12.17,10.48,10.12,9.67,3.32,-0.02,-1.58,-0.98,-42.51,-2.21,-4.54,-2.80,0.24,-21.80,0.14,0.15,-21.37,-0.51,-0.30,-0.76,-0.26,1.29,1.22,0.95,-0.19,0.58,0.58,0.80,0.84,-0.03,-0.09,-0.95,0.95,-4.00,-19.00,-50.00,-2212423.00,-2232741.00,-2503995.00,4.00,19s,50s,2.1G,2.1G,2.4G -SPARsim,Yes,9.50,8.71,6.88,9.08,-3.88,1.29,-3.96,-3.66,-26.28,0.37,-11.08,-21.39,-0.73,-40.62,-20.28,-2.26,-148.98,-0.48,-0.18,-0.52,-0.24,2.64,0.74,-14.06,-5.18,0.93,0.92,0.52,0.63,-0.09,-0.24,-0.68,0.68,-21.00,-43.00,-66.00,-1696115.00,-3635721.00,-4001645.00,21.00,43s,1.1m,1.6G,3.5G,3.8G -scDesign3_poi_rf,No,7.50,6.95,8.38,5.25,-18.56,-17.25,-4.33,-5.00,-42.20,-2.23,-17.88,-11.69,-1.95,-2.55,0.26,-1.88,-8.55,-15.63,-0.55,-1.29,-0.54,0.73,1.18,-6.39,-10.12,0.26,0.27,0.83,0.67,-0.06,-0.15,-0.83,0.83,-21.00,-711.00,-2092.00,-1852625.00,-4336100.00,-7646784.00,21.00,11.8m,34.9m,1.8G,4.1G,7.3G -scDesign3_poi,Yes,6.50,7.10,8.38,3.67,-18.56,-17.25,-4.33,-5.00,-42.20,-2.23,-17.88,-11.08,-1.95,-2.55,0.26,-1.66,-8.55,-15.63,-0.55,-1.26,-0.54,0.73,1.18,-6.39,-10.12,0.26,0.27,0.83,0.67,-0.06,-0.15,-0.83,0.83,-23.00,-843.00,-2631.00,-1945085.00,-4274201.00,-7676111.00,23.00,14.1m,43.9m,1.9G,4.1G,7.3G -scDesign3_nb_rf,Yes,6.33,8.57,6.88,3.92,-4.38,-3.86,-1.42,-1.11,-39.03,-2.36,-4.48,-2.32,0.28,-13.27,0.07,-3.95,-30.98,-1.05,-0.44,-1.18,-0.39,0.88,0.97,-2.75,-1.61,0.21,0.21,0.74,0.75,-0.08,-0.19,-0.79,0.79,-54.00,-748.00,-2094.00,-1963884.00,-4302020.00,-6604235.00,54.00,12.5m,34.9m,1.9G,4.1G,6.3G -scDesign3_nb,No,6.17,8.67,6.38,3.92,-4.34,-3.83,-1.40,-1.19,-38.79,-2.35,-4.56,-1.26,0.28,-13.22,0.06,-3.64,-31.20,-1.04,-0.43,-1.19,-0.38,0.87,0.96,-2.76,-1.59,0.21,0.21,0.74,0.75,-0.08,-0.19,-0.79,0.79,-54.00,-762.00,-2113.00,-1942827.00,-4287208.00,-6648315.00,54.00,12.7m,35.2m,1.9G,4.1G,6.3G -zinbwave,Yes,6.00,6.76,7.00,5.00,2.21,0.74,-23.06,-6.79,-34.52,0.03,-0.62,-21.87,0.31,-41.77,0.07,-5.38,-68.11,0.35,-0.61,-1.73,-0.54,-0.68,1.00,-24.11,-6.00,0.45,0.47,0.50,0.63,-0.08,-0.18,-0.68,0.68,-3.00,-40.00,-248.00,-14291297.00,-17424745.00,-22860085.00,3.00,40s,4.1m,13.6G,16.6G,21.8G -splatter,Yes,5.83,4.33,5.50,11.33,-8.88,-1.37,-23.67,-15.20,-46.61,-2.69,-27.33,-40.61,-23.59,-114.15,-23.91,-8.79,-189.77,-31.88,-0.38,-1.11,-0.26,0.17,0.14,-11.41,-7.60,0.85,0.87,0.40,0.42,-0.15,-0.50,-0.52,0.52,-2.00,-6.00,-13.00,-2137601.00,-1842411.00,-2250095.00,2.00,6s,13s,2G,1.8G,2.1G -scDesign3_gau,Yes,5.83,4.43,6.00,7.58,-71.41,-23.24,-5.64,-4.44,-54.24,-5.88,-45.23,-12.00,-37.83,-0.48,-8.77,-2.13,-60.52,-102.29,-0.61,-1.57,-0.69,2.13,0.60,-14.44,-6.66,0.11,0.12,0.75,0.76,-0.09,-0.24,-0.72,0.72,-17.00,-598.00,-1656.00,-1817957.00,-4155757.00,-6441291.00,17.00,10m,27.6m,1.7G,4G,6.1G -scDesign3_gau_rf,No,4.83,4.24,6.00,7.25,-71.41,-23.24,-5.64,-4.44,-54.24,-5.88,-45.23,-12.04,-37.83,-0.48,-8.77,-2.82,-60.52,-102.29,-0.61,-1.59,-0.69,2.13,0.60,-14.44,-6.66,0.11,0.12,0.75,0.76,-0.09,-0.24,-0.72,0.72,-17.00,-600.00,-1650.00,-1853197.00,-4175684.00,-6293992.00,17.00,10m,27.5m,1.8G,4G,6G -scDesign2,Yes,4.33,6.81,3.88,5.67,-5.11,-4.32,-2.25,-0.94,-28.87,-1.37,-5.75,-0.87,-0.08,-1.91,-0.11,-3.05,-15.60,-1.12,-0.71,-1.37,-0.83,-0.01,0.07,-10.11,-18.96,0.05,0.06,0.48,0.46,-0.10,-0.23,-0.66,0.66,-12.00,-27.00,-70.00,-9880256.00,-9301012.00,-10174727.00,12.00,27s,1.2m,9.4G,8.9G,9.7G -symsim,Yes,3.50,3.52,5.50,6.83,-19.84,-21.20,-43.35,-24.37,-62.78,-4.31,-26.08,-36.05,-11.38,-176.97,-56.85,-7.55,-370.65,-37.50,-0.30,-0.91,-0.27,-7.65,0.20,-10.64,-9.39,0.94,0.95,0.23,0.41,-0.16,-0.53,-0.53,0.53,-47.00,-66.00,-98.00,-2539844.00,-2614711.00,-3403980.00,47.00,1.1m,1.6m,2.4G,2.5G,3.2G diff --git a/src/Spatial_benchmark_heatmap/results/index.html b/src/Spatial_benchmark_heatmap/results/index.html deleted file mode 100644 index 32e014b..0000000 --- a/src/Spatial_benchmark_heatmap/results/index.html +++ /dev/null @@ -1,853 +0,0 @@ - - - - - - -Summary – SpatialSimBench - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
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    Quarto is a Markdown-based documentation system that lets you write documents in Markdown or Jupyter Notebooks, and render them to a variety of formats including HTML, PDF, PowerPoint, and more. You can also use Quarto to write books, create dashboards, and embed web applications with Observable and Shinylive.

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    Once you’ve created the space, click on the Files tab in the top right to take a look at the files which make up this Space. There are a couple of important files which you should pay attention to:

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    To provide a realistic example of how Quarto can help you organize long-form documentation, we’ve implemented the Hugging Face Open-Source AI Cookbook in Quarto. The Open-Source AI Cookbook is a collection of notebooks illustrating practical aspects of building AI applications and solving various machine learning tasks using open-source tools and models. You can read more about it, or contribute your own Notebook on the Github Repo

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    In this notebook, we will take a look into many of these blue notes to see how to tune your RAG system and get the best performance.

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    -This will be helpful when visualizing retriever outputs -
    -
    -
    -
    -
    -

    Load your knowledge base

    -
    -
    import datasets
-
-ds = datasets.load_dataset("m-ric/huggingface_doc", split="train")
    -
    -
    -
    from langchain.docstore.document import Document as LangchainDocument
-
-RAW_KNOWLEDGE_BASE = [
-    LangchainDocument(page_content=doc["text"], metadata={"source": doc["source"]})
-    for doc in tqdm(ds)
-]
    -
    -
    -
    -

    1. Retriever - embeddings 🗂️

    -

    The retriever acts like an internal search engine: given the user query, it returns a few relevant snippets from your knowledge base.

    -

    These snippets will then be fed to the Reader Model to help it generate its answer.

    -

    So our objective here is, given a user question, to find the most snippets from our knowledge base to answer that question.

    -

    This is a wide objective, it leaves open some questions. How many snippets should we retrieve? This parameter will be named top_k.

    -

    How long should these snippets be? This is called the chunk size. There’s no one-size-fits-all answers, but here are a few elements: - 🔀 Your chunk size is allowed to vary from one snippet to the other. - Since there will always be some noise in your retrieval, increasing the top_k increases the chance to get relevant elements in your retrieved snippets. 🎯 Shooting more arrows increases your probability to hit your target. - Meanwhile, the summed length of your retrieved documents should not be too high: for instance, for most current models 16k tokens will probably drown your Reader model in information due to Lost-in-the-middle phenomenon. 🎯 Give your reader model only the most relevant insights, not a huge pile of books!

    -
    -
    -
    - -
    -
    -Note -
    -
    -
    -

    In this notebook, we use Langchain library since it offers a huge variety of options for vector databases and allows us to keep document metadata throughout the processing.

    -
    -
    -
    -

    1.1 Split the documents into chunks

    -
      -
    • In this part, we split the documents from our knowledge base into smaller chunks which will be the snippets on which the reader LLM will base its answer.
      • -
    • The goal is to prepare a collection of semantically relevant snippets. So their size should be adapted to precise ideas: too small will truncate ideas, too large will dilute them.
      • -
    -
    -
    -
    - -
    -
    -Tip -
    -
    -
    -

    💡 Many options exist for text splitting: splitting on words, on sentence boundaries, recursive chunking that processes documents in a tree-like way to preserve structure information… To learn more about chunking, I recommend you read this great notebook by Greg Kamradt.

    -
    -
    -
      -
    • Recursive chunking breaks down the text into smaller parts step by step using a given list of separators sorted from the most important to the least important separator. If the first split doesn’t give the right size or shape chunks, the method repeats itself on the new chunks using a different separator. For instance with the list of separators ["\n\n", "\n", ".", ""]: -
        -
      • The method will first break down the document wherever there is a double line break "\n\n".
        • -
      • Resulting documents will be split again on simple line breaks "\n", then on sentence ends ".".
        • -
      • And finally, if some chunks are still too big, they will be split whenever they overflow the maximum size.
        • -
      • -
    • With this method, the global structure is well preserved, at the expense of getting slight variations in chunk size.
      • -
    -
    -

    This space lets you visualize how different splitting options affect the chunks you get.

    -
    -

    🔬 Let’s experiment a bit with chunk sizes, beginning with an arbitrary size, and see how splits work. We use Langchain’s implementation of recursive chunking with RecursiveCharacterTextSplitter. - Parameter chunk_size controls the length of individual chunks: this length is counted by default as the number of characters in the chunk. - Parameter chunk_overlap lets adjacent chunks get a bit of overlap on each other. This reduces the probability that an idea could be cut in half by the split between two adjacent chunks. We ~arbitrarily set this to 1/10th of the chunk size, you could try different values!

    -
    -
    from langchain.text_splitter import RecursiveCharacterTextSplitter
-
-# We use a hierarchical list of separators specifically tailored for splitting Markdown documents
-# This list is taken from LangChain's MarkdownTextSplitter class.
-MARKDOWN_SEPARATORS = [
-    "\n#{1,6} ",
-    "```\n",
-    "\n\\*\\*\\*+\n",
-    "\n---+\n",
-    "\n___+\n",
-    "\n\n",
-    "\n",
-    " ",
-    "",
-]
-
-text_splitter = RecursiveCharacterTextSplitter(
-    chunk_size=1000,
-    chunk_overlap=100,
-    add_start_index=True,
-    strip_whitespace=True,
-    separators=MARKDOWN_SEPARATORS,
-)
-
-docs_processed = []
-for doc in RAW_KNOWLEDGE_BASE:
-    docs_processed += text_splitter.split_documents([doc])
    -
    -
    -
    1
    -
    -The maximum number of characters in a chunk: we selected this value arbitrally -
    -
    2
    -
    -The number of characters to overlap between chunks -
    -
    3
    -
    -If True, includes chunk’s start index in metadata -
    -
    4
    -
    -If True, strips whitespace from the start and end of every document -
    -
    -
    -
    -

    We also have to keep in mind that when embedding documents, we will use an embedding model that has accepts a certain maximum sequence length max_seq_length.

    -

    So we should make sure that our chunk sizes are below this limit, because any longer chunk will be truncated before processing, thus losing relevancy.

    -
    -
    from sentence_transformers import SentenceTransformer
-
-# To get the value of the max sequence_length, we will query the underlying `SentenceTransformer` object used in the RecursiveCharacterTextSplitter.
-print(
-    f"Model's maximum sequence length: {SentenceTransformer('thenlper/gte-small').max_seq_length}"
-)
-
-from transformers import AutoTokenizer
-
-tokenizer = AutoTokenizer.from_pretrained("thenlper/gte-small")
-lengths = [len(tokenizer.encode(doc.page_content)) for doc in tqdm(docs_processed)]
-
-# Plot the distrubution of document lengths, counted as the number of tokens
-fig = pd.Series(lengths).hist()
-plt.title("Distribution of document lengths in the knowledge base (in count of tokens)")
-plt.show()
    -
    -

    👀 As you can see, the chunk lengths are not aligned with our limit of 512 tokens, and some documents are above the limit, thus some part of them will be lost in truncation! - So we should change the RecursiveCharacterTextSplitter class to count length in number of tokens instead of number of characters. - Then we can choose a specific chunk size, here we would choose a lower threshold than 512: - smaller documents could allow the split to focus more on specific ideas. - But too small chunks would split sentences in half, thus losing meaning again: the proper tuning is a matter of balance.

    -
    -
    from langchain.text_splitter import RecursiveCharacterTextSplitter
-from transformers import AutoTokenizer
-
-EMBEDDING_MODEL_NAME = "thenlper/gte-small"
-
-
-def split_documents(
-    chunk_size: int,
-    knowledge_base: List[LangchainDocument],
-    tokenizer_name: Optional[str] = EMBEDDING_MODEL_NAME,
-) -> List[LangchainDocument]:
-    """
-    Split documents into chunks of maximum size `chunk_size` tokens and return a list of documents.
-    """
-    text_splitter = RecursiveCharacterTextSplitter.from_huggingface_tokenizer(
-        AutoTokenizer.from_pretrained(tokenizer_name),
-        chunk_size=chunk_size,
-        chunk_overlap=int(chunk_size / 10),
-        add_start_index=True,
-        strip_whitespace=True,
-        separators=MARKDOWN_SEPARATORS,
-    )
-
-    docs_processed = []
-    for doc in knowledge_base:
-        docs_processed += text_splitter.split_documents([doc])
-
-    # Remove duplicates
-    unique_texts = {}
-    docs_processed_unique = []
-    for doc in docs_processed:
-        if doc.page_content not in unique_texts:
-            unique_texts[doc.page_content] = True
-            docs_processed_unique.append(doc)
-
-    return docs_processed_unique
-
-
-docs_processed = split_documents(
-    512,  # We choose a chunk size adapted to our model
-    RAW_KNOWLEDGE_BASE,
-    tokenizer_name=EMBEDDING_MODEL_NAME,
-)
-
-# Let's visualize the chunk sizes we would have in tokens from a common model
-from transformers import AutoTokenizer
-
-tokenizer = AutoTokenizer.from_pretrained(EMBEDDING_MODEL_NAME)
-lengths = [len(tokenizer.encode(doc.page_content)) for doc in tqdm(docs_processed)]
-fig = pd.Series(lengths).hist()
-plt.title("Distribution of document lengths in the knowledge base (in count of tokens)")
-plt.show()
    -
    -

    ➡️ Now the chunk length distribution looks better!

    -
    -
    -

    1.2 Building the vector database

    -

    We want to compute the embeddings for all the chunks of our knowledge base: to learn more on sentence embeddings, we recommend reading this guide.

    -
    -

    How does retrieval work ?

    -

    Once the chunks are all embedded, we store them into a vector database. When the user types in a query, it gets embedded by the same model previously used, and a similarity search returns the closest documents from the vector database.

    -

    The technical challenge is thus, given a query vector, to quickly find the nearest neighbours of this vector in the vector database. To do this, we need to choose two things: a distance, and a search algorithm to find the nearest neighbors quickly within a database of thousands of records.

    -
    -
    Nearest Neighbor search algorithm
    -

    There are plentiful choices for the nearest neighbor search algorithm: we go with Facebook’s FAISS, since FAISS is performant enough for most use cases, and it is well known thus widely implemented.

    -
    -
    -
    Distances
    -

    Regarding distances, you can find a good guide here. In short:

    -
      -
    • Cosine similarity computes similarity between two vectors as the cosinus of their relative angle: it allows us to compare vector directions are regardless of their magnitude. Using it requires to normalize all vectors, to rescale them into unit norm.
      • -
    • Dot product takes into account magnitude, with the sometimes undesirable effect that increasing a vector’s length will make it more similar to all others.
      • -
    • Euclidean distance is the distance between the ends of vectors.
      • -
    -

    You can try this small exercise to check your understanding of these concepts. But once vectors are normalized, the choice of a specific distance does not matter much.

    -

    Our particular model works well with cosine similarity, so choose this distance, and we set it up both in the Embedding model, and in the distance_strategy argument of our FAISS index. With cosine similarity, we have to normalize our embeddings.

    -
    -
    -
    - -
    -
    -Warning -
    -
    -
    -

    🚨👇 The cell below takes a few minutes to run on A10G!

    -
    -
    -
    -
    from langchain.vectorstores import FAISS
-from langchain_community.embeddings import HuggingFaceEmbeddings
-from langchain_community.vectorstores.utils import DistanceStrategy
-
-embedding_model = HuggingFaceEmbeddings(
-    model_name=EMBEDDING_MODEL_NAME,
-    multi_process=True,
-    model_kwargs={"device": "cuda"},
-    encode_kwargs={"normalize_embeddings": True},  # set True for cosine similarity
-)
-
-KNOWLEDGE_VECTOR_DATABASE = FAISS.from_documents(
-    docs_processed, embedding_model, distance_strategy=DistanceStrategy.COSINE
-)
    -
    -

    👀 To visualize the search for the closest documents, let’s project our embeddings from 384 dimensions down to 2 dimensions using PaCMAP.

    -
    -
    -
    - -
    -
    -Note -
    -
    -
    -

    💡 We chose PaCMAP rather than other techniques such as t-SNE or UMAP, since it is efficient (preserves local and global structure), robust to initialization parameters and fast.

    -
    -
    -
    -
    # embed a user query in the same space
-user_query = "How to create a pipeline object?"
-query_vector = embedding_model.embed_query(user_query)
    -
    -
    -
    import pacmap
-import numpy as np
-import plotly.express as px
-
-embedding_projector = pacmap.PaCMAP(
-    n_components=2, n_neighbors=None, MN_ratio=0.5, FP_ratio=2.0, random_state=1
-)
-
-embeddings_2d = [
-    list(KNOWLEDGE_VECTOR_DATABASE.index.reconstruct_n(idx, 1)[0])
-    for idx in range(len(docs_processed))
-] + [query_vector]
-
-# fit the data (The index of transformed data corresponds to the index of the original data)
-documents_projected = embedding_projector.fit_transform(np.array(embeddings_2d), init="pca")
    -
    -
    -
    df = pd.DataFrame.from_dict(
-    [
-        {
-            "x": documents_projected[i, 0],
-            "y": documents_projected[i, 1],
-            "source": docs_processed[i].metadata["source"].split("/")[1],
-            "extract": docs_processed[i].page_content[:100] + "...",
-            "symbol": "circle",
-            "size_col": 4,
-        }
-        for i in range(len(docs_processed))
-    ]
-    + [
-        {
-            "x": documents_projected[-1, 0],
-            "y": documents_projected[-1, 1],
-            "source": "User query",
-            "extract": user_query,
-            "size_col": 100,
-            "symbol": "star",
-        }
-    ]
-)
-
-# visualize the embedding
-fig = px.scatter(
-    df,
-    x="x",
-    y="y",
-    color="source",
-    hover_data="extract",
-    size="size_col",
-    symbol="symbol",
-    color_discrete_map={"User query": "black"},
-    width=1000,
-    height=700,
-)
-fig.update_traces(
-    marker=dict(opacity=1, line=dict(width=0, color="DarkSlateGrey")), selector=dict(mode="markers")
-)
-fig.update_layout(
-    legend_title_text="<b>Chunk source</b>",
-    title="<b>2D Projection of Chunk Embeddings via PaCMAP</b>",
-)
-fig.show()
    -
    -

    -

    ➡️ On the graph above, you can see a spatial representation of the kowledge base documents. As the vector embeddings represent the document’s meaning, their closeness in meaning should be reflected in their embedding’s closeness.

    -

    The user query’s embedding is also shown : we want to find the k document that have the closest meaning, thus we pick the k closest vectors.

    -

    In the LangChain vector database implementation, this search operation is performed by the method vector_database.similarity_search(query).

    -

    Here is the result:

    -
    -
    print(f"\nStarting retrieval for {user_query=}...")
-retrieved_docs = KNOWLEDGE_VECTOR_DATABASE.similarity_search(query=user_query, k=5)
-print("\n==================================Top document==================================")
-print(retrieved_docs[0].page_content)
-print("==================================Metadata==================================")
-print(retrieved_docs[0].metadata)
    -
    -
    -
    -
    -
    -
    -

    2. Reader - LLM 💬

    -

    In this part, the LLM Reader reads the retrieved context to formulate its answer.

    -

    There are actually substeps that can all be tuned: 1. The content of the retrieved documents is aggregated together into the “context”, with many processing options like prompt compression. 2. The context and the user query are aggregated into a prompt then given to the LLM to generate its answer.

    -
    -

    2.1. Reader model

    -

    The choice of a reader model is important on a few aspects: - the reader model’s max_seq_length must accomodate our prompt, which includes the context output by the retriever call: the context consists in 5 documents of 512 tokens each, so we aim for a context length of 4k tokens at least. - the reader model

    -

    For this example, we chose HuggingFaceH4/zephyr-7b-beta, a small but powerful model.

    -
    -
    -
    - -
    -
    -Note -
    -
    -
    -

    With many models being released every week, you may want to substitute this model to the latest and greatest. The best way to keep track of open source LLMs is to check the Open-source LLM leaderboard.

    -
    -
    -

    To make inference faster, we will load the quantized version of the model:

    -
    -
    from transformers import pipeline
-import torch
-from transformers import AutoTokenizer, AutoModelForCausalLM, BitsAndBytesConfig
-
-READER_MODEL_NAME = "HuggingFaceH4/zephyr-7b-beta"
-
-bnb_config = BitsAndBytesConfig(
-    load_in_4bit=True,
-    bnb_4bit_use_double_quant=True,
-    bnb_4bit_quant_type="nf4",
-    bnb_4bit_compute_dtype=torch.bfloat16,
-)
-model = AutoModelForCausalLM.from_pretrained(READER_MODEL_NAME, quantization_config=bnb_config)
-tokenizer = AutoTokenizer.from_pretrained(READER_MODEL_NAME)
-
-READER_LLM = pipeline(
-    model=model,
-    tokenizer=tokenizer,
-    task="text-generation",
-    do_sample=True,
-    temperature=0.2,
-    repetition_penalty=1.1,
-    return_full_text=False,
-    max_new_tokens=500,
-)
    -
    -
    -
    READER_LLM("What is 4+4? Answer:")
    -
    -
    -
    -

    2.2. Prompt

    -

    The RAG prompt template below is what we will feed to the Reader LLM: it is important to have it formatted in the Reader LLM’s chat template.

    -

    We give it our context and the user’s question.

    -
    -
    prompt_in_chat_format = [
-    {
-        "role": "system",
-        "content": """Using the information contained in the context,
-give a comprehensive answer to the question.
-Respond only to the question asked, response should be concise and relevant to the question.
-Provide the number of the source document when relevant.
-If the answer cannot be deduced from the context, do not give an answer.""",
-    },
-    {
-        "role": "user",
-        "content": """Context:
-{context}
----
-Now here is the question you need to answer.
-
-Question: {question}""",
-    },
-]
-RAG_PROMPT_TEMPLATE = tokenizer.apply_chat_template(
-    prompt_in_chat_format, tokenize=False, add_generation_prompt=True
-)
-print(RAG_PROMPT_TEMPLATE)
    -
    -

    Let’s test our Reader on our previously retrieved documents!

    -
    -
    retrieved_docs_text = [
-    doc.page_content for doc in retrieved_docs
-]  # we only need the text of the documents
-context = "\nExtracted documents:\n"
-context += "".join([f"Document {str(i)}:::\n" + doc for i, doc in enumerate(retrieved_docs_text)])
-
-final_prompt = RAG_PROMPT_TEMPLATE.format(
-    question="How to create a pipeline object?", context=context
-)
-
-# Redact an answer
-answer = READER_LLM(final_prompt)[0]["generated_text"]
-print(answer)
    -
    -
    -
    -

    2.3. Reranking

    -

    A good option for RAG is to retrieve more documents than you want in the end, then rerank the results with a more powerful retrieval model before keeping only the top_k.

    -

    For this, Colbertv2 is a great choice: instead of a bi-encoder like our classical embedding models, it is a cross-encoder that computes more fine-grained interactions between the query tokens and each document’s tokens.

    -

    It is easily usable thanks to the RAGatouille library.

    -
    -
    from ragatouille import RAGPretrainedModel
-
-RERANKER = RAGPretrainedModel.from_pretrained("colbert-ir/colbertv2.0")
    -
    -
    -
    -
    -

    3. Assembling it all!

    -
    -
    from transformers import Pipeline
-
-
-def answer_with_rag(
-    question: str,
-    llm: Pipeline,
-    knowledge_index: FAISS,
-    reranker: Optional[RAGPretrainedModel] = None,
-    num_retrieved_docs: int = 30,
-    num_docs_final: int = 5,
-) -> Tuple[str, List[LangchainDocument]]:
-    # Gather documents with retriever
-    print("=> Retrieving documents...")
-    relevant_docs = knowledge_index.similarity_search(query=question, k=num_retrieved_docs)
-    relevant_docs = [doc.page_content for doc in relevant_docs]  # keep only the text
-
-    # Optionally rerank results
-    if reranker:
-        print("=> Reranking documents...")
-        relevant_docs = reranker.rerank(question, relevant_docs, k=num_docs_final)
-        relevant_docs = [doc["content"] for doc in relevant_docs]
-
-    relevant_docs = relevant_docs[:num_docs_final]
-
-    # Build the final prompt
-    context = "\nExtracted documents:\n"
-    context += "".join([f"Document {str(i)}:::\n" + doc for i, doc in enumerate(relevant_docs)])
-
-    final_prompt = RAG_PROMPT_TEMPLATE.format(question=question, context=context)
-
-    # Redact an answer
-    print("=> Generating answer...")
-    answer = llm(final_prompt)[0]["generated_text"]
-
-    return answer, relevant_docs
    -
    -

    Let’s see how our RAG pipeline answers a user query.

    -
    -
    question = "how to create a pipeline object?"
-
-answer, relevant_docs = answer_with_rag(
-    question, READER_LLM, KNOWLEDGE_VECTOR_DATABASE, reranker=RERANKER
-)
    -
    -
    -
    print("==================================Answer==================================")
-print(f"{answer}")
-print("==================================Source docs==================================")
-for i, doc in enumerate(relevant_docs):
-    print(f"Document {i}------------------------------------------------------------")
-    print(doc)
    -
    -

    ✅ We now have a fully functional, performant RAG sytem. That’s it for today! Congratulations for making it to the end 🥳

    -
    -
    -

    To go further 🗺️

    -

    This is not the end of the journey! You can try many steps to improve your RAG system. We recommend doing so in an iterative way: bring small changes to the system and see what improves performance.

    -
    -

    Setting up an evaluation pipeline

    -
      -
    • 💬 “You cannot improve the model performance that you do not measure”, said Gandhi… or at least Llama2 told me he said it. Anyway, you should absolutely start by measuring performance: this means building a small evaluation dataset, then monitor the performance of your RAG system on this evaluation dataset.
      • -
    -
    -
    -

    Improving the retriever

    -

    🛠️ You can use these options to tune the results:

    -
      -
    • Tune the chunking method: -
        -
      • Size of the chunks
        • -
      • Method: split on different separators, use semantic chunking…
        • -
      • -
    • Change the embedding model
      • -
    -

    👷‍♀️ More could be considered: - Try another chunking method, like semantic chunking - Change the index used (here, FAISS) - Query expansion: reformulate the user query in slightly different ways to retrieve more documents.

    -
    -
    -

    Improving the reader

    -

    🛠️ Here you can try the following options to improve results: - Tune the prompt - Switch reranking on/off - Choose a more powerful reader model

    -

    💡 Many options could be considered here to further improve the results: - Compress the retrieved context to keep only the most relevant parts to answer the query. - Extend the RAG system to make it more user-friendly: - cite source - make conversational

    - - -
    -
    - -
    - -
    - - - - - \ No newline at end of file diff --git a/src/Spatial_benchmark_heatmap_ojs/src/notebooks/automatic_embedding.html b/src/Spatial_benchmark_heatmap_ojs/src/notebooks/automatic_embedding.html deleted file mode 100644 index 5429050..0000000 --- a/src/Spatial_benchmark_heatmap_ojs/src/notebooks/automatic_embedding.html +++ /dev/null @@ -1,1014 +0,0 @@ - - - - - - - - - -Inference Endpoints – SpatialSimBench - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
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    Inference Endpoints

    -
    - - - -
    - - - - -
    - - - -
    - - -
    -

    How to use Inference Endpoints to Embed Documents

    -

    Authored by: Derek Thomas

    -
    -

    Goal

    -

    I have a dataset I want to embed for semantic search (or QA, or RAG), I want the easiest way to do embed this and put it in a new dataset.

    -
    -
    -

    Approach

    -

    I’m using a dataset from my favorite subreddit r/bestofredditorupdates. Because it has long entries, I will use the new jinaai/jina-embeddings-v2-base-en since it has an 8k context length. I will deploy this using Inference Endpoint to save time and money. To follow this tutorial, you will need to have already added a payment method. If you haven’t, you can add one here in billing. To make it even easier, I’ll make this fully API based.

    -

    To make this MUCH faster I will use the Text Embeddings Inference image. This has many benefits like: - No model graph compilation step - Small docker images and fast boot times. Get ready for true serverless! - Token based dynamic batching - Optimized transformers code for inference using Flash Attention, Candle and cuBLASLt - Safetensors weight loading - Production ready (distributed tracing with Open Telemetry, Prometheus metrics)

    -
    -
    -

    -
    img
    -
    -
    -
    -
    -

    Requirements

    -
    -
    !pip install -q aiohttp==3.8.3 datasets==2.14.6 pandas==1.5.3 requests==2.31.0 tqdm==4.66.1 huggingface-hub>=0.20
    -
    -
    -
    -

    Imports

    -
    -
    import asyncio
-from getpass import getpass
-import json
-from pathlib import Path
-import time
-from typing import Optional
-
-from aiohttp import ClientSession, ClientTimeout
-from datasets import load_dataset, Dataset, DatasetDict
-from huggingface_hub import notebook_login, create_inference_endpoint, list_inference_endpoints, whoami
-import numpy as np
-import pandas as pd
-import requests
-from tqdm.auto import tqdm
    -
    -
    -
    -

    Config

    -

    DATASET_IN is where your text data is DATASET_OUT is where your embeddings will be stored

    -

    Note I used 5 for the MAX_WORKERS since jina-embeddings-v2 are quite memory hungry.

    -
    -
    DATASET_IN = 'derek-thomas/dataset-creator-reddit-bestofredditorupdates'
-DATASET_OUT = "processed-subset-bestofredditorupdates"
-ENDPOINT_NAME = "boru-jina-embeddings-demo-ie"
-
-MAX_WORKERS = 5  # This is for how many async workers you want. Choose based on the model and hardware 
-ROW_COUNT = 100  # Choose None to use all rows, Im using 100 just for a demo
    -
    -

    Hugging Face offers a number of GPUs that you can choose from a number of GPUs that you can choose in Inference Endpoints. Here they are in table form:

    - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
    GPUinstanceTypeinstanceSizevRAM
    1x Nvidia Tesla T4g4dn.xlargesmall16GB
    4x Nvidia Tesla T4g4dn.12xlargelarge64GB
    1x Nvidia A10Gg5.2xlargemedium24GB
    4x Nvidia A10Gg5.12xlargexxlarge96GB
    1x Nvidia A100*p4dexlarge80GB
    2x Nvidia A100*p4de2xlarge160GB
    -

    *Note that for A100s you might get a note to email us to get access.

    -
    -
    # GPU Choice
-VENDOR="aws"
-REGION="us-east-1"
-INSTANCE_SIZE="medium"
-INSTANCE_TYPE="g5.2xlarge"
    -
    -
    -
    notebook_login()
    -
    - -
    -
    -

    Some users might have payment registered in an organization. This allows you to connect to an organization (that you are a member of) with a payment method.

    -

    Leave it blank is you want to use your username.

    -
    -
    who = whoami()
-organization = getpass(prompt="What is your Hugging Face 🤗 username or organization? (with an added payment method)")
-
-namespace = organization or who['name']
    -
    -
    What is your Hugging Face 🤗 username or organization? (with an added payment method) ········
    -
    -
    -
    -
    -

    Get Dataset

    -
    -
    dataset = load_dataset(DATASET_IN)
-dataset['train']
    -
    - -
    -
    -
    Dataset({
-    features: ['id', 'content', 'score', 'date_utc', 'title', 'flair', 'poster', 'permalink', 'new', 'updated'],
-    num_rows: 10042
-})
    -
    -
    -
    -
    documents = dataset['train'].to_pandas().to_dict('records')[:ROW_COUNT]
-len(documents), documents[0]
    -
    -
    (100,
- {'id': '10004zw',
-  'content': '[removed]',
-  'score': 1,
-  'date_utc': Timestamp('2022-12-31 18:16:22'),
-  'title': 'To All BORU contributors, Thank you :)',
-  'flair': 'CONCLUDED',
-  'poster': 'IsItAcOnSeQuEnCe',
-  'permalink': '/r/BestofRedditorUpdates/comments/10004zw/to_all_boru_contributors_thank_you/',
-  'new': False,
-  'updated': False})
    -
    -
    -
    -
    -
    -

    Inference Endpoints

    -
    -

    Create Inference Endpoint

    -

    We are going to use the API to create an Inference Endpoint. This should provide a few main benefits: - It’s convenient (No clicking) - It’s repeatable (We have the code to run it easily) - It’s cheaper (No time spent waiting for it to load, and automatically shut it down)

    -
    -
    try:
-    endpoint = create_inference_endpoint(
-        ENDPOINT_NAME,
-        repository="jinaai/jina-embeddings-v2-base-en",
-        revision="7302ac470bed880590f9344bfeee32ff8722d0e5",
-        task="sentence-embeddings",
-        framework="pytorch",
-        accelerator="gpu",
-        instance_size=INSTANCE_SIZE,
-        instance_type=INSTANCE_TYPE,
-        region=REGION,
-        vendor=VENDOR,
-        namespace=namespace,
-        custom_image={
-            "health_route": "/health",
-            "env": {
-                "MAX_BATCH_TOKENS": str(MAX_WORKERS * 2048),
-                "MAX_CONCURRENT_REQUESTS": "512",
-                "MODEL_ID": "/repository"
-            },
-            "url": "ghcr.io/huggingface/text-embeddings-inference:0.5.0",
-        },
-        type="protected",
-    )
-except:
-    endpoint = [ie for ie in list_inference_endpoints(namespace=namespace) if ie.name == ENDPOINT_NAME][0]
-    print('Loaded endpoint')
    -
    -

    There are a few design choices here: - As discussed before we are using jinaai/jina-embeddings-v2-base-en as our model. - For reproducibility we are pinning it to a specific revision. - If you are interested in more models, check out the supported list here. - Note that most embedding models are based on the BERT architecture. - MAX_BATCH_TOKENS is chosen based on our number of workers and the context window of our embedding model. - type="protected" utilized the security from Inference Endpoints detailed here. - I’m using 1x Nvidia A10 since jina-embeddings-v2 is memory hungry (remember the 8k context length). - You should consider further tuning MAX_BATCH_TOKENS and MAX_CONCURRENT_REQUESTS if you have high workloads

    -
    -
    -

    Wait until it’s running

    -
    -
    %%time
-endpoint.wait()
    -
    -
    CPU times: user 48.1 ms, sys: 15.7 ms, total: 63.8 ms
-Wall time: 52.6 s
    -
    -
    -
    InferenceEndpoint(name='boru-jina-embeddings-demo-ie', namespace='HF-test-lab', repository='jinaai/jina-embeddings-v2-base-en', status='running', url='https://k7l1xeok1jwnpbx5.us-east-1.aws.endpoints.huggingface.cloud')
    -
    -
    -

    When we use endpoint.client.post we get a bytes string back. This is a little tedious because we need to convert this to an np.array, but it’s just a couple quick lines in python.

    -
    -
    response = endpoint.client.post(json={"inputs": 'This sound track was beautiful! It paints the senery in your mind so well I would recomend it even to people who hate vid. game music!', 'truncate': True}, task="feature-extraction")
-response = np.array(json.loads(response.decode()))
-response[0][:20]
    -
    -
    array([-0.05630935, -0.03560849,  0.02789049,  0.02792823, -0.02800371,
-       -0.01530391, -0.01863454, -0.0077982 ,  0.05374297,  0.03672185,
-       -0.06114018, -0.06880157, -0.0093503 , -0.03174005, -0.03206085,
-        0.0610647 ,  0.02243694,  0.03217408,  0.04181686,  0.00248854])
    -
    -
    -

    You may have inputs that exceed the context. In such scenarios, it’s up to you to handle them. In my case, I’d like to truncate rather than have an error. Let’s test that it works.

    -
    -
    embedding_input = 'This input will get multiplied' * 10000
-print(f'The length of the embedding_input is: {len(embedding_input)}')
-response = endpoint.client.post(json={"inputs": embedding_input, 'truncate': True}, task="feature-extraction")
-response = np.array(json.loads(response.decode()))
-response[0][:20]
    -
    -
    The length of the embedding_input is: 300000
    -
    -
    -
    array([-0.03088215, -0.0351537 ,  0.05749275,  0.00983467,  0.02108356,
-        0.04539965,  0.06107162, -0.02536954,  0.03887688,  0.01998681,
-       -0.05391388,  0.01529677, -0.1279156 ,  0.01653782, -0.01940958,
-        0.0367411 ,  0.0031748 ,  0.04716022, -0.00713609, -0.00155313])
    -
    -
    -
    -
    -
    -

    Get Embeddings

    -

    Here I send a document, update it with the embedding, and return it. This happens in parallel with MAX_WORKERS.

    -
    -
    async def request(document, semaphore):
-    # Semaphore guard
-    async with semaphore:
-        result = await endpoint.async_client.post(json={"inputs": document['content'], 'truncate': True}, task="feature-extraction")
-        result = np.array(json.loads(result.decode()))
-        document['embedding'] = result[0]  # Assuming the API's output can be directly assigned
-        return document
-
-async def main(documents):
-    # Semaphore to limit concurrent requests. Adjust the number as needed.
-    semaphore = asyncio.BoundedSemaphore(MAX_WORKERS)
-
-    # Creating a list of tasks
-    tasks = [request(document, semaphore) for document in documents]
-    
-    # Using tqdm to show progress. It's been integrated into the async loop.
-    for f in tqdm(asyncio.as_completed(tasks), total=len(documents)):
-        await f
    -
    -
    -
    start = time.perf_counter()
-
-# Get embeddings
-await main(documents)
-
-# Make sure we got it all
-count = 0
-for document in documents:
-    if 'embedding' in document.keys() and len(document['embedding']) == 768:
-        count += 1
-print(f'Embeddings = {count} documents = {len(documents)}')
-
-            
-# Print elapsed time
-elapsed_time = time.perf_counter() - start
-minutes, seconds = divmod(elapsed_time, 60)
-print(f"{int(minutes)} min {seconds:.2f} sec")
    -
    - -
    -
    -
    Embeddings = 100 documents = 100
-0 min 21.33 sec
    -
    -
    -
    -

    Pause Inference Endpoint

    -

    Now that we have finished, let’s pause the endpoint so we don’t incur any extra charges, this will also allow us to analyze the cost.

    -
    -
    endpoint = endpoint.pause()
-
-print(f"Endpoint Status: {endpoint.status}")
    -
    -
    Endpoint Status: paused
    -
    -
    -
    -
    -
    -

    Push updated dataset to Hub

    -

    We now have our documents updated with the embeddings we wanted. First we need to convert it back to a Dataset format. I find it easiest to go from list of dicts -> pd.DataFrame -> Dataset

    -
    -
    df = pd.DataFrame(documents)
-dd = DatasetDict({'train': Dataset.from_pandas(df)})
    -
    -

    I’m uploading it to the user’s account by default (as opposed to uploading to an organization) but feel free to push to wherever you want by setting the user in the repo_id or in the config by setting DATASET_OUT

    -
    -
    dd.push_to_hub(repo_id=DATASET_OUT)
    -
    - -
    -
    - -
    -
    -
    -
    print(f'Dataset is at https://huggingface.co/datasets/{who["name"]}/{DATASET_OUT}')
    -
    -
    Dataset is at https://huggingface.co/datasets/derek-thomas/processed-subset-bestofredditorupdates
    -
    -
    -
    -
    -

    Analyze Usage

    -
      -
    1. Go to your dashboard_url printed below
      2. -
    2. Click on the Usage & Cost tab
      3. -
    3. See how much you have spent
      4. -
    -
    -
    dashboard_url = f'https://ui.endpoints.huggingface.co/{namespace}/endpoints/{ENDPOINT_NAME}'
-print(dashboard_url)
    -
    -
    https://ui.endpoints.huggingface.co/HF-test-lab/endpoints/boru-jina-embeddings-demo-ie
    -
    -
    -
    -
    input("Hit enter to continue with the notebook")
    -
    -
    Hit enter to continue with the notebook
    -
    -
    -
    ''
    -
    -
    -

    We can see that it only took $0.04 to pay for this!

    -
    -
    -

    Delete Endpoint

    -

    Now that we are done, we don’t need our endpoint anymore. We can delete our endpoint programmatically.

    -
    -
    -

    -
    Cost
    -
    -
    -
    -
    endpoint = endpoint.delete()
-
-if not endpoint:
-    print('Endpoint deleted successfully')
-else:
-    print('Delete Endpoint in manually')
    -
    -
    Endpoint deleted successfully
    -
    -
    - - -
    - -
    - -
    - - - - - \ No newline at end of file diff --git a/src/Spatial_benchmark_heatmap_ojs/src/notebooks/faiss.html b/src/Spatial_benchmark_heatmap_ojs/src/notebooks/faiss.html deleted file mode 100644 index 6eed646..0000000 --- a/src/Spatial_benchmark_heatmap_ojs/src/notebooks/faiss.html +++ /dev/null @@ -1,802 +0,0 @@ - - - - - - - - - -Similarity Search – SpatialSimBench - - - - - - - - - - - - - - - - - - - - - - - - - - - -
    -
    - -
    - -
    - - - - -
    - -
    -
    -

    Similarity Search

    -
    - - - -
    - - - - -
    - - - -
    - - -
    -

    Embedding multimodal data for similarity search using 🤗 transformers, 🤗 datasets and FAISS

    -

    Authored by: Merve Noyan

    -

    Embeddings are semantically meaningful compressions of information. They can be used to do similarity search, zero-shot classification or simply train a new model. Use cases for similarity search include searching for similar products in e-commerce, content search in social media and more. This notebook walks you through using 🤗transformers, 🤗datasets and FAISS to create and index embeddings from a feature extraction model to later use them for similarity search. Let’s install necessary libraries.

    -
    -
    !pip install -q datasets faiss-gpu transformers sentencepiece
    -
    -

    For this tutorial, we will use CLIP model to extract the features. CLIP is a revolutionary model that introduced joint training of a text encoder and an image encoder to connect two modalities.

    -
    -
    import torch
-from PIL import Image
-from transformers import AutoImageProcessor, AutoModel, AutoTokenizer
-import faiss
-import numpy as np
-
-device = torch.device('cuda' if torch.cuda.is_available() else "cpu")
-
-model = AutoModel.from_pretrained("openai/clip-vit-base-patch16").to(device)
-processor = AutoImageProcessor.from_pretrained("openai/clip-vit-base-patch16")
-tokenizer = AutoTokenizer.from_pretrained("openai/clip-vit-base-patch16")
    -
    -

    Load the dataset. To keep this notebook light, we will use a small captioning dataset, jmhessel/newyorker_caption_contest.

    -
    -
    from datasets import load_dataset
-
-ds = load_dataset("jmhessel/newyorker_caption_contest", "explanation")
    -
    -

    See an example.

    -
    -
    ds["train"][0]["image"]
    -
    -
    -
    -

    -
    -
    -
    -
    -
    -
    ds["train"][0]["image_description"]
    -
    -
    'Two women are looking out a window. There is snow outside, and there is a snowman with human arms.'
    -
    -
    -

    We don’t have to write any function to embed examples or create an index. 🤗 datasets library’s FAISS integration abstracts these processes. We can simply use map method of the dataset to create a new column with the embeddings for each example like below. Let’s create one for text features on the prompt column.

    -
    -
    dataset = ds["train"]
-ds_with_embeddings = dataset.map(lambda example:
-                                {'embeddings': model.get_text_features(
-                                    **tokenizer([example["image_description"]],
-                                                truncation=True, return_tensors="pt")
-                                    .to("cuda"))[0].detach().cpu().numpy()})
    -
    -
    -
    ds_with_embeddings.add_faiss_index(column='embeddings')
    -
    -

    We can do the same and get the image embeddings.

    -
    -
    ds_with_embeddings = ds_with_embeddings.map(lambda example:
-                                          {'image_embeddings': model.get_image_features(
-                                              **processor([example["image"]], return_tensors="pt")
-                                              .to("cuda"))[0].detach().cpu().numpy()})
    -
    -
    -
    ds_with_embeddings.add_faiss_index(column='image_embeddings')
    -
    -
    -

    Querying the data with text prompts

    -

    We can now query the dataset with text or image to get similar items from it.

    -
    -
    prmt = "a snowy day"
-prmt_embedding = model.get_text_features(**tokenizer([prmt], return_tensors="pt", truncation=True).to("cuda"))[0].detach().cpu().numpy()
-scores, retrieved_examples = ds_with_embeddings.get_nearest_examples('embeddings', prmt_embedding, k=1)
    -
    -
    -
    def downscale_images(image):
-  width = 200
-  ratio = (width / float(image.size[0]))
-  height = int((float(image.size[1]) * float(ratio)))
-  img = image.resize((width, height), Image.Resampling.LANCZOS)
-  return img
-
-images = [downscale_images(image) for image in retrieved_examples["image"]]
-# see the closest text and image
-print(retrieved_examples["image_description"])
-display(images[0])
-
    -
    -
    ['A man is in the snow. A boy with a huge snow shovel is there too. They are outside a house.']
    -
    -
    -
    -
    -

    -
    -
    -
    -
    -
    -
    -

    Querying the data with image prompts

    -

    Image similarity inference is similar, where you just call get_image_features.

    -
    -
    import requests
-# image of a beaver
-url = "https://huggingface.co/datasets/huggingface/documentation-images/resolve/main/transformers/beaver.png"
-image = Image.open(requests.get(url, stream=True).raw)
-display(downscale_images(image))
    -
    -
    -
    -

    -
    -
    -
    -
    -

    Search for the similar image.

    -
    -
    img_embedding = model.get_image_features(**processor([image], return_tensors="pt", truncation=True).to("cuda"))[0].detach().cpu().numpy()
-scores, retrieved_examples = ds_with_embeddings.get_nearest_examples('image_embeddings', img_embedding, k=1)
    -
    -

    Display the most similar image to the beaver image.

    -
    -
    images = [downscale_images(image) for image in retrieved_examples["image"]]
-# see the closest text and image
-print(retrieved_examples["image_description"])
-display(images[0])
    -
    -
    ['Salmon swim upstream but they see a grizzly bear and are in shock. The bear has a smug look on his face when he sees the salmon.']
    -
    -
    -
    -
    -

    -
    -
    -
    -
    -
    -
    -

    Saving, pushing and loading the embeddings

    -

    We can save the dataset with embeddings with save_faiss_index.

    -
    -
    ds_with_embeddings.save_faiss_index('embeddings', 'embeddings/embeddings.faiss')
    -
    -
    -
    ds_with_embeddings.save_faiss_index('image_embeddings', 'embeddings/image_embeddings.faiss')
    -
    -

    It’s a good practice to store the embeddings in a dataset repository, so we will create one and push our embeddings there to pull later. We will login to Hugging Face Hub, create a dataset repository there and push our indexes there and load using snapshot_download.

    -
    -
    from huggingface_hub import HfApi, notebook_login, snapshot_download
-notebook_login()
    -
    -
    -
    from huggingface_hub import HfApi
-api = HfApi()
-api.create_repo("merve/faiss_embeddings", repo_type="dataset")
-api.upload_folder(
-    folder_path="./embeddings",
-    repo_id="merve/faiss_embeddings",
-    repo_type="dataset",
-)
    -
    -
    -
    snapshot_download(repo_id="merve/faiss_embeddings", repo_type="dataset",
-                  local_dir="downloaded_embeddings")
    -
    -

    We can load the embeddings to the dataset with no embeddings using load_faiss_index.

    -
    -
    ds = ds["train"]
-ds.load_faiss_index('embeddings', './downloaded_embeddings/embeddings.faiss')
-# infer again
-prmt = "people under the rain"
    -
    -
    -
    prmt_embedding = model.get_text_features(
-                        **tokenizer([prmt], return_tensors="pt", truncation=True)
-                        .to("cuda"))[0].detach().cpu().numpy()
-
-scores, retrieved_examples = ds.get_nearest_examples('embeddings', prmt_embedding, k=1)
    -
    -
    -
    display(retrieved_examples["image"][0])
    -
    -
    -
    -

    -
    -
    -
    -
    - - -
    -
    - -
    - -
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    -
    - -
    - -
    - - - - -
    - -
    -
    -

    RAG Evaluation

    -
    - - - -
    - - - - -
    - - - -
    - - -
    -
    !pip install -q torch transformers transformers langchain sentence-transformers faiss-gpu openpyxl openai
    -
    -
    -
    %reload_ext autoreload
-%autoreload 2
-%reload_ext dotenv
-%dotenv
    -
    -
    -
    from tqdm.notebook import tqdm
-import pandas as pd
-from typing import Optional, List, Tuple
-from langchain_core.language_models import BaseChatModel
-import json
-import datasets
-
-pd.set_option("display.max_colwidth", None)
    -
    -
    -

    Load your knowledge base

    -
    -
    ds = datasets.load_dataset("m-ric/huggingface_doc", split="train")
    -
    -
    -
    -

    1. Build a synthetic dataset for evaluation

    -

    We first build a synthetic dataset of questions and associated contexts. The method is to get elements from our knowledge base, and ask an LLM to generate questions based on these documents.

    -

    Then we setup other LLM agents to act as quality filters for the generated QA couples: each of them will act as the filter for a specific flaw.

    -
    -

    1.1. Prepare source documents

    -
    -
    from langchain.text_splitter import RecursiveCharacterTextSplitter
-from langchain.docstore.document import Document as LangchainDocument
-
-langchain_docs = [
-    LangchainDocument(page_content=doc["text"], metadata={"source": doc["source"]})
-    for doc in tqdm(ds)
-]
-
-
-text_splitter = RecursiveCharacterTextSplitter(
-    chunk_size=2000,
-    chunk_overlap=200,
-    add_start_index=True,
-    separators=["\n\n", "\n", ".", " ", ""],
-)
-
-docs_processed = []
-for doc in langchain_docs:
-    docs_processed += text_splitter.split_documents([doc])
    -
    -
    -
    -

    1.2. Setup agents for question generation

    -

    We use Mixtral for QA couple generation because it it has excellent performance in leaderboards such as Chatbot Arena.

    -
    -
    from langchain_community.llms import HuggingFaceHub
-
-repo_id = "mistralai/Mixtral-8x7B-Instruct-v0.1"
-
-llm = HuggingFaceHub(
-    repo_id=repo_id,
-    task="text-generation",
-    model_kwargs={
-        "max_new_tokens": 512,
-        "top_k": 30,
-        "temperature": 0.1,
-        "repetition_penalty": 1.03,
-    },
-)
    -
    -
    -
    from langchain_community.chat_models import ChatHuggingFace
-
-chat_model = ChatHuggingFace(llm=llm)
    -
    -
    -
    from langchain.prompts import ChatPromptTemplate
-
-QA_generation_prompt = """
-Your task is to write a factoid question and an answer given a context.
-Your factoid question should be answerable with a specific, concise piece of factual information from the context.
-Your factoid question should be formulated in the same style as questions users could ask in a search engine.
-This means that your factoid question MUST NOT mention something like "according to the passage" or "context".
-
-Provide your answer as follows:
-
-Output:::
-Factoid question: (your factoid question)
-Answer: (your answer to the factoid question)
-
-Now here is the context.
-
-Context: {context}\n
-Output:::"""
-
-QA_generation_prompt = ChatPromptTemplate.from_template(QA_generation_prompt)
-QA_generation_agent = QA_generation_prompt | chat_model
    -
    -

    Now let’s generate our QA couples. For this example, we generate only 10 QA couples and will load the rest from the Hub.

    -

    But for your specific knowledge base, given that you want to get at least ~100 test samples, and accounting for the fact that we will filter out around half of these with our critique agents later on, you should generate much more, in the >200 samples.

    -
    -
    import random
-
-N_GENERATIONS = (
-    10  # We intentionally generate only 10 QA couples here for cost and time considerations
-)
-
-print(f"Generating {N_GENERATIONS} QA couples...")
-outputs = []
-for context in tqdm(random.sample(langchain_docs, N_GENERATIONS)):
-    # Generate QA couple
-    output_QA_couple = QA_generation_agent.invoke({"context": context.page_content}).content
-    try:
-        question = output_QA_couple.split("Factoid question: ")[1].split("Answer: ")[0]
-        answer = output_QA_couple.split("Answer: ")[1]
-        outputs.append(
-            {
-                "context": context.page_content,
-                "question": question,
-                "answer": answer,
-                "source_doc": context.metadata["source"],
-            }
-        )
-    except:
-        continue
    -
    -
    -
    display(pd.DataFrame(outputs).head(1))
    -
    -
    -
    -

    1.3. Setup critique agents

    -

    The questions generated by the previous agent can have many flaws: we should do a quality check before validating these questions.

    -

    We thus build critique agents that will rate each question on several criteria, given in this paper: - Groundedness: can the question be answered from the given context? - Relevance: is the question relevant to users? For instance, "What is the date when transformers 4.29.1 was released?" is not relevant for ML practicioners.

    -

    One last failure case we’ve noticed is when a function is tailored for the particular setting where the question was generated, but undecipherable by itself, like "What is the name of the function used in this guide?". We also build a critique agent for this criteria: - Stand-alone: is the question understandable free of any context, for someone with domain knowledge/Internet access? The opposite of this would be What is the function used in this article? for a question generated from a specific blog article.

    -

    We systematically score functions with all these agents, and whenever the score is too low for any one of the agents, we eliminate the question from our eval dataset.

    -

    💡 When asking the agents to output a score, we first ask them to produce its rationale. This will help us verify scores, but most importantly, asking it to first output rationale gives the model more tokens to think and elaborate an answer before summarizing it into a single score token.

    -

    We now build and run these critique agents.

    -
    -
    question_groundedness_critique_prompt = """
-You will be given a context and a question.
-Your task is to provide a 'total rating' scoring how well one can answer the given question unambiguously with the given context.
-Give your answer on a scale of 1 to 5, where 1 means that the question is not answerable at all given the context, and 5 means that the question is clearly and unambiguously answerable with the context.
-
-Provide your answer as follows:
-
-Answer:::
-Evaluation: (your rationale for the rating)
-Total rating: (your rating)
-
-Now here are the question and context.
-
-Question: {question}\n
-Context: {context}\n
-Answer::: """
-
-question_relevance_critique_prompt = """
-You will be given a question.
-Your task is to provide a 'total rating' representing how useful this question can be to machine learning developers building NLP applications with the Hugging Face ecosystem.
-Give your answer on a scale of 1 to 5, where 1 means that the question is not useful at all, and 5 means that the question is extremely useful.
-
-Provide your answer as follows:
-
-Answer:::
-Evaluation: (your rationale for the rating)
-Total rating: (your rating)
-
-Now here is the question.
-
-Question: {question}\n
-Answer::: """
-
-question_standalone_critique_prompt = """
-You will be given a question.
-Your task is to provide a 'total rating' representing how context-independant this question is.
-Give your answer on a scale of 1 to 5, where 1 means that the question only makes sense in a specific context, and 5 means that the question makes sense by itself.
-For instance, if the question refers to a particular setting, like 'in the context' or 'in the document', the rating must be 1.
-The questions can contain obscure technical nouns or acronyms like Gradio, Hub, Hugging Face or Space and still be a 5: it must simply be clear to an operator with access to documentation what the question is about.
-
-Provide your answer as follows:
-
-Answer:::
-Evaluation: (your rationale for the rating)
-Total rating: (your rating)
-
-Now here is the question.
-
-Question: {question}\n
-Answer::: """
-
-question_groundedness_critique_prompt = ChatPromptTemplate.from_template(
-    question_groundedness_critique_prompt
-)
-question_groundedness_critique_agent = question_groundedness_critique_prompt | chat_model
-
-question_relevance_critique_prompt = ChatPromptTemplate.from_template(
-    question_relevance_critique_prompt
-)
-question_relevance_critique_agent = question_relevance_critique_prompt | chat_model
-
-question_standalone_critique_prompt = ChatPromptTemplate.from_template(
-    question_standalone_critique_prompt
-)
-question_standalone_critique_agent = question_standalone_critique_prompt | chat_model
    -
    -
    -
    print("Generating critique for each QA couple...")
-for output in tqdm(outputs):
-    # Critique the generated QA couple
-    question_groundedness_evaluation = question_groundedness_critique_agent.invoke(
-        {"context": output["context"], "question": output["question"]}
-    ).content
-    question_relevance_evaluation = question_relevance_critique_agent.invoke(
-        {"question": output["question"]}
-    ).content
-    question_standalone_evaluation = question_standalone_critique_agent.invoke(
-        {"question": output["question"]}
-    ).content
-
-    try:
-        groundedness_score = int(question_groundedness_evaluation.split("Total rating: ")[1][0])
-        groundedness_eval = question_groundedness_evaluation.split("Total rating: ")[0].split(
-            "Evaluation: "
-        )[1]
-        relevance_score = int(question_relevance_evaluation.split("Total rating: ")[1][0])
-        relevance_eval = question_relevance_evaluation.split("Total rating: ")[0].split(
-            "Evaluation: "
-        )[1]
-        standalone_score = int(question_standalone_evaluation.split("Total rating: ")[1][0])
-        standalone_eval = question_standalone_evaluation.split("Total rating: ")[0].split(
-            "Evaluation: "
-        )[1]
-        output.update(
-            {
-                "groundedness_score": groundedness_score,
-                "groundedness_eval": groundedness_eval,
-                "relevance_score": relevance_score,
-                "relevance_eval": relevance_eval,
-                "standalone_score": standalone_score,
-                "standalone_eval": standalone_eval,
-            }
-        )
-    except:
-        continue
    -
    -

    Now let us filter out bad questions based on our critique agent scores:

    -
    -
    import pandas as pd
-
-pd.set_option("display.max_colwidth", None)
-
-generated_questions = pd.DataFrame.from_dict(outputs)
-
-print("Evaluation dataset before filtering:")
-display(
-    generated_questions[
-        ["question", "answer", "groundedness_score", "relevance_score", "standalone_score"]
-    ]
-)
-generated_questions = generated_questions.loc[
-    (generated_questions["groundedness_score"] >= 4)
-    & (generated_questions["relevance_score"] >= 4)
-    & (generated_questions["standalone_score"] >= 4)
-]
-print("============================================")
-print("Final evaluation dataset:")
-display(
-    generated_questions[
-        ["question", "answer", "groundedness_score", "relevance_score", "standalone_score"]
-    ]
-)
-
-eval_dataset = datasets.Dataset.from_pandas(
-    generated_questions, split="train", preserve_index=False
-)
    -
    -

    Now our synthetic evaluation dataset is complete! We can evaluate different RAG systems on this evaluation dataset.

    -

    We have generated only a few QA couples here to reduce time and cost. But let’s kick start the next part by loading a pre-generated dataset:

    -
    -
    eval_dataset = datasets.load_dataset("m-ric/huggingface_doc_qa_eval", split="train")
    -
    -
    -
    -
    -

    2. Build our RAG System

    -
    -

    2.1. Preprocessing documents to build our vector database

    -
      -
    • In this part, we split the documents from our knowledge base into smaller chunks: these will be the snippets that are picked by the Retriever, to then be ingested by the Reader LLM as supporting elements for its answer.
      • -
    • The goal is to build semantically relevant snippets: not too small to be sufficient for supporting an answer, and not too large too avoid diluting individual ideas.
      • -
    -

    Many options exist for text splitting: - split every n words / characters, but this has the risk of cutting in half paragraphs or even sentences - split after n words / character, but only on sentence boundaries - recursive split tries to preserve even more of the document structure, by processing it tree-like way, splitting first on the largest units (chapters) then recursively splitting on smaller units (paragraphs, sentences).

    -

    To learn more about chunking, I recommend you read this great notebook by Greg Kamradt.

    -

    This space lets you visualize how different splitting options affect the chunks you get.

    -
    -

    In the following, we use Langchain’s RecursiveCharacterTextSplitter.

    -
    -

    💡 To measure chunk length in our Text Splitter, our length function will not be the count of characters, but the count of tokens in the tokenized text: indeed, for subsequent embedder that processes token, measuring length in tokens is more relevant and empirically performs better.

    -
    -
    from langchain.docstore.document import Document as LangchainDocument
-
-RAW_KNOWLEDGE_BASE = [
-    LangchainDocument(page_content=doc["text"], metadata={"source": doc["source"]})
-    for doc in tqdm(ds)
-]
    -
    -
    -
    from langchain.text_splitter import RecursiveCharacterTextSplitter
-from transformers import AutoTokenizer
-
-
-def split_documents(
-    chunk_size: int,
-    knowledge_base: List[LangchainDocument],
-    tokenizer_name: str,
-) -> List[LangchainDocument]:
-    """
-    Split documents into chunks of size `chunk_size` characters and return a list of documents.
-    """
-    text_splitter = RecursiveCharacterTextSplitter.from_huggingface_tokenizer(
-        AutoTokenizer.from_pretrained(tokenizer_name),
-        chunk_size=chunk_size,
-        chunk_overlap=int(chunk_size / 10),
-        add_start_index=True,
-        strip_whitespace=True,
-        separators=["\n\n", "\n", ".", " ", ""],
-    )
-
-    docs_processed = []
-    for doc in knowledge_base:
-        docs_processed += text_splitter.split_documents([doc])
-
-    # Remove duplicates
-    unique_texts = {}
-    docs_processed_unique = []
-    for doc in docs_processed:
-        if doc.page_content not in unique_texts:
-            unique_texts[doc.page_content] = True
-            docs_processed_unique.append(doc)
-
-    return docs_processed_unique
    -
    -
    -
    -

    2.2. Retriever - embeddings 🗂️

    -

    The retriever acts like an internal search engine: given the user query, it returns the most relevant documents from your knowledge base.

    -
    -

    For the knowledge base, we use Langchain vector databases since it offers a convenient FAISS index and allows us to keep document metadata throughout the processing.

    -
    -

    🛠️ Options included:

    -
      -
    • Tune the chunking method: -
        -
      • Size of the chunks
        • -
      • Method: split on different separators, use semantic chunking…
        • -
      • -
    • Change the embedding model
      • -
    -
    -
    from langchain.vectorstores import FAISS
-from langchain_community.embeddings import HuggingFaceEmbeddings
-from langchain_community.vectorstores.utils import DistanceStrategy
-import os
-
-
-def load_embeddings(
-    langchain_docs: List[LangchainDocument],
-    chunk_size: int,
-    embedding_model_name: Optional[str] = "thenlper/gte-small",
-) -> FAISS:
-    """
-    Creates a FAISS index from the given embedding model and documents. Loads the index directly if it already exists.
-
-    Args:
-        langchain_docs: list of documents
-        chunk_size: size of the chunks to split the documents into
-        embedding_model_name: name of the embedding model to use
-
-    Returns:
-        FAISS index
-    """
-    # load embedding_model
-    embedding_model = HuggingFaceEmbeddings(
-        model_name=embedding_model_name,
-        multi_process=True,
-        model_kwargs={"device": "cuda"},
-        encode_kwargs={"normalize_embeddings": True},  # set True to compute cosine similarity
-    )
-
-    # Check if embeddings already exist on disk
-    index_name = f"index_chunk:{chunk_size}_embeddings:{embedding_model_name.replace('/', '~')}"
-    index_folder_path = f"./data/indexes/{index_name}/"
-    if os.path.isdir(index_folder_path):
-        return FAISS.load_local(
-            index_folder_path,
-            embedding_model,
-            distance_strategy=DistanceStrategy.COSINE,
-        )
-
-    else:
-        print("Index not found, generating it...")
-        docs_processed = split_documents(
-            chunk_size,
-            langchain_docs,
-            embedding_model_name,
-        )
-        knowledge_index = FAISS.from_documents(
-            docs_processed, embedding_model, distance_strategy=DistanceStrategy.COSINE
-        )
-        knowledge_index.save_local(index_folder_path)
-        return knowledge_index
    -
    -
    -
    -

    2.3. Reader - LLM 💬

    -

    In this part, the LLM Reader reads the retrieved documents to formulate its answer.

    -

    🛠️ Here we tried the following options to improve results: - Switch reranking on/off - Change the reader model

    -
    -
    RAG_PROMPT_TEMPLATE = """
-<|system|>
-Using the information contained in the context,
-give a comprehensive answer to the question.
-Respond only to the question asked, response should be concise and relevant to the question.
-Provide the number of the source document when relevant.
-If the answer cannot be deduced from the context, do not give an answer.</s>
-<|user|>
-Context:
-{context}
----
-Now here is the question you need to answer.
-
-Question: {question}
-</s>
-<|assistant|>
-"""
    -
    -
    -
    from langchain_community.llms import HuggingFaceHub
-
-repo_id = "HuggingFaceH4/zephyr-7b-beta"
-READER_MODEL_NAME = "zephyr-7b-beta"
-
-READER_LLM = HuggingFaceHub(
-    repo_id=repo_id,
-    task="text-generation",
-    model_kwargs={
-        "max_new_tokens": 512,
-        "top_k": 30,
-        "temperature": 0.1,
-        "repetition_penalty": 1.03,
-    },
-)
    -
    -
    -
    from ragatouille import RAGPretrainedModel
-from langchain_core.vectorstores import VectorStore
-from langchain_core.language_models.llms import LLM
-
-
-def answer_with_rag(
-    question: str,
-    llm: LLM,
-    knowledge_index: VectorStore,
-    reranker: Optional[RAGPretrainedModel] = None,
-    num_retrieved_docs: int = 30,
-    num_docs_final: int = 7,
-) -> Tuple[str, List[LangchainDocument]]:
-    """Answer a question using RAG with the given knowledge index."""
-    # Gather documents with retriever
-    relevant_docs = knowledge_index.similarity_search(query=question, k=num_retrieved_docs)
-    relevant_docs = [doc.page_content for doc in relevant_docs]  # keep only the text
-
-    # Optionally rerank results
-    if reranker:
-        relevant_docs = reranker.rerank(question, relevant_docs, k=num_docs_final)
-        relevant_docs = [doc["content"] for doc in relevant_docs]
-
-    relevant_docs = relevant_docs[:num_docs_final]
-
-    # Build the final prompt
-    context = "\nExtracted documents:\n"
-    context += "".join([f"Document {str(i)}:::\n" + doc for i, doc in enumerate(relevant_docs)])
-
-    final_prompt = RAG_PROMPT_TEMPLATE.format(question=question, context=context)
-
-    # Redact an answer
-    answer = llm(final_prompt)
-
-    return answer, relevant_docs
    -
    -
    -
    -
    -

    3. Benchmarking the RAG system

    -

    The RAG system and the evaluation datasets are now ready. The last step is to judge the RAG system’s output on this evlauation dataset.

    -

    To this end, we setup a judge agent. ⚖️🤖

    -

    Out of the different RAG evaluation metrics, we choose to focus only on faithfulness since it the best end-to-end metric of our system’s performance.

    -
    -

    We use GPT4 as a judge for its empirically good performance, but you could try with other models such as kaist-ai/prometheus-13b-v1.0 or BAAI/JudgeLM-33B-v1.0.

    -
    -

    💡 In the evaluation prompt, we give a detailed description each metric on the scale 1-5, as is done in Prometheus’s prompt template: this helps the model ground its metric precisely. If instead you give the judge LLM a vague scale to work with, the outputs will not be consistent enough between different examples.

    -

    💡 Again, prompting the LLM to output rationale before giving its final score gives it more tokens to help it formalize and elaborate a judgement.

    -
    -
    def run_rag_tests(
-    eval_dataset: datasets.Dataset,
-    llm: BaseChatModel,
-    knowledge_index: VectorStore,
-    output_file: str,
-    reranker: Optional[RAGPretrainedModel] = None,
-    verbose: Optional[bool] = True,
-    test_settings: Optional[str] = None,  # To document the test settings used
-):
-    """Runs RAG tests on the given dataset and saves the results to the given output file."""
-    try:  # load previous generations if they exist
-        with open(output_file, "r") as f:
-            outputs = json.load(f)
-    except:
-        outputs = []
-
-    for example in tqdm(eval_dataset):
-        question = example["question"]
-        if question in [output["question"] for output in outputs]:
-            continue
-
-        answer, relevant_docs = answer_with_rag(question, llm, knowledge_index, reranker=reranker)
-        if verbose:
-            print("=======================================================")
-            print(f"Question: {question}")
-            print(f"Answer: {answer}")
-            print(f'True answer: {example["answer"]}')
-        result = {
-            "question": question,
-            "true_answer": example["answer"],
-            "source_doc": example["source_doc"],
-            "generated_answer": answer,
-            "retrieved_docs": [doc for doc in relevant_docs],
-        }
-        if test_settings:
-            result["test_settings"] = test_settings
-        outputs.append(result)
-
-        with open(output_file, "w") as f:
-            json.dump(outputs, f)
    -
    -
    -
    EVALUATION_PROMPT = """###Task Description:
-An instruction (might include an Input inside it), a response to evaluate, a reference answer that gets a score of 5, and a score rubric representing a evaluation criteria are given.
-1. Write a detailed feedback that assess the quality of the response strictly based on the given score rubric, not evaluating in general.
-2. After writing a feedback, write a score that is an integer between 1 and 5. You should refer to the score rubric.
-3. The output format should look as follows: \"Feedback: {{write a feedback for criteria}} [RESULT] {{an integer number between 1 and 5}}\"
-4. Please do not generate any other opening, closing, and explanations. Be sure to include [RESULT] in your output.
-
-###The instruction to evaluate:
-{instruction}
-
-###Response to evaluate:
-{response}
-
-###Reference Answer (Score 5):
-{reference_answer}
-
-###Score Rubrics:
-[Is the response correct, accurate, and factual based on the reference answer?]
-Score 1: The response is completely incorrect, inaccurate, and/or not factual.
-Score 2: The response is mostly incorrect, inaccurate, and/or not factual.
-Score 3: The response is somewhat correct, accurate, and/or factual.
-Score 4: The response is mostly correct, accurate, and factual.
-Score 5: The response is completely correct, accurate, and factual.
-
-###Feedback:"""
-
-from langchain.prompts.chat import (
-    ChatPromptTemplate,
-    HumanMessagePromptTemplate,
-)
-from langchain.schema import SystemMessage
-
-
-evaluation_prompt_template = ChatPromptTemplate.from_messages(
-    [
-        SystemMessage(content="You are a fair evaluator language model."),
-        HumanMessagePromptTemplate.from_template(EVALUATION_PROMPT),
-    ]
-)
    -
    -
    -
    from langchain.chat_models import ChatOpenAI
-
-eval_chat_model = ChatOpenAI(model="gpt-4-1106-preview", temperature=0)
-evaluator_name = "GPT4"
-
-
-def evaluate_answers(
-    answer_path: str,
-    eval_chat_model: BaseChatModel,
-    evaluator_name: str,
-    evaluation_prompt_template: ChatPromptTemplate,
-) -> None:
-    """Evaluates generated answers. Modifies the given answer file in place for better checkpointing."""
-    answers = []
-    if os.path.isfile(answer_path):  # load previous generations if they exist
-        answers = json.load(open(answer_path, "r"))
-
-    for experiment in tqdm(answers):
-        if f"eval_score_{evaluator_name}" in experiment:
-            continue
-
-        eval_prompt = evaluation_prompt_template.format_messages(
-            instruction=experiment["question"],
-            response=experiment["generated_answer"],
-            reference_answer=experiment["true_answer"],
-        )
-        eval_result = eval_chat_model.invoke(eval_prompt)
-        feedback, score = [item.strip() for item in eval_result.content.split("[RESULT]")]
-        experiment[f"eval_score_{evaluator_name}"] = score
-        experiment[f"eval_feedback_{evaluator_name}"] = feedback
-
-        with open(answer_path, "w") as f:
-            json.dump(answers, f)
    -
    -

    🚀 Let’s run the tests and evaluate answers!👇

    -
    -
    if not os.path.exists("./output"):
-    os.mkdir("./output")
-
-for chunk_size in [200]:  # Add other chunk sizes (in tokens) as needed
-    for embeddings in ["thenlper/gte-small"]:  # Add other embeddings as needed
-        for rerank in [True, False]:
-            settings_name = f"chunk:{chunk_size}_embeddings:{embeddings.replace('/', '~')}_rerank:{rerank}_reader-model:{READER_MODEL_NAME}"
-            output_file_name = f"./output/rag_{settings_name}.json"
-
-            print(f"Running evaluation for {settings_name}:")
-
-            print("Loading knowledge base embeddings...")
-            knowledge_index = load_embeddings(
-                RAW_KNOWLEDGE_BASE,
-                chunk_size=chunk_size,
-                embedding_model_name=embeddings,
-            )
-
-            print("Running RAG...")
-            reranker = (
-                RAGPretrainedModel.from_pretrained("colbert-ir/colbertv2.0") if rerank else None
-            )
-            run_rag_tests(
-                eval_dataset=eval_dataset,
-                llm=READER_LLM,
-                knowledge_index=knowledge_index,
-                output_file=output_file_name,
-                reranker=reranker,
-                verbose=False,
-                test_settings=settings_name,
-            )
-
-            print("Running evaluation...")
-            evaluate_answers(
-                output_file_name,
-                eval_chat_model,
-                evaluator_name,
-                evaluation_prompt_template,
-            )
    -
    -
    -

    Inspect results

    -
    -
    import glob
-
-outputs = []
-for file in glob.glob("./output/*.json"):
-    output = pd.DataFrame(json.load(open(file, "r")))
-    output["settings"] = file
-    outputs.append(output)
-result = pd.concat(outputs)
    -
    -
    -
    result["eval_score_GPT4"] = result["eval_score_GPT4"].apply(
-    lambda x: int(x) if isinstance(x, str) else 1
-)
-result["eval_score_GPT4"] = (result["eval_score_GPT4"] - 1) / 4
    -
    -
    -
    average_scores = result.groupby("settings")["eval_score_GPT4"].mean()
-average_scores.sort_values()
    -
    -
    -
    -

    Example results

    -

    Let us load the results that I obtained by tweaking the different options available in this notebook. For more detail on why these options could work on not, see the notebook on advanced_RAG.

    -

    As you can see in the graph below, some tweaks do not bring any improvement, some give huge performance boosts.

    -

    ➡️ There is no single good recipe: you should try several different directions when tuning your RAG systems.

    -
    -
    import plotly.express as px
-
-scores = datasets.load_dataset("m-ric/rag_scores_cookbook", split="train")
-scores = pd.Series(scores["score"], index=scores["settings"])
    -
    -
    -
    fig = px.bar(
-    scores,
-    color=scores,
-    labels={
-        "value": "Accuracy",
-        "settings": "Configuration",
-    },
-    color_continuous_scale="bluered",
-)
-fig.update_layout(w
-    width=1000,
-    height=600,
-    barmode="group",
-    yaxis_range=[0, 100],
-    title="<b>Accuracy of different RAG configurations</b>",
-    xaxis_title="RAG settings",
-    font=dict(size=15),
-)
-fig.layout.yaxis.ticksuffix = "%"
-fig.update_coloraxes(showscale=False)
-fig.update_traces(texttemplate="%{y:.1f}", textposition="outside")
-fig.show()
    -
    -

    -

    As you can see, these had varying impact on performance. In particular, tuning the chunk size is both easy and very impactful.

    -

    But this is our case: your results could be very different: now that you have a robust evaluation pipeline, you can set on to explore other options! 🗺️

    - - -
    -
    - -
    - -
    - - - - - \ No newline at end of file diff --git a/src/Spatial_benchmark_heatmap_ojs/src/notebooks/rag_zephyr_langchain.html b/src/Spatial_benchmark_heatmap_ojs/src/notebooks/rag_zephyr_langchain.html deleted file mode 100644 index db7a5dd..0000000 --- a/src/Spatial_benchmark_heatmap_ojs/src/notebooks/rag_zephyr_langchain.html +++ /dev/null @@ -1,898 +0,0 @@ - - - - - - - - - -Simple RAG – SpatialSimBench - - - - - - - - - - - - - - - - - - - - - - - - - - - -
    -
    - -
    - -
    - - - - -
    - -
    -
    -

    Simple RAG

    -
    - - - -
    - - - - -
    - - - -
    - - -
    -
    !pip install -q torch transformers accelerate bitsandbytes transformers sentence-transformers faiss-gpu
    -
    -
    -
    !pip install -q langchain
    -
    -
    -
    -
    - -
    -
    -Note -
    -
    -
    -

    If running in Google Colab, you may need to run this cell to make sure you’re using UTF-8 locale to install LangChain

    -
    -
    import locale
-locale.getpreferredencoding = lambda: "UTF-8"
    -
    -
    -
    -
    -

    Prepare the data

    -

    In this example, we’ll load all of the issues (both open and closed) from PEFT library’s repo.

    -

    First, you need to acquire a GitHub personal access token to access the GitHub API.

    -
    -
    from getpass import getpass
-
-ACCESS_TOKEN = getpass("YOUR_GITHUB_PERSONAL_TOKEN")
    -
    -
    -
    1
    -
    -You can also use an environment variable to store your token. -
    -
    -
    -
    -

    Next, we’ll load all of the issues in the huggingface/peft repo: - By default, pull requests are considered issues as well, here we chose to exclude them from data with by setting include_prs=False - Setting state = "all" means we will load both open and closed issues.

    -
    -
    from langchain.document_loaders import GitHubIssuesLoader
-
-loader = GitHubIssuesLoader(
-    repo="huggingface/peft",
-    access_token=ACCESS_TOKEN,
-    include_prs=False,
-    state="all"
-)
-
-docs = loader.load()
    -
    -

    The content of individual GitHub issues may be longer than what an embedding model can take as input. If we want to embed all of the available content, we need to chunk the documents into appropriately sized pieces.

    -

    The most common and straightforward approach to chunking is to define a fixed size of chunks and whether there should be any overlap between them. Keeping some overlap between chunks allows us to preserve some semantic context between the chunks.

    -

    Other approaches are typically more involved and take into account the documents’ structure and context. For example, one may want to split a document based on sentences or paragraphs, or create chunks based on the

    -

    The fixed-size chunking, however, works well for most common cases, so that is what we’ll do here.

    -
    -
    from langchain.text_splitter import CharacterTextSplitter
-
-splitter = CharacterTextSplitter(chunk_size=512, chunk_overlap=30)
-
-chunked_docs = splitter.split_documents(docs)
    -
    -
    -
    -

    Create the embeddings + retriever

    -

    Now that the docs are all of the appropriate size, we can create a database with their embeddings.

    -

    To create document chunk embeddings we’ll use the HuggingFaceEmbeddings and the BAAI/bge-base-en-v1.5 embeddings model. To create the vector database, we’ll use FAISS, a library developed by Facebook AI. This library offers efficient similarity search and clustering of dense vectors, which is what we need here. FAISS is currently one of the most used libraries for NN search in massive datasets.

    -
    -
    -
    - -
    -
    -Tip -
    -
    -
    -

    There are many other embeddings models available on the Hub, and you can keep an eye on the best performing ones by checking the Massive Text Embedding Benchmark (MTEB) Leaderboard.

    -
    -
    -

    We’ll access both the embeddings model and FAISS via LangChain API.

    -
    -
    from langchain.vectorstores import FAISS
-from langchain.embeddings import HuggingFaceEmbeddings
-
-db = FAISS.from_documents(chunked_docs,
-                          HuggingFaceEmbeddings(model_name='BAAI/bge-base-en-v1.5'))
    -
    -

    We need a way to return(retrieve) the documents given an unstructured query. For that, we’ll use the as_retriever method using the db as a backbone: - search_type="similarity" means we want to perform similarity search between the query and documents - search_kwargs={'k': 4} instructs the retriever to return top 4 results.

    -
    -
    retriever = db.as_retriever(
-    search_type="similarity",
-    search_kwargs={'k': 4}
-)
    -
    -
    -
    1
    -
    -The ideal search type is context dependent, and you should experiment to find the best one for your data. -
    -
    -
    -
    -

    The vector database and retriever are now set up, next we need to set up the next piece of the chain - the model.

    -
    -
    -

    Load quantized model

    -

    For this example, we chose HuggingFaceH4/zephyr-7b-beta, a small but powerful model. To make inference faster, we will load the quantized version of the model:

    -
    -
    -
    - -
    -
    -Tip -
    -
    -
    -

    With many models being released every week, you may want to substitute this model to the latest and greatest. The best way to keep track of open source LLMs is to check the Open-source LLM leaderboard.

    -
    -
    -
    -
    import torch
-from transformers import AutoTokenizer, AutoModelForCausalLM, BitsAndBytesConfig
-
-model_name = 'HuggingFaceH4/zephyr-7b-beta'
-
-bnb_config = BitsAndBytesConfig(
-    load_in_4bit=True,
-    bnb_4bit_use_double_quant=True,
-    bnb_4bit_quant_type="nf4",
-    bnb_4bit_compute_dtype=torch.bfloat16
-)
-
-model = AutoModelForCausalLM.from_pretrained(model_name, quantization_config=bnb_config)
-tokenizer = AutoTokenizer.from_pretrained(model_name)
    -
    -
    -
    -

    Setup the LLM chain

    -

    Finally, we have all the pieces we need to set up the LLM chain.

    -

    First, create a text_generation pipeline using the loaded model and its tokenizer.

    -

    Next, create a prompt template - this should follow the format of the model, so if you substitute the model checkpoint, make sure to use the appropriate formatting.

    -
    -
    from langchain.llms import HuggingFacePipeline
-from langchain.prompts import PromptTemplate
-from transformers import pipeline
-from langchain_core.output_parsers import StrOutputParser
-
-text_generation_pipeline = pipeline(
-    model=model,
-    tokenizer=tokenizer,
-    task="text-generation",
-    temperature=0.2,
-    do_sample=True,
-    repetition_penalty=1.1,
-    return_full_text=True,
-    max_new_tokens=400,
-)
-
-llm = HuggingFacePipeline(pipeline=text_generation_pipeline)
-
-prompt_template = """
-<|system|>
-Answer the question based on your knowledge. Use the following context to help:
-
-{context}
-
-</s>
-<|user|>
-{question}
-</s>
-<|assistant|>
-
- """
-
-prompt = PromptTemplate(
-    input_variables=["context", "question"],
-    template=prompt_template,
-)
-
-llm_chain = prompt | llm | StrOutputParser()
    -
    -
    -
    1
    -
    -The pre-trained model for text generation. -
    -
    2
    -
    -Tokenizer to preprocess input text and postprocess generated output. -
    -
    3
    -
    -Specifies the task as text generation. -
    -
    4
    -
    -Controls the randomness in the output generation. Lower values make the output more deterministic. -
    -
    5
    -
    -Enables sampling to introduce randomness in the output generation. -
    -
    6
    -
    -Penalizes repetition in the output to encourage diversity. -
    -
    7
    -
    -Returns the full generated text including the input prompt. -
    -
    8
    -
    -Limits the maximum number of new tokens generated. -
    -
    -
    -
    -

    Note: You can also use tokenizer.apply_chat_template to convert a list of messages (as dicts: {'role': 'user', 'content': '(...)'}) into a string with the appropriate chat format.

    -

    Finally, we need to combine the llm_chain with the retriever to create a RAG chain. We pass the original question through to the final generation step, as well as the retrieved context docs:

    -
    -
    from langchain_core.runnables import RunnablePassthrough
-
-retriever = db.as_retriever()
-
-rag_chain = (
- {"context": retriever, "question": RunnablePassthrough()}
-    | llm_chain
-)
    -
    -
    -
    -

    Compare the results

    -

    Let’s see the difference RAG makes in generating answers to the library-specific questions.

    -
    -
    question = "How do you combine multiple adapters?"
    -
    -

    First, let’s see what kind of answer we can get with just the model itself, no context added:

    -
    -
    llm_chain.invoke({"context":"", "question": question})
    -
    -

    As you can see, the model interpreted the question as one about physical computer adapters, while in the context of PEFT, “adapters” refer to LoRA adapters. Let’s see if adding context from GitHub issues helps the model give a more relevant answer:

    -
    -
    rag_chain.invoke(question)
    -
    -

    As we can see, the added context, really helps the exact same model, provide a much more relevant and informed answer to the library-specific question.

    -

    Notably, combining multiple adapters for inference has been added to the library, and one can find this information in the documentation, so for the next iteration of this RAG it may be worth including documentation embeddings.

    - - -
    - -
    - -
    - - - - - \ No newline at end of file diff --git a/src/Spatial_benchmark_heatmap_ojs/src/notebooks/single_gpu.html b/src/Spatial_benchmark_heatmap_ojs/src/notebooks/single_gpu.html deleted file mode 100644 index 7e1a407..0000000 --- a/src/Spatial_benchmark_heatmap_ojs/src/notebooks/single_gpu.html +++ /dev/null @@ -1,1302 +0,0 @@ - - - - - - - - - -Single GPU Fine-tuning – SpatialSimBench - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
    -
    - -
    - -
    - - - - -
    - -
    -
    -

    Single GPU Fine-tuning

    -
    - - - -
    - - - - -
    - - - -
    - - -
    -

    Fine-tuning a Code LLM on Custom Code on a single GPU

    -

    Authored by: Maria Khalusova

    -

    Publicly available code LLMs such as Codex, StarCoder, and Code Llama are great at generating code that adheres to general programming principles and syntax, but they may not align with an organization’s internal conventions, or be aware of proprietary libraries.

    -

    In this notebook, we’ll see show how you can fine-tune a code LLM on private code bases to enhance its contextual awareness and improve a model’s usefulness to your organization’s needs. Since the code LLMs are quite large, fine-tuning them in a traditional manner can be resource-draining. Worry not! We will show how you can optimize fine-tuning to fit on a single GPU.

    -
    -

    Dataset

    -

    For this example, we picked the top 10 Hugging Face public repositories on GitHub. We have excluded non-code files from the data, such as images, audio files, presentations, and so on. For Jupyter notebooks, we’ve kept only cells containing code. The resulting code is stored as a dataset that you can find on the Hugging Face Hub under smangrul/hf-stack-v1. It contains repo id, file path, and file content.

    -
    -
    -

    Model

    -

    We’ll finetune bigcode/starcoderbase-1b, which is a 1B parameter model trained on 80+ programming languages. This is a gated model, so if you plan to run this notebook with this exact model, you’ll need to gain access to it on the model’s page. Log in to your Hugging Face account to do so:

    -
    -
    from huggingface_hub import notebook_login
-
-notebook_login()
    -
    -

    To get started, let’s install all the necessary libraries. As you can see, in addition to transformers and datasets, we’ll be using peft, bitsandbytes, and flash-attn to optimize the training.

    -

    By employing parameter-efficient training techniques, we can run this notebook on a single A100 High-RAM GPU.

    -
    -
    !pip install -q transformers datasets peft bitsandbytes flash-attn
    -
    -

    Let’s define some variables now. Feel free to play with these.

    -
    -
    MODEL="bigcode/starcoderbase-1b" # Model checkpoint on the Hugging Face Hub
-DATASET="smangrul/hf-stack-v1"   # Dataset on the Hugging Face Hub
-DATA_COLUMN="content"            # Column name containing the code content
-
-SEQ_LENGTH=2048                  # Sequence length
-
-# Training arguments
-MAX_STEPS=2000                   # max_steps
-BATCH_SIZE=16                    # batch_size
-GR_ACC_STEPS=1                   # gradient_accumulation_steps
-LR=5e-4                          # learning_rate
-LR_SCHEDULER_TYPE="cosine"       # lr_scheduler_type
-WEIGHT_DECAY=0.01                # weight_decay
-NUM_WARMUP_STEPS=30              # num_warmup_steps
-EVAL_FREQ=100                    # eval_freq
-SAVE_FREQ=100                    # save_freq
-LOG_FREQ=25                      # log_freq
-OUTPUT_DIR="peft-starcoder-lora-a100" # output_dir
-BF16=True                        # bf16
-FP16=False                       # no_fp16
-
-# FIM trasformations arguments
-FIM_RATE=0.5                     # fim_rate
-FIM_SPM_RATE=0.5                 # fim_spm_rate
-
-# LORA
-LORA_R=8                         # lora_r
-LORA_ALPHA=32                    # lora_alpha
-LORA_DROPOUT=0.0                 # lora_dropout
-LORA_TARGET_MODULES="c_proj,c_attn,q_attn,c_fc,c_proj"    # lora_target_modules
-
-# bitsandbytes config
-USE_NESTED_QUANT=True            # use_nested_quant
-BNB_4BIT_COMPUTE_DTYPE="bfloat16"# bnb_4bit_compute_dtype
-
-SEED=0
    -
    -
    -
    from transformers import (
-    AutoModelForCausalLM,
-    AutoTokenizer,
-    Trainer,
-    TrainingArguments,
-    logging,
-    set_seed,
-    BitsAndBytesConfig,
-)
-
-set_seed(SEED)
    -
    -
    -
    -

    Prepare the data

    -

    Begin by loading the data. As the dataset is likely to be quite large, make sure to enable the streaming mode. Streaming allows us to load the data progressively as we iterate over the dataset instead of downloading the whole dataset at once.

    -

    We’ll reserve the first 4000 examples as the validation set, and everything else will be the training data.

    -
    -
    from datasets import load_dataset
-import torch
-from tqdm import tqdm
-
-
-dataset = load_dataset(
-    DATASET,
-    data_dir="data",
-    split="train",
-    streaming=True,
-)
-
-valid_data = dataset.take(4000)
-train_data = dataset.skip(4000)
-train_data = train_data.shuffle(buffer_size=5000, seed=SEED)
    -
    -

    At this step, the dataset still contains raw data with code of arbitraty length. For training, we need inputs of fixed length. Let’s create an Iterable dataset that would return constant-length chunks of tokens from a stream of text files.

    -

    First, let’s estimate the average number of characters per token in the dataset, which will help us later estimate the number of tokens in the text buffer later. By default, we’ll only take 400 examples (nb_examples) from the dataset. Using only a subset of the entire dataset will reduce computational cost while still providing a reasonable estimate of the overall character-to-token ratio.

    -
    -
    tokenizer = AutoTokenizer.from_pretrained(MODEL, trust_remote_code=True)
-
-def chars_token_ratio(dataset, tokenizer, data_column, nb_examples=400):
-    """
-    Estimate the average number of characters per token in the dataset.
-    """
-
-    total_characters, total_tokens = 0, 0
-    for _, example in tqdm(zip(range(nb_examples), iter(dataset)), total=nb_examples):
-        total_characters += len(example[data_column])
-        total_tokens += len(tokenizer(example[data_column]).tokens())
-
-    return total_characters / total_tokens
-
-
-chars_per_token = chars_token_ratio(train_data, tokenizer, DATA_COLUMN)
-print(f"The character to token ratio of the dataset is: {chars_per_token:.2f}")
    -
    -
    100%|██████████| 400/400 [00:10<00:00, 39.87it/s]
    -
    -
    -
    The character to token ratio of the dataset is: 2.43
    -
    -
    -
    -
    -
    -

    The character-to-token ratio can also be used as an indicator of the quality of text tokenization. For instance, a character-to-token ratio of 1.0 would mean that each character is represented with a token, which is not very meaningful. This would indicate poor tokenization. In standard English text, one token is typically equivalent to approximately four characters, meaning the character-to-token ratio is around 4.0. We can expect a lower ratio in the code dataset, but generally speaking, a number between 2.0 and 3.5 can be considered good enough.

    -

    Optional FIM transformations

    -

    Autoregressive language models typically generate sequences from left to right. By applying the FIM transformations, the model can also learn to infill text. Check out “Efficient Training of Language Models to Fill in the Middle” paper to learn more about the technique. We’ll define the FIM transformations here and will use them when creating the Iterable Dataset. However, if you want to omit transformations, feel free to set fim_rate to 0.

    -
    -
    import functools
-import numpy as np
-
-
-# Helper function to get token ids of the special tokens for prefix, suffix and middle for FIM transformations.
-@functools.lru_cache(maxsize=None)
-def get_fim_token_ids(tokenizer):
-    try:
-        FIM_PREFIX, FIM_MIDDLE, FIM_SUFFIX, FIM_PAD = tokenizer.special_tokens_map["additional_special_tokens"][1:5]
-        suffix_tok_id, prefix_tok_id, middle_tok_id, pad_tok_id = (
-            tokenizer.vocab[tok] for tok in [FIM_SUFFIX, FIM_PREFIX, FIM_MIDDLE, FIM_PAD]
-        )
-    except KeyError:
-        suffix_tok_id, prefix_tok_id, middle_tok_id, pad_tok_id = None, None, None, None
-    return suffix_tok_id, prefix_tok_id, middle_tok_id, pad_tok_id
-
-
-## Adapted from https://github.com/bigcode-project/Megatron-LM/blob/6c4bf908df8fd86b4977f54bf5b8bd4b521003d1/megatron/data/gpt_dataset.py
-def permute(
-    sample,
-    np_rng,
-    suffix_tok_id,
-    prefix_tok_id,
-    middle_tok_id,
-    pad_tok_id,
-    fim_rate=0.5,
-    fim_spm_rate=0.5,
-    truncate_or_pad=False,
-):
-    """
-    Take in a sample (list of tokens) and perform a FIM transformation on it with a probability of fim_rate, using two FIM modes:
-    PSM and SPM (with a probability of fim_spm_rate).
-    """
-
-    # The if condition will trigger with the probability of fim_rate
-    # This means FIM transformations will apply to samples with a probability of fim_rate
-    if np_rng.binomial(1, fim_rate):
-
-        # Split the sample into prefix, middle, and suffix, based on randomly generated indices stored in the boundaries list.
-        boundaries = list(np_rng.randint(low=0, high=len(sample) + 1, size=2))
-        boundaries.sort()
-
-        prefix = np.array(sample[: boundaries[0]], dtype=np.int64)
-        middle = np.array(sample[boundaries[0] : boundaries[1]], dtype=np.int64)
-        suffix = np.array(sample[boundaries[1] :], dtype=np.int64)
-
-        if truncate_or_pad:
-            # calculate the new total length of the sample, taking into account tokens indicating prefix, middle, and suffix
-            new_length = suffix.shape[0] + prefix.shape[0] + middle.shape[0] + 3
-            diff = new_length - len(sample)
-
-            # trancate or pad if there's a difference in length between the new length and the original
-            if diff > 0:
-                if suffix.shape[0] <= diff:
-                    return sample, np_rng
-                suffix = suffix[: suffix.shape[0] - diff]
-            elif diff < 0:
-                suffix = np.concatenate([suffix, np.full((-1 * diff), pad_tok_id)])
-
-        # With the probability of fim_spm_rateapply SPM variant of FIM transformations
-        # SPM: suffix, prefix, middle
-        if np_rng.binomial(1, fim_spm_rate):
-            new_sample = np.concatenate(
-                [
-                    [prefix_tok_id, suffix_tok_id],
-                    suffix,
-                    [middle_tok_id],
-                    prefix,
-                    middle,
-                ]
-            )
-        # Otherwise, apply the PSM variant of FIM transformations
-        # PSM: prefix, suffix, middle
-        else:
-
-            new_sample = np.concatenate(
-                [
-                    [prefix_tok_id],
-                    prefix,
-                    [suffix_tok_id],
-                    suffix,
-                    [middle_tok_id],
-                    middle,
-                ]
-            )
-    else:
-        # don't apply FIM transformations
-        new_sample = sample
-
-    return list(new_sample), np_rng
    -
    -

    Let’s define the ConstantLengthDataset, an Iterable dataset that will return constant-length chunks of tokens. To do so, we’ll read a buffer of text from the original dataset until we hit the size limits and then apply tokenizer to convert the raw text into tokenized inputs. Optionally, we’ll perform FIM transformations on some sequences (the proportion of sequences affected is controlled by fim_rate).

    -

    Once defined, we can create instances of the ConstantLengthDataset from both training and validation data.

    -
    -
    from torch.utils.data import IterableDataset
-from torch.utils.data.dataloader import DataLoader
-import random
-
-# Create an Iterable dataset that returns constant-length chunks of tokens from a stream of text files.
-
-class ConstantLengthDataset(IterableDataset):
-    """
-    Iterable dataset that returns constant length chunks of tokens from stream of text files.
-        Args:
-            tokenizer (Tokenizer): The processor used for proccessing the data.
-            dataset (dataset.Dataset): Dataset with text files.
-            infinite (bool): If True the iterator is reset after dataset reaches end else stops.
-            seq_length (int): Length of token sequences to return.
-            num_of_sequences (int): Number of token sequences to keep in buffer.
-            chars_per_token (int): Number of characters per token used to estimate number of tokens in text buffer.
-            fim_rate (float): Rate (0.0 to 1.0) that sample will be permuted with FIM.
-            fim_spm_rate (float): Rate (0.0 to 1.0) of FIM permuations that will use SPM.
-            seed (int): Seed for random number generator.
-    """
-
-    def __init__(
-        self,
-        tokenizer,
-        dataset,
-        infinite=False,
-        seq_length=1024,
-        num_of_sequences=1024,
-        chars_per_token=3.6,
-        content_field="content",
-        fim_rate=0.5,
-        fim_spm_rate=0.5,
-        seed=0,
-    ):
-        self.tokenizer = tokenizer
-        self.concat_token_id = tokenizer.eos_token_id
-        self.dataset = dataset
-        self.seq_length = seq_length
-        self.infinite = infinite
-        self.current_size = 0
-        self.max_buffer_size = seq_length * chars_per_token * num_of_sequences
-        self.content_field = content_field
-        self.fim_rate = fim_rate
-        self.fim_spm_rate = fim_spm_rate
-        self.seed = seed
-
-        (
-            self.suffix_tok_id,
-            self.prefix_tok_id,
-            self.middle_tok_id,
-            self.pad_tok_id,
-        ) = get_fim_token_ids(self.tokenizer)
-        if not self.suffix_tok_id and self.fim_rate > 0:
-            print("FIM is not supported by tokenizer, disabling FIM")
-            self.fim_rate = 0
-
-    def __iter__(self):
-        iterator = iter(self.dataset)
-        more_examples = True
-        np_rng = np.random.RandomState(seed=self.seed)
-        while more_examples:
-            buffer, buffer_len = [], 0
-            while True:
-                if buffer_len >= self.max_buffer_size:
-                    break
-                try:
-                    buffer.append(next(iterator)[self.content_field])
-                    buffer_len += len(buffer[-1])
-                except StopIteration:
-                    if self.infinite:
-                        iterator = iter(self.dataset)
-                    else:
-                        more_examples = False
-                        break
-            tokenized_inputs = self.tokenizer(buffer, truncation=False)["input_ids"]
-            all_token_ids = []
-
-            for tokenized_input in tokenized_inputs:
-                # optionally do FIM permutations
-                if self.fim_rate > 0:
-                    tokenized_input, np_rng = permute(
-                        tokenized_input,
-                        np_rng,
-                        self.suffix_tok_id,
-                        self.prefix_tok_id,
-                        self.middle_tok_id,
-                        self.pad_tok_id,
-                        fim_rate=self.fim_rate,
-                        fim_spm_rate=self.fim_spm_rate,
-                        truncate_or_pad=False,
-                    )
-
-                all_token_ids.extend(tokenized_input + [self.concat_token_id])
-            examples = []
-            for i in range(0, len(all_token_ids), self.seq_length):
-                input_ids = all_token_ids[i : i + self.seq_length]
-                if len(input_ids) == self.seq_length:
-                    examples.append(input_ids)
-            random.shuffle(examples)
-            for example in examples:
-                self.current_size += 1
-                yield {
-                    "input_ids": torch.LongTensor(example),
-                    "labels": torch.LongTensor(example),
-                }
-
-
-train_dataset = ConstantLengthDataset(
-        tokenizer,
-        train_data,
-        infinite=True,
-        seq_length=SEQ_LENGTH,
-        chars_per_token=chars_per_token,
-        content_field=DATA_COLUMN,
-        fim_rate=FIM_RATE,
-        fim_spm_rate=FIM_SPM_RATE,
-        seed=SEED,
-)
-eval_dataset = ConstantLengthDataset(
-        tokenizer,
-        valid_data,
-        infinite=False,
-        seq_length=SEQ_LENGTH,
-        chars_per_token=chars_per_token,
-        content_field=DATA_COLUMN,
-        fim_rate=FIM_RATE,
-        fim_spm_rate=FIM_SPM_RATE,
-        seed=SEED,
-)
    -
    -
    -
    -

    Prepare the model

    -

    Now that the data is prepared, it’s time to load the model! We’re going to load the quantized version of the model.

    -

    This will allow us to reduce memory usage, as quantization represents data with fewer bits. We’ll use the bitsandbytes library to quantize the model, as it has a nice integration with transformers. All we need to do is define a bitsandbytes config, and then use it when loading the model.

    -

    There are different variants of 4bit quantization, but generally, we recommend using NF4 quantization for better performance (bnb_4bit_quant_type="nf4").

    -

    The bnb_4bit_use_double_quant option adds a second quantization after the first one to save an additional 0.4 bits per parameter.

    -

    To learn more about quantization, check out the “Making LLMs even more accessible with bitsandbytes, 4-bit quantization and QLoRA” blog post.

    -

    Once defined, pass the config to the from_pretrained method to load the quantized version of the model.

    -
    -
    from peft import LoraConfig, get_peft_model, prepare_model_for_kbit_training
-from peft.tuners.lora import LoraLayer
-
-load_in_8bit = False
-
-# 4-bit quantization
-compute_dtype = getattr(torch, BNB_4BIT_COMPUTE_DTYPE)
-
-bnb_config = BitsAndBytesConfig(
-    load_in_4bit=True,
-    bnb_4bit_quant_type="nf4",
-    bnb_4bit_compute_dtype=compute_dtype,
-    bnb_4bit_use_double_quant=USE_NESTED_QUANT,
-)
-
-device_map = {"": 0}
-
-model = AutoModelForCausalLM.from_pretrained(
-        MODEL,
-        load_in_8bit=load_in_8bit,
-        quantization_config=bnb_config,
-        device_map=device_map,
-        use_cache=False,  # We will be using gradient checkpointing
-        trust_remote_code=True,
-        use_flash_attention_2=True,
-)
    -
    -

    When using a quantized model for training, you need to call the prepare_model_for_kbit_training() function to preprocess the quantized model for training.

    -
    -
    model = prepare_model_for_kbit_training(model)
    -
    -

    Now that the quantized model is ready, we can set up a LoRA configuration. LoRA makes fine-tuning more efficient by drastically reducing the number of trainable parameters.

    -

    To train a model using LoRA technique, we need to wrap the base model as a PeftModel. This involves definign LoRA configuration with LoraConfig, and wrapping the original model with get_peft_model() using the LoraConfig.

    -

    To learn more about LoRA and its parameters, refer to PEFT documentation.

    -
    -
    # Set up lora
-peft_config = LoraConfig(
-    lora_alpha=LORA_ALPHA,
-    lora_dropout=LORA_DROPOUT,
-    r=LORA_R,
-    bias="none",
-    task_type="CAUSAL_LM",
-    target_modules=LORA_TARGET_MODULES.split(","),
-)
-
-model = get_peft_model(model, peft_config)
-model.print_trainable_parameters()
    -
    -
    trainable params: 5,554,176 || all params: 1,142,761,472 || trainable%: 0.4860310866343243
    -
    -
    -

    As you can see, by applying LoRA technique we will now need to train less than 1% of the parameters.

    -
    -
    -

    Train the model

    -

    Now that we have prepared the data, and optimized the model, we are ready to bring everything together to start the training.

    -

    To instantiate a Trainer, you need to define the training configuration. The most important is the TrainingArguments, which is a class that contains all the attributes to configure the training.

    -

    These are similar to any other kind of model training you may run, so we won’t go into detail here.

    -
    -
    train_data.start_iteration = 0
-
-
-training_args = TrainingArguments(
-    output_dir=f"Your_HF_username/{OUTPUT_DIR}",
-    dataloader_drop_last=True,
-    evaluation_strategy="steps",
-    save_strategy="steps",
-    max_steps=MAX_STEPS,
-    eval_steps=EVAL_FREQ,
-    save_steps=SAVE_FREQ,
-    logging_steps=LOG_FREQ,
-    per_device_train_batch_size=BATCH_SIZE,
-    per_device_eval_batch_size=BATCH_SIZE,
-    learning_rate=LR,
-    lr_scheduler_type=LR_SCHEDULER_TYPE,
-    warmup_steps=NUM_WARMUP_STEPS,
-    gradient_accumulation_steps=GR_ACC_STEPS,
-    gradient_checkpointing=True,
-    fp16=FP16,
-    bf16=BF16,
-    weight_decay=WEIGHT_DECAY,
-    push_to_hub=True,
-    include_tokens_per_second=True,
-)
    -
    -

    As a final step, instantiate the Trainer and call the train method.

    -
    -
    trainer = Trainer(
-    model=model, args=training_args, train_dataset=train_dataset, eval_dataset=eval_dataset
-)
-
-print("Training...")
-trainer.train()
    -
    -
    Training...
    -
    -
    - -
    - - - [2000/2000 4:16:10, Epoch 1/9223372036854775807] -
    - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
    StepTraining LossValidation Loss
    1005.5246007.456872
    2005.6178007.262190
    3005.1291006.410039
    4005.0522006.306774
    5005.2029006.117062
    6004.6541006.018349
    7005.1002006.000355
    8005.0498005.889457
    9004.5412005.813823
    10005.0007005.834208
    11005.0265005.781939
    12004.4118005.720596
    13004.7825005.736376
    14004.9802005.712276
    15004.3687005.689637
    16004.8847005.675920
    17004.9144005.662421
    18004.2487005.660122
    19004.7984005.664026
    20004.7042005.655665
    -

    -

    -
    -
    TrainOutput(global_step=2000, training_loss=4.885598585128784, metrics={'train_runtime': 15380.3075, 'train_samples_per_second': 2.081, 'train_steps_per_second': 0.13, 'train_tokens_per_second': 4261.033, 'total_flos': 4.0317260660736e+17, 'train_loss': 4.885598585128784, 'epoch': 1.0})
    -
    -
    -

    Finally, you can push the fine-tuned model to your Hub repository to share with your team.

    -
    -
    trainer.push_to_hub()
    -
    -
    -
    -

    Inference

    -

    Once the model is uploaded to Hub, we can use it for inference. To do so we first initialize the original base model and its tokenizer. Next, we need to merge the fine-duned weights with the base model.

    -
    -
    from peft import PeftModel
-import torch
-
-# load the original model first
-tokenizer = AutoTokenizer.from_pretrained(MODEL, trust_remote_code=True)
-base_model = AutoModelForCausalLM.from_pretrained(
-    MODEL,
-    quantization_config=None,
-    device_map=None,
-    trust_remote_code=True,
-    torch_dtype=torch.bfloat16,
-).cuda()
-
-# merge fine-tuned weights with the base model
-peft_model_id = f"Your_HF_username/{OUTPUT_DIR}"
-model = PeftModel.from_pretrained(base_model, peft_model_id)
-model.merge_and_unload()
    -
    -

    Now we can use the merged model for inference. For convenience, we’ll define a get_code_completion - feel free to experiment with text generation parameters!

    -
    -
    def get_code_completion(prefix, suffix):
-    text = prompt = f"""<fim_prefix>{prefix}<fim_suffix>{suffix}<fim_middle>"""
-    model.eval()
-    outputs = model.generate(
-        input_ids=tokenizer(text, return_tensors="pt").input_ids.cuda(),
-        max_new_tokens=128,
-        temperature=0.2,
-        top_k=50,
-        top_p=0.95,
-        do_sample=True,
-        repetition_penalty=1.0,
-    )
-    return tokenizer.batch_decode(outputs, skip_special_tokens=True)[0]
    -
    -

    Now all we need to do to get code completion is call the get_code_complete function and pass the first few lines that we want to be completed as a prefix, and an empty string as a suffix.

    -
    -
    prefix = """from peft import LoraConfig, TaskType, get_peft_model
-from transformers import AutoModelForCausalLM
-peft_config = LoraConfig(
-"""
-suffix =""""""
-
-print(get_code_completion(prefix, suffix))
    -
    -
    from peft import LoraConfig, TaskType, get_peft_model
-from transformers import AutoModelForCausalLM
-peft_config = LoraConfig(
-    task_type=TaskType.CAUSAL_LM,
-    r=8,
-    lora_alpha=32,
-    target_modules=["q_proj", "v_proj"],
-    lora_dropout=0.1,
-    bias="none",
-    modules_to_save=["q_proj", "v_proj"],
-    inference_mode=False,
-)
-model = AutoModelForCausalLM.from_pretrained("gpt2")
-model = get_peft_model(model, peft_config)
-model.print_trainable_parameters()
    -
    -
    -

    As someone who has just used the PEFT library earlier in this notebook, you can see that the generated result for creating a LoraConfig is rather good!

    -

    If you go back to the cell where we instantiate the model for inference, and comment out the lines where we merge the fine-tuned weights, you can see what the original model would’ve generated for the exact same prefix:

    -
    -
    prefix = """from peft import LoraConfig, TaskType, get_peft_model
-from transformers import AutoModelForCausalLM
-peft_config = LoraConfig(
-"""
-suffix =""""""
-
-print(get_code_completion(prefix, suffix))
    -
    -
    from peft import LoraConfig, TaskType, get_peft_model
-from transformers import AutoModelForCausalLM
-peft_config = LoraConfig(
-    model_name_or_path="facebook/wav2vec2-base-960h",
-    num_labels=1,
-    num_features=1,
-    num_hidden_layers=1,
-    num_attention_heads=1,
-    num_hidden_layers_per_attention_head=1,
-    num_attention_heads_per_hidden_layer=1,
-    hidden_size=1024,
-    hidden_dropout_prob=0.1,
-    hidden_act="gelu",
-    hidden_act_dropout_prob=0.1,
-    hidden
    -
    -
    -

    While it is Python syntax, you can see that the original model has no understanding of what a LoraConfig should be doing.

    -

    To learn how this kind of fine-tuning compares to full fine-tuning, and how to use a model like this as your copilot in VS Code via Inference Endpoints, or locally, check out the “Personal Copilot: Train Your Own Coding Assistant” blog post. This notebook complements the original blog post.

    - - -
    -
    - -
    - -
    - - - - - \ No newline at end of file diff --git a/src/index.html b/src/index.html deleted file mode 100644 index 0762c3e..0000000 --- a/src/index.html +++ /dev/null @@ -1,568 +0,0 @@ - - - - - - - - - -About – SpatialSimBench - - - - - - - - - - - - - - - - - - - - - - - - - - - -
    -
    - -
    - -
    - - - - -
    - -
    -
    -

    About

    -
    - - - -
    - - - - -
    - - - -
    - - -
    -

    Multi-task benchmarking of spatially resolved gene expression simulation models

    -

    Abstract

    -

    Computational methods for spatially resolved transcriptomics (SRT) are frequently developed and assessed through data simulation. The effectiveness of these evaluations relies on the simulation methods’ ability to accurately reflect experimental data. However, a systematic evaluation framework for spatial simulators is lacking. Here, we present SpatialSimBench, a comprehensive evaluation framework that assesses 13 simulation methods using 10 distinct STR datasets. We introduce simAdaptor, a tool that extends single-cell simulators to incorporate spatial variables, thus enabling them to simulate spatial data. SimAdaptor enables SpatialSimBench to be “back-wards” compatible. That is, it facilitates direct comparison between spatially aware simulators and existing non-spatial single-cell simulators through the adaption. Through SpatialSimBench, we demonstrate the feasibility of leveraging existing single-cell simulators for SRT data and highlight performance differences among methods. Additionally, we evaluate the simulation methods based on a total of 35 metrics across data property estimation, various downstream analysis and scalability. In total, we generated 4550 results from 13 simulation methods, 10 spatial datasets and 35 metrics. Our findings reveal that model estimation can be impacted by distribution assumptions and dataset characteristics. In summary, our evaluation and the evaluation framework will provide guidelines for selecting appropriate methods for specific scenarios and informing future method development.

    -

    Research paper link

    - - -
    - -
    - -
    - - - - - \ No newline at end of file diff --git a/src/results/data/column_groups.JSON b/src/results/data/column_groups.JSON deleted file mode 100644 index f378612..0000000 --- a/src/results/data/column_groups.JSON +++ /dev/null @@ -1 +0,0 @@ -[{"Experiment":"Method","Category":"","group":"method","palette":"overall"},{"Experiment":"Summary","Category":"Rank-based overall","group":"summary","palette":"overall"},{"Experiment":"Data proporties","Category":"Spot-level","group":"data_pro_spot","palette":"palette1"},{"Experiment":"Data proporties","Category":"Gene-level","group":"data_pro_gene","palette":"palette1"},{"Experiment":"Data proporties","Category":"Spatial-level","group":"data_pro_spatial","palette":"palette1"},{"Experiment":"Spatial task","Category":"Cluster","group":"spatial_task_clustering","palette":"palette2"},{"Experiment":"Spatial task","Category":"SVG","group":"spatial_task_svg","palette":"palette2"},{"Experiment":"Spatial task","Category":"Deconvolute","group":"spatial_task_den","palette":"palette2"},{"Experiment":"Spatial task","Category":"Crosscorrelate","group":"spatial_task_cor","palette":"palette2"},{"Experiment":"Scalability","Category":"Predicted time","group":"scalability_time","palette":"palette3"},{"Experiment":"Scalability","Category":"Predicted memory","group":"scalability_memory","palette":"palette3"}] diff --git a/src/results/data/column_groups.csv b/src/results/data/column_groups.csv deleted file mode 100644 index 50f109e..0000000 --- a/src/results/data/column_groups.csv +++ /dev/null @@ -1,12 +0,0 @@ -Experiment,Category,group,palette -Method,-,method,overall -Summary,Rank-based overall,summary,overall -Data proporties,Spot-level,data_pro_spot,palette1 -Data proporties,Gene-level,data_pro_gene,palette1 -Data proporties,Spatial-level,data_pro_spatial,palette1 -Spatial task,Cluster,spatial_task_clustering,palette2 -Spatial task,SVG,spatial_task_svg,palette2 -Spatial task,Deconvolute,spatial_task_den,palette2 -Spatial task,Crosscorrelate,spatial_task_cor,palette2 -Scalability,Predicted time,scalability_time,palette3 -Scalability,Predicted memory,scalability_memory,palette3 diff --git a/src/results/data/column_info.csv b/src/results/data/column_info.csv deleted file mode 100644 index 065f0bd..0000000 --- a/src/results/data/column_info.csv +++ /dev/null @@ -1,48 +0,0 @@ -id,group,name,geom,palette,options -method,method,NA,text,NA, -adaptor,method,Adaptor,text,NA, -overall_summary,summary,Overall,bar,overall, -data_pro_summary,summary,data proporties,bar,palette1, -spatial_task_summary,summary,Spatial Task,bar,palette2, -scalability_summary,summary,Scalability,bar,palette3, -spfracZero,data_pro_spot,fracZero,funkyrect,palette1, -spLibSize,data_pro_spot,LibSize,funkyrect,palette1, -spEffLibSize,data_pro_spot,EffLibSize,funkyrect,palette1, -spTMM,data_pro_spot,TMM,funkyrect,palette1, -spScaledVar,data_pro_spot,ScaledVar,funkyrect,palette1, -spScaledMean,data_pro_spot,ScaledMean,funkyrect,palette1, -splibsizeFracezero,data_pro_spot,libFraczero(higher-order),funkyrect,palette1, -spCorPearson,data_pro_spot,Pearson(higher-order),funkyrect,palette1, -ftFracZero,data_pro_gene,fracZero,funkyrect,palette1, -ftScaledVar,data_pro_gene,ScaledVar,funkyrect,palette1, -ftScaledMean,data_pro_gene,ScaledMean,funkyrect,palette1, -ftPearson,data_pro_gene,Pearson(higher-order),funkyrect,palette1, -ftScaleMeanVal,data_pro_gene,MeanVal(higher-order),funkyrect,palette1, -ftMeanFraczero,data_pro_gene,MeanFracZero(higher-order),funkyrect,palette1, -TM,data_pro_spatial,TM,funkyrect,palette1, -NWE,data_pro_spatial,NWE,funkyrect,palette1, -CSM,data_pro_spatial,CSM,funkyrect,palette1, -celltype_interaction,data_pro_spatial,celltype_interaction,funkyrect,palette1, -L_stats,data_pro_spatial,L stats,funkyrect,palette1, -nn_correlation,data_pro_spatial,nn_correlation,funkyrect,palette1, -morans_I,data_pro_spatial,Moran's I,funkyrect,palette1, -ARI,spatial_task_clustering,ARI,funkyrect,palette2, -NMI,spatial_task_clustering,NMI,funkyrect,palette2, -recall_svg,spatial_task_svg,recall,funkyrect,palette2, -precision_svg,spatial_task_svg,precision,funkyrect,palette2, -rmse_ctprob,spatial_task_den,RMSE,funkyrect,palette2, -jsd_ctprob,spatial_task_den,JSD,funkyrect,palette2, -mantel_cor,spatial_task_cor,Mantel stat,funkyrect,palette2, -cosine_cor,spatial_task_cor,cosine similarity,funkyrect,palette2, -pred_time_cells200_features200,scalability_time,200 x 200,rect,palette3, -pred_time_cells200_features200,scalability_time,NA,text,white6black4, -pred_time_cells3000_features500,scalability_time,3k x 500,rect,palette3, -pred_time_cells3000_features500,scalability_time,NA,text,white6black4, -pred_time_cells5000_features1000,scalability_time,5k x 1k,rect,palette3, -pred_time_cells5000_features1000,scalability_time,NA,text,white6black4, -pred_memory_cells200_features200,scalability_memory,200 x 200,rect,palette3, -pred_memory_cells200_features200,scalability_memory,NA,text,white6black4, -pred_memory_cells3000_features500,scalability_memory,3k x 500,rect,palette3, -pred_memory_cells3000_features500,scalability_memory,NA,text,white6black4, -pred_memory_cells5000_features1000,scalability_memory,5k x 1k,rect,palette3, -pred_memory_cells5000_features1000,scalability_memory,NA,text,white6black4, diff --git a/src/results/data/final_data2.csv b/src/results/data/final_data2.csv deleted file mode 100644 index dd61750..0000000 --- a/src/results/data/final_data2.csv +++ /dev/null @@ -1,14 +0,0 @@ -method,adaptor,overall_summary,data_pro_summary,spatial_task_summary,scalability_summary,spfracZero,spLibSize,spEffLibSize,spTMM,spScaledVar,spScaledMean,splibsizeFracezero,spCorPearson,ftFracZero,ftScaledVar,ftScaledMean,ftPearson,ftScaleMeanVal,ftMeanFraczero,TM,NWE,CSM,celltype_interaction,L_stats,nn_correlation,morans_I,ARI,NMI,recall_svg,precision_svg,rmse_ctprob,jsd_ctprob,mantel_cor,cosine_cor,pred_time_cells200_features200,pred_time_cells3000_features500,pred_time_cells5000_features1000,pred_memory_cells200_features200,pred_memory_cells3000_features500,pred_memory_cells5000_features1000,predstring_time_cells200_features200,predstring_time_cells3000_features500,predstring_time_cells5000_features1000,predstring_memory_cells200_features200,predstring_memory_cells3000_features500,predstring_memory_cells5000_features1000 -SRTsim_rf,Yes,12.50,10.43,10.12,11.83,0.87,0.81,-3.53,-0.50,-22.09,-0.34,-0.77,0.10,-0.05,-8.13,0.06,-0.01,-10.74,-11.15,-0.26,-0.84,-0.31,0.08,1.29,-0.77,-2.25,0.58,0.60,0.78,0.81,-0.03,-0.08,-0.91,0.91,-1.00,-11.00,-32.00,-1941204.00,-2059443.00,-2128216.00,1.00,11s,32s,1.9G,2G,2G -SRTsim,No,12.17,10.48,10.12,9.67,3.32,-0.02,-1.58,-0.98,-42.51,-2.21,-4.54,-2.80,0.24,-21.80,0.14,0.15,-21.37,-0.51,-0.30,-0.76,-0.26,1.29,1.22,0.95,-0.19,0.58,0.58,0.80,0.84,-0.03,-0.09,-0.95,0.95,-4.00,-19.00,-50.00,-2212423.00,-2232741.00,-2503995.00,4.00,19s,50s,2.1G,2.1G,2.4G -SPARsim,Yes,9.50,8.71,6.88,9.08,-3.88,1.29,-3.96,-3.66,-26.28,0.37,-11.08,-21.39,-0.73,-40.62,-20.28,-2.26,-148.98,-0.48,-0.18,-0.52,-0.24,2.64,0.74,-14.06,-5.18,0.93,0.92,0.52,0.63,-0.09,-0.24,-0.68,0.68,-21.00,-43.00,-66.00,-1696115.00,-3635721.00,-4001645.00,21.00,43s,1.1m,1.6G,3.5G,3.8G -scDesign3_poi_rf,No,7.50,6.95,8.38,5.25,-18.56,-17.25,-4.33,-5.00,-42.20,-2.23,-17.88,-11.69,-1.95,-2.55,0.26,-1.88,-8.55,-15.63,-0.55,-1.29,-0.54,0.73,1.18,-6.39,-10.12,0.26,0.27,0.83,0.67,-0.06,-0.15,-0.83,0.83,-21.00,-711.00,-2092.00,-1852625.00,-4336100.00,-7646784.00,21.00,11.8m,34.9m,1.8G,4.1G,7.3G -scDesign3_poi,Yes,6.50,7.10,8.38,3.67,-18.56,-17.25,-4.33,-5.00,-42.20,-2.23,-17.88,-11.08,-1.95,-2.55,0.26,-1.66,-8.55,-15.63,-0.55,-1.26,-0.54,0.73,1.18,-6.39,-10.12,0.26,0.27,0.83,0.67,-0.06,-0.15,-0.83,0.83,-23.00,-843.00,-2631.00,-1945085.00,-4274201.00,-7676111.00,23.00,14.1m,43.9m,1.9G,4.1G,7.3G -scDesign3_nb_rf,Yes,6.33,8.57,6.88,3.92,-4.38,-3.86,-1.42,-1.11,-39.03,-2.36,-4.48,-2.32,0.28,-13.27,0.07,-3.95,-30.98,-1.05,-0.44,-1.18,-0.39,0.88,0.97,-2.75,-1.61,0.21,0.21,0.74,0.75,-0.08,-0.19,-0.79,0.79,-54.00,-748.00,-2094.00,-1963884.00,-4302020.00,-6604235.00,54.00,12.5m,34.9m,1.9G,4.1G,6.3G -scDesign3_nb,No,6.17,8.67,6.38,3.92,-4.34,-3.83,-1.40,-1.19,-38.79,-2.35,-4.56,-1.26,0.28,-13.22,0.06,-3.64,-31.20,-1.04,-0.43,-1.19,-0.38,0.87,0.96,-2.76,-1.59,0.21,0.21,0.74,0.75,-0.08,-0.19,-0.79,0.79,-54.00,-762.00,-2113.00,-1942827.00,-4287208.00,-6648315.00,54.00,12.7m,35.2m,1.9G,4.1G,6.3G -zinbwave,Yes,6.00,6.76,7.00,5.00,2.21,0.74,-23.06,-6.79,-34.52,0.03,-0.62,-21.87,0.31,-41.77,0.07,-5.38,-68.11,0.35,-0.61,-1.73,-0.54,-0.68,1.00,-24.11,-6.00,0.45,0.47,0.50,0.63,-0.08,-0.18,-0.68,0.68,-3.00,-40.00,-248.00,-14291297.00,-17424745.00,-22860085.00,3.00,40s,4.1m,13.6G,16.6G,21.8G -splatter,Yes,5.83,4.33,5.50,11.33,-8.88,-1.37,-23.67,-15.20,-46.61,-2.69,-27.33,-40.61,-23.59,-114.15,-23.91,-8.79,-189.77,-31.88,-0.38,-1.11,-0.26,0.17,0.14,-11.41,-7.60,0.85,0.87,0.40,0.42,-0.15,-0.50,-0.52,0.52,-2.00,-6.00,-13.00,-2137601.00,-1842411.00,-2250095.00,2.00,6s,13s,2G,1.8G,2.1G -scDesign3_gau,Yes,5.83,4.43,6.00,7.58,-71.41,-23.24,-5.64,-4.44,-54.24,-5.88,-45.23,-12.00,-37.83,-0.48,-8.77,-2.13,-60.52,-102.29,-0.61,-1.57,-0.69,2.13,0.60,-14.44,-6.66,0.11,0.12,0.75,0.76,-0.09,-0.24,-0.72,0.72,-17.00,-598.00,-1656.00,-1817957.00,-4155757.00,-6441291.00,17.00,10m,27.6m,1.7G,4G,6.1G -scDesign3_gau_rf,No,4.83,4.24,6.00,7.25,-71.41,-23.24,-5.64,-4.44,-54.24,-5.88,-45.23,-12.04,-37.83,-0.48,-8.77,-2.82,-60.52,-102.29,-0.61,-1.59,-0.69,2.13,0.60,-14.44,-6.66,0.11,0.12,0.75,0.76,-0.09,-0.24,-0.72,0.72,-17.00,-600.00,-1650.00,-1853197.00,-4175684.00,-6293992.00,17.00,10m,27.5m,1.8G,4G,6G -scDesign2,Yes,4.33,6.81,3.88,5.67,-5.11,-4.32,-2.25,-0.94,-28.87,-1.37,-5.75,-0.87,-0.08,-1.91,-0.11,-3.05,-15.60,-1.12,-0.71,-1.37,-0.83,-0.01,0.07,-10.11,-18.96,0.05,0.06,0.48,0.46,-0.10,-0.23,-0.66,0.66,-12.00,-27.00,-70.00,-9880256.00,-9301012.00,-10174727.00,12.00,27s,1.2m,9.4G,8.9G,9.7G -symsim,Yes,3.50,3.52,5.50,6.83,-19.84,-21.20,-43.35,-24.37,-62.78,-4.31,-26.08,-36.05,-11.38,-176.97,-56.85,-7.55,-370.65,-37.50,-0.30,-0.91,-0.27,-7.65,0.20,-10.64,-9.39,0.94,0.95,0.23,0.41,-0.16,-0.53,-0.53,0.53,-47.00,-66.00,-98.00,-2539844.00,-2614711.00,-3403980.00,47.00,1.1m,1.6m,2.4G,2.5G,3.2G diff --git a/src/results/index.html b/src/results/index.html deleted file mode 100644 index 53a3fd7..0000000 --- a/src/results/index.html +++ /dev/null @@ -1,853 +0,0 @@ - - - - - - -Summary – SpatialSimBench - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
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    //| echo: false
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    - - - - \ No newline at end of file diff --git a/src/search.json b/src/search.json deleted file mode 100644 index 9b719fc..0000000 --- a/src/search.json +++ /dev/null @@ -1,86 +0,0 @@ -[ - { - "objectID": "Spatial_benchmark_heatmap/results/index_old.html", - "href": "Spatial_benchmark_heatmap/results/index_old.html", - "title": "Summary", - "section": "", - "text": "funkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\n/* \nasync function loadData() {\n try {\n const final_data = await FileAttachment(\"./data/final_data2.csv\").csv()\n const column_info = await FileAttachment(\"./data/column_info.csv\").csv()\n const column_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n //const palettes = await FileAttachment(\"./data/palettes.csv\").csv()\n\n console.log(\"FINAL DATA\", final_data)\n console.log(\"COLUMN INFO\", column_info)\n console.log(\"COLUMN GROUPS\", column_groups)\n //console.log(\"palettes\", palettes)\n\n const palettes = [\n {\n overall: \"Greys\",\n palette1: \"Set1\",\n palette2: \"Set2\",\n palette3: \"Set3\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Dark2\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\n function transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\n console.log(\"TRANSPOSE FINAL DATA\", transpose_list_of_objects(final_data))\n console.log(\"TRANSPOSE COLUMN INFO\", transpose_list_of_objects(column_info))\n console.log(\"TRANSPOSE COLUMN GROUPS\", transpose_list_of_objects(column_groups))\n\n funkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );\n\n \n \n //final_data.view()\n\n } catch (error) {\n console.error(\"Error loading data:\", error);\n }\n}\n\nloadData() */\n\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Greens\",\n palette2: \"Blues\",\n palette3: \"Greens\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\nfunction transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\nconsole.log(final_data)\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\nfunkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );" - }, - { - "objectID": "Spatial_benchmark_heatmap/results/index_old.html#results", - "href": "Spatial_benchmark_heatmap/results/index_old.html#results", - "title": "Summary", - "section": "Results", - "text": "Results\n\n\n\nDisplay settings\n//| echo: false\n\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\nFilter methods\n\nviewof method_ids = Inputs.checkbox(\n final_data.map(item => item.method),\n {\n label: \"Methods:\"\n } \n)\n\n\n\n\n\n\n\nFilter metrics\n\nviewof metric_ids = Inputs.checkbox(\n Object.keys(final_data[0]),\n {\n label: \"Metrics:\"\n }\n)\n\n\n\n\n\n\n\n\n\nInputs.table(final_data)" - }, - { - "objectID": "Spatial_benchmark_heatmap/index.html", - "href": "Spatial_benchmark_heatmap/index.html", - "title": "About", - "section": "", - "text": "Multi-task benchmarking of spatially resolved gene expression simulation models\nAbstract\nComputational methods for spatially resolved transcriptomics (SRT) are frequently developed and assessed through data simulation. The effectiveness of these evaluations relies on the simulation methods’ ability to accurately reflect experimental data. However, a systematic evaluation framework for spatial simulators is lacking. Here, we present SpatialSimBench, a comprehensive evaluation framework that assesses 13 simulation methods using 10 distinct STR datasets. We introduce simAdaptor, a tool that extends single-cell simulators to incorporate spatial variables, thus enabling them to simulate spatial data. SimAdaptor enables SpatialSimBench to be “back-wards” compatible. That is, it facilitates direct comparison between spatially aware simulators and existing non-spatial single-cell simulators through the adaption. Through SpatialSimBench, we demonstrate the feasibility of leveraging existing single-cell simulators for SRT data and highlight performance differences among methods. Additionally, we evaluate the simulation methods based on a total of 35 metrics across data property estimation, various downstream analysis and scalability. In total, we generated 4550 results from 13 simulation methods, 10 spatial datasets and 35 metrics. Our findings reveal that model estimation can be impacted by distribution assumptions and dataset characteristics. In summary, our evaluation and the evaluation framework will provide guidelines for selecting appropriate methods for specific scenarios and informing future method development.\nResearch paper link" - }, - { - "objectID": "results/index.html", - "href": "results/index.html", - "title": "Summary", - "section": "", - "text": "funkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.JSON\").json()\n\n/* console.log(final_data)\nconsole.log(column_info)\nconsole.log(column_groups) */\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Blues\",\n palette2: \"Reds\",\n palette3: \"Greens\",\n palette4: \"YlOrBr\",\n NA: \"Greys\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0]\nfunction removeLastNColumns(data, n) {\n if (data.length === 0 || n <= 0) return data;\n\n // Extract the keys of the columns\n const keys = Object.keys(data[0]);\n\n // Determine the columns to keep\n const columnsToKeep = keys.slice(0, -n);\n\n // Filter columns for each row\n return data.map(row => {\n const newRow = {};\n columnsToKeep.forEach(key => {\n newRow[key] = row[key];\n });\n return newRow;\n });\n}\n\n// Remove the last 4 columns from the data\nfilteredData = removeLastNColumns(final_data, 6);\n\nfunction removeLastNItems(array, n) {\n return array.slice(0, -n);\n}\n\n\n// Remove the last 4 items\nfilteredColumnInfo = removeLastNItems(column_info, 12);\n\nfilteredColumnGroups = removeLastNItems(column_groups, 2);\n\nconsole.log(filteredColumnGroups)" - }, - { - "objectID": "results/index.html#results---heatmap", - "href": "results/index.html#results---heatmap", - "title": "Summary", - "section": "Results - Heatmap", - "text": "Results - Heatmap\n\nfunction transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\nfunkyheatmap(\n transpose_list_of_objects(filteredData),\n transpose_list_of_objects(filteredColumnInfo),\n [],\n transpose_list_of_objects(filteredColumnGroups),\n \n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: true\n }\n );" - }, - { - "objectID": "results/index.html#results---table", - "href": "results/index.html#results---table", - "title": "Summary", - "section": "Results - Table", - "text": "Results - Table" - }, - { - "objectID": "index.html", - "href": "index.html", - "title": "About", - "section": "", - "text": "Multi-task benchmarking of spatially resolved gene expression simulation models\nAbstract\nComputational methods for spatially resolved transcriptomics (SRT) are frequently developed and assessed through data simulation. The effectiveness of these evaluations relies on the simulation methods’ ability to accurately reflect experimental data. However, a systematic evaluation framework for spatial simulators is lacking. Here, we present SpatialSimBench, a comprehensive evaluation framework that assesses 13 simulation methods using 10 distinct STR datasets. We introduce simAdaptor, a tool that extends single-cell simulators to incorporate spatial variables, thus enabling them to simulate spatial data. SimAdaptor enables SpatialSimBench to be “back-wards” compatible. That is, it facilitates direct comparison between spatially aware simulators and existing non-spatial single-cell simulators through the adaption. Through SpatialSimBench, we demonstrate the feasibility of leveraging existing single-cell simulators for SRT data and highlight performance differences among methods. Additionally, we evaluate the simulation methods based on a total of 35 metrics across data property estimation, various downstream analysis and scalability. In total, we generated 4550 results from 13 simulation methods, 10 spatial datasets and 35 metrics. Our findings reveal that model estimation can be impacted by distribution assumptions and dataset characteristics. In summary, our evaluation and the evaluation framework will provide guidelines for selecting appropriate methods for specific scenarios and informing future method development.\nResearch paper link" - }, - { - "objectID": "results/index_old.html", - "href": "results/index_old.html", - "title": "Summary", - "section": "", - "text": "funkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\n/* \nasync function loadData() {\n try {\n const final_data = await FileAttachment(\"./data/final_data2.csv\").csv()\n const column_info = await FileAttachment(\"./data/column_info.csv\").csv()\n const column_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n //const palettes = await FileAttachment(\"./data/palettes.csv\").csv()\n\n console.log(\"FINAL DATA\", final_data)\n console.log(\"COLUMN INFO\", column_info)\n console.log(\"COLUMN GROUPS\", column_groups)\n //console.log(\"palettes\", palettes)\n\n const palettes = [\n {\n overall: \"Greys\",\n palette1: \"Set1\",\n palette2: \"Set2\",\n palette3: \"Set3\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Dark2\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\n function transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\n console.log(\"TRANSPOSE FINAL DATA\", transpose_list_of_objects(final_data))\n console.log(\"TRANSPOSE COLUMN INFO\", transpose_list_of_objects(column_info))\n console.log(\"TRANSPOSE COLUMN GROUPS\", transpose_list_of_objects(column_groups))\n\n funkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );\n\n \n \n //final_data.view()\n\n } catch (error) {\n console.error(\"Error loading data:\", error);\n }\n}\n\nloadData() */\n\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.csv\").csv()\n\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Greens\",\n palette2: \"Blues\",\n palette3: \"Greens\",\n palette4: \"Blues\",\n NA: \"Greens\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0] \n\nfunction transpose_list_of_objects(list) {\n return Object.fromEntries(Object.keys(list[0]).map(key => [key, list.map(d => d[key])]))\n }\n\nconsole.log(final_data)\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\nfunkyheatmap(\n transpose_list_of_objects(final_data),\n transpose_list_of_objects(column_info),\n [],\n transpose_list_of_objects(column_groups),\n [],\n palettes,\n {\n fontSize: 14,\n rowHeight: 26,\n rootStyle: 'max-width: none',\n colorByRank: color_by_rank,\n theme: {\n oddRowBackground: 'var(--bs-body-bg)',\n evenRowBackground: 'var(--bs-button-hover)',\n textColor: 'var(--bs-body-color)',\n strokeColor: 'var(--bs-body-color)',\n headerColor: 'var(--bs-body-color)',\n hoverColor: 'var(--bs-body-color)'\n }\n }\n );" - }, - { - "objectID": "results/index_old.html#results", - "href": "results/index_old.html#results", - "title": "Summary", - "section": "Results", - "text": "Results\n\n\n\nDisplay settings\n//| echo: false\n\nviewof color_by_rank = Inputs.toggle({label: \"Color by rank:\", value: true})\nviewof scale_column = Inputs.toggle({label: \"Minmax column:\", value: false})\nviewof show_con = Inputs.toggle({label: \"Show control methods:\", value: true})\n\nFilter methods\n\nviewof method_ids = Inputs.checkbox(\n final_data.map(item => item.method),\n {\n label: \"Methods:\"\n } \n)\n\n\n\n\n\n\n\nFilter metrics\n\nviewof metric_ids = Inputs.checkbox(\n Object.keys(final_data[0]),\n {\n label: \"Metrics:\"\n }\n)\n\n\n\n\n\n\n\n\n\nInputs.table(final_data)" - }, - { - "objectID": "Spatial_benchmark_heatmap/results/index.html", - "href": "Spatial_benchmark_heatmap/results/index.html", - "title": "Summary", - "section": "", - "text": "funkyheatmap = (await require('d3@7').then(d3 => {\n\n window.d3 = d3;\n\n window._ = _;\n\n return import('https://unpkg.com/funkyheatmapjs@0.2.5');\n\n})).default;\nfinal_data = FileAttachment(\"./data/final_data2.csv\").csv()\ncolumn_info = await FileAttachment(\"./data/column_info.csv\").csv()\ncolumn_groups = await FileAttachment(\"./data/column_groups.JSON\").json()\n\n/* console.log(final_data)\nconsole.log(column_info)\nconsole.log(column_groups) */\n\np1 = [\"#6ABAC4,#6BBAC4,#6DBBC5,#6EBCC5,#70BCC6,#71BDC6,#73BEC7,#74BEC8,#76BFC8,#77C0C9,#79C0C9,#7AC1CA,#7CC2CB,#7DC3CB,#7FC3CC,#80C4CC,#82C5CD,#83C5CE,#85C6CE,#86C7CF,#88C7CF,#89C8D0,#8BC9D1,#8CCAD1,#8ECAD2,#8FCBD2,#91CCD3,#92CCD4,#94CDD4,#95CED5,#97CED5,#98CFD6,#9AD0D7,#9BD1D7,#9DD1D8,#9ED2D8,#A0D3D9,#A1D3DA,#A3D4DA,#A4D5DB,#A6D5DB,#A7D6DC,#A9D7DD,#AAD7DD,#ACD8DE,#ADD9DE,#AFDADF,#B0DAE0,#B2DBE0,#B3DCE1,#B5DCE1,#B6DDE2,#B8DEE2,#B9DEE3,#BBDFE4,#BCE0E4,#BEE1E5,#BFE1E5,#C1E2E6,#C2E3E7,#C4E3E7,#C5E4E8,#C7E5E8,#C8E5E9,#CAE6EA,#CBE7EA,#CDE8EB,#CEE8EB,#D0E9EC,#D1EAED,#D3EAED,#D4EBEE,#D6ECEE,#D7ECEF,#D9EDF0,#DAEEF0,#DCEEF1,#DDEFF1,#DFF0F2,#E0F1F3,#E2F1F3,#E3F2F4,#E5F3F4,#E6F3F5,#E8F4F6,#E9F5F6,#EBF5F7,#ECF6F7,#EEF7F8,#EFF8F9,#F1F8F9,#F2F9FA,#F4FAFA,#F5FAFB,#F7FBFC,#F8FCFC,#FAFCFD,#FBFDFD,#FDFEFE,#FFFFFF\"]\n\npalettes = [\n {\n overall: \"Greys\",\n palette1: \"Blues\",\n palette2: \"Reds\",\n palette3: \"Greens\",\n palette4: \"YlOrBr\",\n NA: \"Greys\",\n white6black4: \"Greys\",\n error_reason: {\n colors: [\"#8DD3C7\", \"#FFFFB3\", \"#BEBADA\", \"#FFFFFF\"],\n names: [\"Memory limit exceeded\", \"Time limit exceeded\", \"Execution error\", \"No error\"]\n }\n }\n ][0]\nfunction removeLastNColumns(data, n) {\n if (data.length === 0 || n <= 0) return data;\n\n // Extract the keys of the columns\n const keys = Object.keys(data[0]);\n\n // Determine the columns to keep\n const columnsToKeep = keys.slice(0, -n);\n\n // Filter columns for each row\n return data.map(row => {\n const newRow = {};\n columnsToKeep.forEach(key => {\n newRow[key] = row[key];\n });\n return newRow;\n });\n}\n\n// Remove the last 4 columns from the data\nfilteredData = removeLastNColumns(final_data, 6);\n\nfunction removeLastNItems(array, n) {\n return array.slice(0, -n);\n}\n\n\n// Remove the last 4 items\nfilteredColumnInfo = removeLastNItems(column_info, 12);\n\nfilteredColumnGroups = removeLastNItems(column_groups, 2);\n\nconsole.log(filteredColumnGroups)" - }, - { - "objectID": 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.dropdown-toggle.btn-link{box-shadow:none}.btn-group-vertical{flex-direction:column;-webkit-flex-direction:column;align-items:flex-start;-webkit-align-items:flex-start;justify-content:center;-webkit-justify-content:center}.btn-group-vertical>.btn,.btn-group-vertical>.btn-group{width:100%}.btn-group-vertical>.btn:not(:first-child),.btn-group-vertical>.btn-group:not(:first-child){margin-top:calc(1px*-1)}.btn-group-vertical>.btn:not(:last-child):not(.dropdown-toggle),.btn-group-vertical>.btn-group:not(:last-child)>.btn{border-bottom-right-radius:0;border-bottom-left-radius:0}.btn-group-vertical>.btn~.btn,.btn-group-vertical>.btn-group:not(:first-child)>.btn{border-top-left-radius:0;border-top-right-radius:0}.nav{--bs-nav-link-padding-x: 1rem;--bs-nav-link-padding-y: 0.9rem;--bs-nav-link-font-weight: ;--bs-nav-link-color: #d9230f;--bs-nav-link-hover-color: #ae1c0c;--bs-nav-link-disabled-color: #bbb;display:flex;display:-webkit-flex;flex-wrap:wrap;-webkit-flex-wrap:wrap;padding-left:0;margin-bottom:0;list-style:none}.nav-link{display:block;padding:var(--bs-nav-link-padding-y) var(--bs-nav-link-padding-x);font-size:var(--bs-nav-link-font-size);font-weight:var(--bs-nav-link-font-weight);color:var(--bs-nav-link-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background:none;border:0;transition:color .15s ease-in-out,background-color .15s ease-in-out,border-color .15s ease-in-out}@media(prefers-reduced-motion: reduce){.nav-link{transition:none}}.nav-link:hover,.nav-link:focus{color:var(--bs-nav-link-hover-color)}.nav-link:focus-visible{outline:0;box-shadow:0 0 0 .25rem rgba(217,35,15,.25)}.nav-link.disabled,.nav-link:disabled{color:var(--bs-nav-link-disabled-color);pointer-events:none;cursor:default}.nav-tabs{--bs-nav-tabs-border-width: 1px;--bs-nav-tabs-border-color: 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url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 30 30'%3e%3cpath stroke='rgba%280, 0, 0, 0.6%29' stroke-linecap='round' stroke-miterlimit='10' stroke-width='2' d='M4 7h22M4 15h22M4 23h22'/%3e%3c/svg%3e")}[data-bs-theme=dark] .navbar-toggler-icon{--bs-navbar-toggler-icon-bg: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 30 30'%3e%3cpath stroke='rgba%280, 0, 0, 0.6%29' stroke-linecap='round' stroke-miterlimit='10' stroke-width='2' d='M4 7h22M4 15h22M4 23h22'/%3e%3c/svg%3e")}.card{--bs-card-spacer-y: 1rem;--bs-card-spacer-x: 1rem;--bs-card-title-spacer-y: 0.5rem;--bs-card-title-color: ;--bs-card-subtitle-color: ;--bs-card-border-width: 1px;--bs-card-border-color: #eeeeee;--bs-card-border-radius: 0.25rem;--bs-card-box-shadow: ;--bs-card-inner-border-radius: calc(0.25rem - 1px);--bs-card-cap-padding-y: 0.5rem;--bs-card-cap-padding-x: 1rem;--bs-card-cap-bg: rgba(52, 58, 64, 0.25);--bs-card-cap-color: ;--bs-card-height: 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var(--bs-accordion-border-color)}.accordion-button:not(.collapsed)::after{background-image:var(--bs-accordion-btn-active-icon);transform:var(--bs-accordion-btn-icon-transform)}.accordion-button::after{flex-shrink:0;-webkit-flex-shrink:0;width:var(--bs-accordion-btn-icon-width);height:var(--bs-accordion-btn-icon-width);margin-left:auto;content:"";background-image:var(--bs-accordion-btn-icon);background-repeat:no-repeat;background-size:var(--bs-accordion-btn-icon-width);transition:var(--bs-accordion-btn-icon-transition)}@media(prefers-reduced-motion: reduce){.accordion-button::after{transition:none}}.accordion-button:hover{z-index:2}.accordion-button:focus{z-index:3;border-color:var(--bs-accordion-btn-focus-border-color);outline:0;box-shadow:var(--bs-accordion-btn-focus-box-shadow)}.accordion-header{margin-bottom:0}.accordion-item{color:var(--bs-accordion-color);background-color:var(--bs-accordion-bg);border:var(--bs-accordion-border-width) solid var(--bs-accordion-border-color)}.accordion-item:first-of-type{border-top-left-radius:var(--bs-accordion-border-radius);border-top-right-radius:var(--bs-accordion-border-radius)}.accordion-item:first-of-type .accordion-button{border-top-left-radius:var(--bs-accordion-inner-border-radius);border-top-right-radius:var(--bs-accordion-inner-border-radius)}.accordion-item:not(:first-of-type){border-top:0}.accordion-item:last-of-type{border-bottom-right-radius:var(--bs-accordion-border-radius);border-bottom-left-radius:var(--bs-accordion-border-radius)}.accordion-item:last-of-type .accordion-button.collapsed{border-bottom-right-radius:var(--bs-accordion-inner-border-radius);border-bottom-left-radius:var(--bs-accordion-inner-border-radius)}.accordion-item:last-of-type .accordion-collapse{border-bottom-right-radius:var(--bs-accordion-border-radius);border-bottom-left-radius:var(--bs-accordion-border-radius)}.accordion-body{padding:var(--bs-accordion-body-padding-y) var(--bs-accordion-body-padding-x)}.accordion-flush .accordion-collapse{border-width:0}.accordion-flush .accordion-item{border-right:0;border-left:0;border-radius:0}.accordion-flush .accordion-item:first-child{border-top:0}.accordion-flush .accordion-item:last-child{border-bottom:0}.accordion-flush .accordion-item .accordion-button,.accordion-flush .accordion-item .accordion-button.collapsed{border-radius:0}[data-bs-theme=dark] .accordion-button::after{--bs-accordion-btn-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%23e87b6f'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e");--bs-accordion-btn-active-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%23e87b6f'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e")}.breadcrumb{--bs-breadcrumb-padding-x: 0.75rem;--bs-breadcrumb-padding-y: 0.375rem;--bs-breadcrumb-margin-bottom: 1rem;--bs-breadcrumb-bg: ;--bs-breadcrumb-border-radius: 0.25rem;--bs-breadcrumb-divider-color: rgba(33, 37, 41, 0.75);--bs-breadcrumb-item-padding-x: 0.5rem;--bs-breadcrumb-item-active-color: rgba(33, 37, 41, 0.75);display:flex;display:-webkit-flex;flex-wrap:wrap;-webkit-flex-wrap:wrap;padding:var(--bs-breadcrumb-padding-y) var(--bs-breadcrumb-padding-x);margin-bottom:var(--bs-breadcrumb-margin-bottom);font-size:var(--bs-breadcrumb-font-size);list-style:none;background-color:var(--bs-breadcrumb-bg);border-radius:var(--bs-breadcrumb-border-radius)}.breadcrumb-item+.breadcrumb-item{padding-left:var(--bs-breadcrumb-item-padding-x)}.breadcrumb-item+.breadcrumb-item::before{float:left;padding-right:var(--bs-breadcrumb-item-padding-x);color:var(--bs-breadcrumb-divider-color);content:var(--bs-breadcrumb-divider, ">") /* rtl: var(--bs-breadcrumb-divider, ">") */}.breadcrumb-item.active{color:var(--bs-breadcrumb-item-active-color)}.pagination{--bs-pagination-padding-x: 0.75rem;--bs-pagination-padding-y: 0.375rem;--bs-pagination-font-size:1rem;--bs-pagination-color: #d9230f;--bs-pagination-bg: #fcfcfc;--bs-pagination-border-width: 1px;--bs-pagination-border-color: #eeeeee;--bs-pagination-border-radius: 0.25rem;--bs-pagination-hover-color: #fff;--bs-pagination-hover-bg: #d9230f;--bs-pagination-hover-border-color: #d9230f;--bs-pagination-focus-color: #ae1c0c;--bs-pagination-focus-bg: #ddd;--bs-pagination-focus-box-shadow: 0 0 0 0.25rem rgba(217, 35, 15, 0.25);--bs-pagination-active-color: #fff;--bs-pagination-active-bg: #d9230f;--bs-pagination-active-border-color: #d9230f;--bs-pagination-disabled-color: #bbb;--bs-pagination-disabled-bg: #ddd;--bs-pagination-disabled-border-color: #eeeeee;display:flex;display:-webkit-flex;padding-left:0;list-style:none}.page-link{position:relative;display:block;padding:var(--bs-pagination-padding-y) var(--bs-pagination-padding-x);font-size:var(--bs-pagination-font-size);color:var(--bs-pagination-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background-color:var(--bs-pagination-bg);border:var(--bs-pagination-border-width) solid var(--bs-pagination-border-color);transition:color .15s ease-in-out,background-color .15s ease-in-out,border-color .15s ease-in-out,box-shadow .15s ease-in-out}@media(prefers-reduced-motion: reduce){.page-link{transition:none}}.page-link:hover{z-index:2;color:var(--bs-pagination-hover-color);background-color:var(--bs-pagination-hover-bg);border-color:var(--bs-pagination-hover-border-color)}.page-link:focus{z-index:3;color:var(--bs-pagination-focus-color);background-color:var(--bs-pagination-focus-bg);outline:0;box-shadow:var(--bs-pagination-focus-box-shadow)}.page-link.active,.active>.page-link{z-index:3;color:var(--bs-pagination-active-color);background-color:var(--bs-pagination-active-bg);border-color:var(--bs-pagination-active-border-color)}.page-link.disabled,.disabled>.page-link{color:var(--bs-pagination-disabled-color);pointer-events:none;background-color:var(--bs-pagination-disabled-bg);border-color:var(--bs-pagination-disabled-border-color)}.page-item:not(:first-child) .page-link{margin-left:calc(1px*-1)}.page-item:first-child .page-link{border-top-left-radius:var(--bs-pagination-border-radius);border-bottom-left-radius:var(--bs-pagination-border-radius)}.page-item:last-child .page-link{border-top-right-radius:var(--bs-pagination-border-radius);border-bottom-right-radius:var(--bs-pagination-border-radius)}.pagination-lg{--bs-pagination-padding-x: 1.5rem;--bs-pagination-padding-y: 0.75rem;--bs-pagination-font-size:1.25rem;--bs-pagination-border-radius: 0.5rem}.pagination-sm{--bs-pagination-padding-x: 0.5rem;--bs-pagination-padding-y: 0.25rem;--bs-pagination-font-size:0.875rem;--bs-pagination-border-radius: 0.2em}.badge{--bs-badge-padding-x: 0.65em;--bs-badge-padding-y: 0.35em;--bs-badge-font-size:0.75em;--bs-badge-font-weight: 700;--bs-badge-color: #fff;--bs-badge-border-radius: 0.25rem;display:inline-block;padding:var(--bs-badge-padding-y) var(--bs-badge-padding-x);font-size:var(--bs-badge-font-size);font-weight:var(--bs-badge-font-weight);line-height:1;color:var(--bs-badge-color);text-align:center;white-space:nowrap;vertical-align:baseline;border-radius:var(--bs-badge-border-radius)}.badge:empty{display:none}.btn .badge{position:relative;top:-1px}.alert{--bs-alert-bg: transparent;--bs-alert-padding-x: 1rem;--bs-alert-padding-y: 1rem;--bs-alert-margin-bottom: 1rem;--bs-alert-color: inherit;--bs-alert-border-color: transparent;--bs-alert-border: 1px solid var(--bs-alert-border-color);--bs-alert-border-radius: 0.25rem;--bs-alert-link-color: inherit;position:relative;padding:var(--bs-alert-padding-y) var(--bs-alert-padding-x);margin-bottom:var(--bs-alert-margin-bottom);color:var(--bs-alert-color);background-color:var(--bs-alert-bg);border:var(--bs-alert-border);border-radius:var(--bs-alert-border-radius)}.alert-heading{color:inherit}.alert-link{font-weight:700;color:var(--bs-alert-link-color)}.alert-dismissible{padding-right:3rem}.alert-dismissible .btn-close{position:absolute;top:0;right:0;z-index:2;padding:1.25rem 1rem}.alert-default{--bs-alert-color: var(--bs-default-text-emphasis);--bs-alert-bg: var(--bs-default-bg-subtle);--bs-alert-border-color: var(--bs-default-border-subtle);--bs-alert-link-color: var(--bs-default-text-emphasis)}.alert-primary{--bs-alert-color: var(--bs-primary-text-emphasis);--bs-alert-bg: var(--bs-primary-bg-subtle);--bs-alert-border-color: var(--bs-primary-border-subtle);--bs-alert-link-color: var(--bs-primary-text-emphasis)}.alert-secondary{--bs-alert-color: var(--bs-secondary-text-emphasis);--bs-alert-bg: var(--bs-secondary-bg-subtle);--bs-alert-border-color: var(--bs-secondary-border-subtle);--bs-alert-link-color: var(--bs-secondary-text-emphasis)}.alert-success{--bs-alert-color: var(--bs-success-text-emphasis);--bs-alert-bg: var(--bs-success-bg-subtle);--bs-alert-border-color: var(--bs-success-border-subtle);--bs-alert-link-color: var(--bs-success-text-emphasis)}.alert-info{--bs-alert-color: var(--bs-info-text-emphasis);--bs-alert-bg: var(--bs-info-bg-subtle);--bs-alert-border-color: var(--bs-info-border-subtle);--bs-alert-link-color: var(--bs-info-text-emphasis)}.alert-warning{--bs-alert-color: var(--bs-warning-text-emphasis);--bs-alert-bg: var(--bs-warning-bg-subtle);--bs-alert-border-color: var(--bs-warning-border-subtle);--bs-alert-link-color: var(--bs-warning-text-emphasis)}.alert-danger{--bs-alert-color: var(--bs-danger-text-emphasis);--bs-alert-bg: var(--bs-danger-bg-subtle);--bs-alert-border-color: var(--bs-danger-border-subtle);--bs-alert-link-color: var(--bs-danger-text-emphasis)}.alert-light{--bs-alert-color: var(--bs-light-text-emphasis);--bs-alert-bg: var(--bs-light-bg-subtle);--bs-alert-border-color: var(--bs-light-border-subtle);--bs-alert-link-color: var(--bs-light-text-emphasis)}.alert-dark{--bs-alert-color: var(--bs-dark-text-emphasis);--bs-alert-bg: var(--bs-dark-bg-subtle);--bs-alert-border-color: var(--bs-dark-border-subtle);--bs-alert-link-color: var(--bs-dark-text-emphasis)}@keyframes progress-bar-stripes{0%{background-position-x:1rem}}.progress,.progress-stacked{--bs-progress-height: 1rem;--bs-progress-font-size:0.75rem;--bs-progress-bg: #ddd;--bs-progress-border-radius: 0.25rem;--bs-progress-box-shadow: inset 0 1px 2px rgba(0, 0, 0, 0.075);--bs-progress-bar-color: #d9230f;--bs-progress-bar-bg: #d9230f;--bs-progress-bar-transition: width 0.6s ease;display:flex;display:-webkit-flex;height:var(--bs-progress-height);overflow:hidden;font-size:var(--bs-progress-font-size);background-color:var(--bs-progress-bg);border-radius:var(--bs-progress-border-radius);box-shadow:var(--bs-progress-box-shadow)}.progress-bar{display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;justify-content:center;-webkit-justify-content:center;overflow:hidden;color:var(--bs-progress-bar-color);text-align:center;white-space:nowrap;background-color:var(--bs-progress-bar-bg);transition:var(--bs-progress-bar-transition)}@media(prefers-reduced-motion: reduce){.progress-bar{transition:none}}.progress-bar-striped{background-image:linear-gradient(45deg, rgba(255, 255, 255, 0.15) 25%, transparent 25%, transparent 50%, rgba(255, 255, 255, 0.15) 50%, rgba(255, 255, 255, 0.15) 75%, transparent 75%, transparent);background-size:var(--bs-progress-height) var(--bs-progress-height)}.progress-stacked>.progress{overflow:visible}.progress-stacked>.progress>.progress-bar{width:100%}.progress-bar-animated{animation:1s linear infinite progress-bar-stripes}@media(prefers-reduced-motion: reduce){.progress-bar-animated{animation:none}}.list-group{--bs-list-group-color: #212529;--bs-list-group-bg: #fcfcfc;--bs-list-group-border-color: #eeeeee;--bs-list-group-border-width: 1px;--bs-list-group-border-radius: 0.25rem;--bs-list-group-item-padding-x: 1rem;--bs-list-group-item-padding-y: 0.5rem;--bs-list-group-action-color: rgba(33, 37, 41, 0.75);--bs-list-group-action-hover-color: #000;--bs-list-group-action-hover-bg: #f8f9fa;--bs-list-group-action-active-color: #212529;--bs-list-group-action-active-bg: #ddd;--bs-list-group-disabled-color: rgba(33, 37, 41, 0.75);--bs-list-group-disabled-bg: #eeeeee;--bs-list-group-active-color: #fff;--bs-list-group-active-bg: #d9230f;--bs-list-group-active-border-color: #d9230f;display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;padding-left:0;margin-bottom:0;border-radius:var(--bs-list-group-border-radius)}.list-group-numbered{list-style-type:none;counter-reset:section}.list-group-numbered>.list-group-item::before{content:counters(section, ".") ". ";counter-increment:section}.list-group-item-action{width:100%;color:var(--bs-list-group-action-color);text-align:inherit}.list-group-item-action:hover,.list-group-item-action:focus{z-index:1;color:var(--bs-list-group-action-hover-color);text-decoration:none;background-color:var(--bs-list-group-action-hover-bg)}.list-group-item-action:active{color:var(--bs-list-group-action-active-color);background-color:var(--bs-list-group-action-active-bg)}.list-group-item{position:relative;display:block;padding:var(--bs-list-group-item-padding-y) var(--bs-list-group-item-padding-x);color:var(--bs-list-group-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background-color:var(--bs-list-group-bg);border:var(--bs-list-group-border-width) solid var(--bs-list-group-border-color)}.list-group-item:first-child{border-top-left-radius:inherit;border-top-right-radius:inherit}.list-group-item:last-child{border-bottom-right-radius:inherit;border-bottom-left-radius:inherit}.list-group-item.disabled,.list-group-item:disabled{color:var(--bs-list-group-disabled-color);pointer-events:none;background-color:var(--bs-list-group-disabled-bg)}.list-group-item.active{z-index:2;color:var(--bs-list-group-active-color);background-color:var(--bs-list-group-active-bg);border-color:var(--bs-list-group-active-border-color)}.list-group-item+.list-group-item{border-top-width:0}.list-group-item+.list-group-item.active{margin-top:calc(-1*var(--bs-list-group-border-width));border-top-width:var(--bs-list-group-border-width)}.list-group-horizontal{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal>.list-group-item.active{margin-top:0}.list-group-horizontal>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal>.list-group-item+.list-group-item.active{margin-left:calc(-1*var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}@media(min-width: 576px){.list-group-horizontal-sm{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-sm>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-sm>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-sm>.list-group-item.active{margin-top:0}.list-group-horizontal-sm>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-sm>.list-group-item+.list-group-item.active{margin-left:calc(-1*var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media(min-width: 768px){.list-group-horizontal-md{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-md>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-md>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-md>.list-group-item.active{margin-top:0}.list-group-horizontal-md>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-md>.list-group-item+.list-group-item.active{margin-left:calc(-1*var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media(min-width: 992px){.list-group-horizontal-lg{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-lg>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-lg>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-lg>.list-group-item.active{margin-top:0}.list-group-horizontal-lg>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-lg>.list-group-item+.list-group-item.active{margin-left:calc(-1*var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media(min-width: 1200px){.list-group-horizontal-xl{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-xl>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-xl>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-xl>.list-group-item.active{margin-top:0}.list-group-horizontal-xl>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-xl>.list-group-item+.list-group-item.active{margin-left:calc(-1*var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media(min-width: 1400px){.list-group-horizontal-xxl{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-xxl>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-xxl>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-xxl>.list-group-item.active{margin-top:0}.list-group-horizontal-xxl>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-xxl>.list-group-item+.list-group-item.active{margin-left:calc(-1*var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}.list-group-flush{border-radius:0}.list-group-flush>.list-group-item{border-width:0 0 var(--bs-list-group-border-width)}.list-group-flush>.list-group-item:last-child{border-bottom-width:0}.list-group-item-default{--bs-list-group-color: var(--bs-default-text-emphasis);--bs-list-group-bg: var(--bs-default-bg-subtle);--bs-list-group-border-color: var(--bs-default-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-default-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-default-border-subtle);--bs-list-group-active-color: var(--bs-default-bg-subtle);--bs-list-group-active-bg: var(--bs-default-text-emphasis);--bs-list-group-active-border-color: var(--bs-default-text-emphasis)}.list-group-item-primary{--bs-list-group-color: var(--bs-primary-text-emphasis);--bs-list-group-bg: var(--bs-primary-bg-subtle);--bs-list-group-border-color: var(--bs-primary-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-primary-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-primary-border-subtle);--bs-list-group-active-color: var(--bs-primary-bg-subtle);--bs-list-group-active-bg: var(--bs-primary-text-emphasis);--bs-list-group-active-border-color: var(--bs-primary-text-emphasis)}.list-group-item-secondary{--bs-list-group-color: var(--bs-secondary-text-emphasis);--bs-list-group-bg: var(--bs-secondary-bg-subtle);--bs-list-group-border-color: var(--bs-secondary-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-secondary-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-secondary-border-subtle);--bs-list-group-active-color: var(--bs-secondary-bg-subtle);--bs-list-group-active-bg: var(--bs-secondary-text-emphasis);--bs-list-group-active-border-color: var(--bs-secondary-text-emphasis)}.list-group-item-success{--bs-list-group-color: var(--bs-success-text-emphasis);--bs-list-group-bg: var(--bs-success-bg-subtle);--bs-list-group-border-color: var(--bs-success-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-success-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-success-border-subtle);--bs-list-group-active-color: var(--bs-success-bg-subtle);--bs-list-group-active-bg: var(--bs-success-text-emphasis);--bs-list-group-active-border-color: var(--bs-success-text-emphasis)}.list-group-item-info{--bs-list-group-color: var(--bs-info-text-emphasis);--bs-list-group-bg: var(--bs-info-bg-subtle);--bs-list-group-border-color: var(--bs-info-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-info-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-info-border-subtle);--bs-list-group-active-color: var(--bs-info-bg-subtle);--bs-list-group-active-bg: var(--bs-info-text-emphasis);--bs-list-group-active-border-color: var(--bs-info-text-emphasis)}.list-group-item-warning{--bs-list-group-color: var(--bs-warning-text-emphasis);--bs-list-group-bg: var(--bs-warning-bg-subtle);--bs-list-group-border-color: var(--bs-warning-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-warning-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-warning-border-subtle);--bs-list-group-active-color: var(--bs-warning-bg-subtle);--bs-list-group-active-bg: var(--bs-warning-text-emphasis);--bs-list-group-active-border-color: var(--bs-warning-text-emphasis)}.list-group-item-danger{--bs-list-group-color: var(--bs-danger-text-emphasis);--bs-list-group-bg: var(--bs-danger-bg-subtle);--bs-list-group-border-color: var(--bs-danger-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-danger-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-danger-border-subtle);--bs-list-group-active-color: var(--bs-danger-bg-subtle);--bs-list-group-active-bg: var(--bs-danger-text-emphasis);--bs-list-group-active-border-color: var(--bs-danger-text-emphasis)}.list-group-item-light{--bs-list-group-color: var(--bs-light-text-emphasis);--bs-list-group-bg: var(--bs-light-bg-subtle);--bs-list-group-border-color: var(--bs-light-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-light-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-light-border-subtle);--bs-list-group-active-color: var(--bs-light-bg-subtle);--bs-list-group-active-bg: var(--bs-light-text-emphasis);--bs-list-group-active-border-color: var(--bs-light-text-emphasis)}.list-group-item-dark{--bs-list-group-color: var(--bs-dark-text-emphasis);--bs-list-group-bg: var(--bs-dark-bg-subtle);--bs-list-group-border-color: var(--bs-dark-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-dark-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-dark-border-subtle);--bs-list-group-active-color: var(--bs-dark-bg-subtle);--bs-list-group-active-bg: var(--bs-dark-text-emphasis);--bs-list-group-active-border-color: var(--bs-dark-text-emphasis)}.btn-close{--bs-btn-close-color: #000;--bs-btn-close-bg: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%23000'%3e%3cpath d='M.293.293a1 1 0 0 1 1.414 0L8 6.586 14.293.293a1 1 0 1 1 1.414 1.414L9.414 8l6.293 6.293a1 1 0 0 1-1.414 1.414L8 9.414l-6.293 6.293a1 1 0 0 1-1.414-1.414L6.586 8 .293 1.707a1 1 0 0 1 0-1.414z'/%3e%3c/svg%3e");--bs-btn-close-opacity: 0.5;--bs-btn-close-hover-opacity: 0.75;--bs-btn-close-focus-shadow: 0 0 0 0.25rem rgba(217, 35, 15, 0.25);--bs-btn-close-focus-opacity: 1;--bs-btn-close-disabled-opacity: 0.25;--bs-btn-close-white-filter: invert(1) grayscale(100%) brightness(200%);box-sizing:content-box;width:1em;height:1em;padding:.25em .25em;color:var(--bs-btn-close-color);background:rgba(0,0,0,0) var(--bs-btn-close-bg) center/1em auto no-repeat;border:0;border-radius:.25rem;opacity:var(--bs-btn-close-opacity)}.btn-close:hover{color:var(--bs-btn-close-color);text-decoration:none;opacity:var(--bs-btn-close-hover-opacity)}.btn-close:focus{outline:0;box-shadow:var(--bs-btn-close-focus-shadow);opacity:var(--bs-btn-close-focus-opacity)}.btn-close:disabled,.btn-close.disabled{pointer-events:none;user-select:none;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;opacity:var(--bs-btn-close-disabled-opacity)}.btn-close-white{filter:var(--bs-btn-close-white-filter)}[data-bs-theme=dark] .btn-close{filter:var(--bs-btn-close-white-filter)}.toast{--bs-toast-zindex: 1090;--bs-toast-padding-x: 0.75rem;--bs-toast-padding-y: 0.5rem;--bs-toast-spacing: 1.5rem;--bs-toast-max-width: 350px;--bs-toast-font-size:0.875rem;--bs-toast-color: ;--bs-toast-bg: rgba(252, 252, 252, 0.85);--bs-toast-border-width: 1px;--bs-toast-border-color: rgba(0, 0, 0, 0.175);--bs-toast-border-radius: 0.25rem;--bs-toast-box-shadow: 0 0.5rem 1rem rgba(0, 0, 0, 0.15);--bs-toast-header-color: rgba(33, 37, 41, 0.75);--bs-toast-header-bg: rgba(252, 252, 252, 0.85);--bs-toast-header-border-color: rgba(0, 0, 0, 0.175);width:var(--bs-toast-max-width);max-width:100%;font-size:var(--bs-toast-font-size);color:var(--bs-toast-color);pointer-events:auto;background-color:var(--bs-toast-bg);background-clip:padding-box;border:var(--bs-toast-border-width) solid var(--bs-toast-border-color);box-shadow:var(--bs-toast-box-shadow);border-radius:var(--bs-toast-border-radius)}.toast.showing{opacity:0}.toast:not(.show){display:none}.toast-container{--bs-toast-zindex: 1090;position:absolute;z-index:var(--bs-toast-zindex);width:max-content;width:-webkit-max-content;width:-moz-max-content;width:-ms-max-content;width:-o-max-content;max-width:100%;pointer-events:none}.toast-container>:not(:last-child){margin-bottom:var(--bs-toast-spacing)}.toast-header{display:flex;display:-webkit-flex;align-items:center;-webkit-align-items:center;padding:var(--bs-toast-padding-y) var(--bs-toast-padding-x);color:var(--bs-toast-header-color);background-color:var(--bs-toast-header-bg);background-clip:padding-box;border-bottom:var(--bs-toast-border-width) solid var(--bs-toast-header-border-color);border-top-left-radius:calc(var(--bs-toast-border-radius) - var(--bs-toast-border-width));border-top-right-radius:calc(var(--bs-toast-border-radius) - var(--bs-toast-border-width))}.toast-header .btn-close{margin-right:calc(-0.5*var(--bs-toast-padding-x));margin-left:var(--bs-toast-padding-x)}.toast-body{padding:var(--bs-toast-padding-x);word-wrap:break-word}.modal{--bs-modal-zindex: 1055;--bs-modal-width: 500px;--bs-modal-padding: 1rem;--bs-modal-margin: 0.5rem;--bs-modal-color: ;--bs-modal-bg: #fcfcfc;--bs-modal-border-color: #eeeeee;--bs-modal-border-width: 1px;--bs-modal-border-radius: 0.5rem;--bs-modal-box-shadow: 0 0.125rem 0.25rem rgba(0, 0, 0, 0.075);--bs-modal-inner-border-radius: calc(0.5rem - 1px);--bs-modal-header-padding-x: 1rem;--bs-modal-header-padding-y: 1rem;--bs-modal-header-padding: 1rem 1rem;--bs-modal-header-border-color: #eeeeee;--bs-modal-header-border-width: 1px;--bs-modal-title-line-height: 1.5;--bs-modal-footer-gap: 0.5rem;--bs-modal-footer-bg: ;--bs-modal-footer-border-color: #eeeeee;--bs-modal-footer-border-width: 1px;position:fixed;top:0;left:0;z-index:var(--bs-modal-zindex);display:none;width:100%;height:100%;overflow-x:hidden;overflow-y:auto;outline:0}.modal-dialog{position:relative;width:auto;margin:var(--bs-modal-margin);pointer-events:none}.modal.fade .modal-dialog{transition:transform .3s ease-out;transform:translate(0, -50px)}@media(prefers-reduced-motion: reduce){.modal.fade .modal-dialog{transition:none}}.modal.show .modal-dialog{transform:none}.modal.modal-static .modal-dialog{transform:scale(1.02)}.modal-dialog-scrollable{height:calc(100% - var(--bs-modal-margin)*2)}.modal-dialog-scrollable .modal-content{max-height:100%;overflow:hidden}.modal-dialog-scrollable .modal-body{overflow-y:auto}.modal-dialog-centered{display:flex;display:-webkit-flex;align-items:center;-webkit-align-items:center;min-height:calc(100% - var(--bs-modal-margin)*2)}.modal-content{position:relative;display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;width:100%;color:var(--bs-modal-color);pointer-events:auto;background-color:var(--bs-modal-bg);background-clip:padding-box;border:var(--bs-modal-border-width) solid var(--bs-modal-border-color);border-radius:var(--bs-modal-border-radius);box-shadow:var(--bs-modal-box-shadow);outline:0}.modal-backdrop{--bs-backdrop-zindex: 1050;--bs-backdrop-bg: #000;--bs-backdrop-opacity: 0.5;position:fixed;top:0;left:0;z-index:var(--bs-backdrop-zindex);width:100vw;height:100vh;background-color:var(--bs-backdrop-bg)}.modal-backdrop.fade{opacity:0}.modal-backdrop.show{opacity:var(--bs-backdrop-opacity)}.modal-header{display:flex;display:-webkit-flex;flex-shrink:0;-webkit-flex-shrink:0;align-items:center;-webkit-align-items:center;justify-content:space-between;-webkit-justify-content:space-between;padding:var(--bs-modal-header-padding);border-bottom:var(--bs-modal-header-border-width) solid var(--bs-modal-header-border-color);border-top-left-radius:var(--bs-modal-inner-border-radius);border-top-right-radius:var(--bs-modal-inner-border-radius)}.modal-header .btn-close{padding:calc(var(--bs-modal-header-padding-y)*.5) calc(var(--bs-modal-header-padding-x)*.5);margin:calc(-0.5*var(--bs-modal-header-padding-y)) calc(-0.5*var(--bs-modal-header-padding-x)) calc(-0.5*var(--bs-modal-header-padding-y)) auto}.modal-title{margin-bottom:0;line-height:var(--bs-modal-title-line-height)}.modal-body{position:relative;flex:1 1 auto;-webkit-flex:1 1 auto;padding:var(--bs-modal-padding)}.modal-footer{display:flex;display:-webkit-flex;flex-shrink:0;-webkit-flex-shrink:0;flex-wrap:wrap;-webkit-flex-wrap:wrap;align-items:center;-webkit-align-items:center;justify-content:flex-end;-webkit-justify-content:flex-end;padding:calc(var(--bs-modal-padding) - var(--bs-modal-footer-gap)*.5);background-color:var(--bs-modal-footer-bg);border-top:var(--bs-modal-footer-border-width) solid var(--bs-modal-footer-border-color);border-bottom-right-radius:var(--bs-modal-inner-border-radius);border-bottom-left-radius:var(--bs-modal-inner-border-radius)}.modal-footer>*{margin:calc(var(--bs-modal-footer-gap)*.5)}@media(min-width: 576px){.modal{--bs-modal-margin: 1.75rem;--bs-modal-box-shadow: 0 0.5rem 1rem rgba(0, 0, 0, 0.15)}.modal-dialog{max-width:var(--bs-modal-width);margin-right:auto;margin-left:auto}.modal-sm{--bs-modal-width: 300px}}@media(min-width: 992px){.modal-lg,.modal-xl{--bs-modal-width: 800px}}@media(min-width: 1200px){.modal-xl{--bs-modal-width: 1140px}}.modal-fullscreen{width:100vw;max-width:none;height:100%;margin:0}.modal-fullscreen .modal-content{height:100%;border:0;border-radius:0}.modal-fullscreen .modal-header,.modal-fullscreen .modal-footer{border-radius:0}.modal-fullscreen .modal-body{overflow-y:auto}@media(max-width: 575.98px){.modal-fullscreen-sm-down{width:100vw;max-width:none;height:100%;margin:0}.modal-fullscreen-sm-down .modal-content{height:100%;border:0;border-radius:0}.modal-fullscreen-sm-down .modal-header,.modal-fullscreen-sm-down .modal-footer{border-radius:0}.modal-fullscreen-sm-down .modal-body{overflow-y:auto}}@media(max-width: 767.98px){.modal-fullscreen-md-down{width:100vw;max-width:none;height:100%;margin:0}.modal-fullscreen-md-down .modal-content{height:100%;border:0;border-radius:0}.modal-fullscreen-md-down .modal-header,.modal-fullscreen-md-down .modal-footer{border-radius:0}.modal-fullscreen-md-down .modal-body{overflow-y:auto}}@media(max-width: 991.98px){.modal-fullscreen-lg-down{width:100vw;max-width:none;height:100%;margin:0}.modal-fullscreen-lg-down .modal-content{height:100%;border:0;border-radius:0}.modal-fullscreen-lg-down .modal-header,.modal-fullscreen-lg-down .modal-footer{border-radius:0}.modal-fullscreen-lg-down .modal-body{overflow-y:auto}}@media(max-width: 1199.98px){.modal-fullscreen-xl-down{width:100vw;max-width:none;height:100%;margin:0}.modal-fullscreen-xl-down .modal-content{height:100%;border:0;border-radius:0}.modal-fullscreen-xl-down .modal-header,.modal-fullscreen-xl-down .modal-footer{border-radius:0}.modal-fullscreen-xl-down .modal-body{overflow-y:auto}}@media(max-width: 1399.98px){.modal-fullscreen-xxl-down{width:100vw;max-width:none;height:100%;margin:0}.modal-fullscreen-xxl-down .modal-content{height:100%;border:0;border-radius:0}.modal-fullscreen-xxl-down .modal-header,.modal-fullscreen-xxl-down .modal-footer{border-radius:0}.modal-fullscreen-xxl-down .modal-body{overflow-y:auto}}.tooltip{--bs-tooltip-zindex: 1080;--bs-tooltip-max-width: 200px;--bs-tooltip-padding-x: 0.5rem;--bs-tooltip-padding-y: 0.25rem;--bs-tooltip-margin: ;--bs-tooltip-font-size:0.875rem;--bs-tooltip-color: #fcfcfc;--bs-tooltip-bg: #000;--bs-tooltip-border-radius: 0.25rem;--bs-tooltip-opacity: 0.9;--bs-tooltip-arrow-width: 0.8rem;--bs-tooltip-arrow-height: 0.4rem;z-index:var(--bs-tooltip-zindex);display:block;margin:var(--bs-tooltip-margin);font-family:"Open Sans",-apple-system,BlinkMacSystemFont,"Segoe UI",Roboto,"Helvetica Neue",Arial,sans-serif,"Apple Color Emoji","Segoe UI Emoji","Segoe UI 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.tooltip-arrow,.bs-tooltip-auto[data-popper-placement^=right] .tooltip-arrow{left:calc(-1*var(--bs-tooltip-arrow-height));width:var(--bs-tooltip-arrow-height);height:var(--bs-tooltip-arrow-width)}.bs-tooltip-end .tooltip-arrow::before,.bs-tooltip-auto[data-popper-placement^=right] .tooltip-arrow::before{right:-1px;border-width:calc(var(--bs-tooltip-arrow-width)*.5) var(--bs-tooltip-arrow-height) calc(var(--bs-tooltip-arrow-width)*.5) 0;border-right-color:var(--bs-tooltip-bg)}.bs-tooltip-bottom .tooltip-arrow,.bs-tooltip-auto[data-popper-placement^=bottom] .tooltip-arrow{top:calc(-1*var(--bs-tooltip-arrow-height))}.bs-tooltip-bottom .tooltip-arrow::before,.bs-tooltip-auto[data-popper-placement^=bottom] .tooltip-arrow::before{bottom:-1px;border-width:0 calc(var(--bs-tooltip-arrow-width)*.5) var(--bs-tooltip-arrow-height);border-bottom-color:var(--bs-tooltip-bg)}.bs-tooltip-start .tooltip-arrow,.bs-tooltip-auto[data-popper-placement^=left] .tooltip-arrow{right:calc(-1*var(--bs-tooltip-arrow-height));width:var(--bs-tooltip-arrow-height);height:var(--bs-tooltip-arrow-width)}.bs-tooltip-start .tooltip-arrow::before,.bs-tooltip-auto[data-popper-placement^=left] .tooltip-arrow::before{left:-1px;border-width:calc(var(--bs-tooltip-arrow-width)*.5) 0 calc(var(--bs-tooltip-arrow-width)*.5) var(--bs-tooltip-arrow-height);border-left-color:var(--bs-tooltip-bg)}.tooltip-inner{max-width:var(--bs-tooltip-max-width);padding:var(--bs-tooltip-padding-y) var(--bs-tooltip-padding-x);color:var(--bs-tooltip-color);text-align:center;background-color:var(--bs-tooltip-bg);border-radius:var(--bs-tooltip-border-radius)}.popover{--bs-popover-zindex: 1070;--bs-popover-max-width: 276px;--bs-popover-font-size:0.875rem;--bs-popover-bg: #fcfcfc;--bs-popover-border-width: 1px;--bs-popover-border-color: #eeeeee;--bs-popover-border-radius: 0.5rem;--bs-popover-inner-border-radius: calc(0.5rem - 1px);--bs-popover-box-shadow: 0 0.5rem 1rem rgba(0, 0, 0, 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i=`scroll${e[0].toUpperCase()+e.slice(1)}`;this._queueCallback((()=>{this._isTransitioning=!1,this._element.classList.remove(Mt),this._element.classList.add(Pt,Nt),this._element.style[e]="",N.trigger(this._element,St)}),this._element,!0),this._element.style[e]=`${this._element[i]}px`}hide(){if(this._isTransitioning||!this._isShown())return;if(N.trigger(this._element,Dt).defaultPrevented)return;const t=this._getDimension();this._element.style[t]=`${this._element.getBoundingClientRect()[t]}px`,d(this._element),this._element.classList.add(Mt),this._element.classList.remove(Pt,Nt);for(const t of this._triggerArray){const e=z.getElementFromSelector(t);e&&!this._isShown(e)&&this._addAriaAndCollapsedClass([t],!1)}this._isTransitioning=!0,this._element.style[t]="",this._queueCallback((()=>{this._isTransitioning=!1,this._element.classList.remove(Mt),this._element.classList.add(Pt),N.trigger(this._element,$t)}),this._element,!0)}_isShown(t=this._element){return 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s(t){i.add(t.name),[].concat(t.requires||[],t.requiresIfExists||[]).forEach((function(t){if(!i.has(t)){var n=e.get(t);n&&s(n)}})),n.push(t)}return t.forEach((function(t){e.set(t.name,t)})),t.forEach((function(t){i.has(t.name)||s(t)})),n}var fi={placement:"bottom",modifiers:[],strategy:"absolute"};function pi(){for(var t=arguments.length,e=new Array(t),i=0;iNumber.parseInt(t,10))):"function"==typeof t?e=>t(e,this._element):t}_getPopperConfig(){const t={placement:this._getPlacement(),modifiers:[{name:"preventOverflow",options:{boundary:this._config.boundary}},{name:"offset",options:{offset:this._getOffset()}}]};return(this._inNavbar||"static"===this._config.display)&&(F.setDataAttribute(this._menu,"popper","static"),t.modifiers=[{name:"applyStyles",enabled:!1}]),{...t,...g(this._config.popperConfig,[t])}}_selectMenuItem({key:t,target:e}){const i=z.find(".dropdown-menu 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e=/input|textarea/i.test(t.target.tagName),i="Escape"===t.key,n=[Ei,Ti].includes(t.key);if(!n&&!i)return;if(e&&!i)return;t.preventDefault();const s=this.matches(Ii)?this:z.prev(this,Ii)[0]||z.next(this,Ii)[0]||z.findOne(Ii,t.delegateTarget.parentNode),o=qi.getOrCreateInstance(s);if(n)return t.stopPropagation(),o.show(),void o._selectMenuItem(t);o._isShown()&&(t.stopPropagation(),o.hide(),s.focus())}}N.on(document,Si,Ii,qi.dataApiKeydownHandler),N.on(document,Si,Pi,qi.dataApiKeydownHandler),N.on(document,Li,qi.clearMenus),N.on(document,Di,qi.clearMenus),N.on(document,Li,Ii,(function(t){t.preventDefault(),qi.getOrCreateInstance(this).toggle()})),m(qi);const Vi="backdrop",Ki="show",Qi=`mousedown.bs.${Vi}`,Xi={className:"modal-backdrop",clickCallback:null,isAnimated:!1,isVisible:!0,rootElement:"body"},Yi={className:"string",clickCallback:"(function|null)",isAnimated:"boolean",isVisible:"boolean",rootElement:"(element|string)"};class Ui extends H{constructor(t){super(),this._config=this._getConfig(t),this._isAppended=!1,this._element=null}static get Default(){return Xi}static get DefaultType(){return Yi}static get NAME(){return Vi}show(t){if(!this._config.isVisible)return void g(t);this._append();const e=this._getElement();this._config.isAnimated&&d(e),e.classList.add(Ki),this._emulateAnimation((()=>{g(t)}))}hide(t){this._config.isVisible?(this._getElement().classList.remove(Ki),this._emulateAnimation((()=>{this.dispose(),g(t)}))):g(t)}dispose(){this._isAppended&&(N.off(this._element,Qi),this._element.remove(),this._isAppended=!1)}_getElement(){if(!this._element){const t=document.createElement("div");t.className=this._config.className,this._config.isAnimated&&t.classList.add("fade"),this._element=t}return this._element}_configAfterMerge(t){return t.rootElement=r(t.rootElement),t}_append(){if(this._isAppended)return;const t=this._getElement();this._config.rootElement.append(t),N.on(t,Qi,(()=>{g(this._config.clickCallback)})),this._isAppended=!0}_emulateAnimation(t){_(t,this._getElement(),this._config.isAnimated)}}const Gi=".bs.focustrap",Ji=`focusin${Gi}`,Zi=`keydown.tab${Gi}`,tn="backward",en={autofocus:!0,trapElement:null},nn={autofocus:"boolean",trapElement:"element"};class sn extends H{constructor(t){super(),this._config=this._getConfig(t),this._isActive=!1,this._lastTabNavDirection=null}static get Default(){return en}static get DefaultType(){return nn}static get NAME(){return"focustrap"}activate(){this._isActive||(this._config.autofocus&&this._config.trapElement.focus(),N.off(document,Gi),N.on(document,Ji,(t=>this._handleFocusin(t))),N.on(document,Zi,(t=>this._handleKeydown(t))),this._isActive=!0)}deactivate(){this._isActive&&(this._isActive=!1,N.off(document,Gi))}_handleFocusin(t){const{trapElement:e}=this._config;if(t.target===document||t.target===e||e.contains(t.target))return;const i=z.focusableChildren(e);0===i.length?e.focus():this._lastTabNavDirection===tn?i[i.length-1].focus():i[0].focus()}_handleKeydown(t){"Tab"===t.key&&(this._lastTabNavDirection=t.shiftKey?tn:"forward")}}const on=".fixed-top, .fixed-bottom, .is-fixed, .sticky-top",rn=".sticky-top",an="padding-right",ln="margin-right";class cn{constructor(){this._element=document.body}getWidth(){const t=document.documentElement.clientWidth;return Math.abs(window.innerWidth-t)}hide(){const t=this.getWidth();this._disableOverFlow(),this._setElementAttributes(this._element,an,(e=>e+t)),this._setElementAttributes(on,an,(e=>e+t)),this._setElementAttributes(rn,ln,(e=>e-t))}reset(){this._resetElementAttributes(this._element,"overflow"),this._resetElementAttributes(this._element,an),this._resetElementAttributes(on,an),this._resetElementAttributes(rn,ln)}isOverflowing(){return this.getWidth()>0}_disableOverFlow(){this._saveInitialAttribute(this._element,"overflow"),this._element.style.overflow="hidden"}_setElementAttributes(t,e,i){const n=this.getWidth();this._applyManipulationCallback(t,(t=>{if(t!==this._element&&window.innerWidth>t.clientWidth+n)return;this._saveInitialAttribute(t,e);const s=window.getComputedStyle(t).getPropertyValue(e);t.style.setProperty(e,`${i(Number.parseFloat(s))}px`)}))}_saveInitialAttribute(t,e){const i=t.style.getPropertyValue(e);i&&F.setDataAttribute(t,e,i)}_resetElementAttributes(t,e){this._applyManipulationCallback(t,(t=>{const i=F.getDataAttribute(t,e);null!==i?(F.removeDataAttribute(t,e),t.style.setProperty(e,i)):t.style.removeProperty(e)}))}_applyManipulationCallback(t,e){if(o(t))e(t);else for(const i of z.find(t,this._element))e(i)}}const hn=".bs.modal",dn=`hide${hn}`,un=`hidePrevented${hn}`,fn=`hidden${hn}`,pn=`show${hn}`,mn=`shown${hn}`,gn=`resize${hn}`,_n=`click.dismiss${hn}`,bn=`mousedown.dismiss${hn}`,vn=`keydown.dismiss${hn}`,yn=`click${hn}.data-api`,wn="modal-open",An="show",En="modal-static",Tn={backdrop:!0,focus:!0,keyboard:!0},Cn={backdrop:"(boolean|string)",focus:"boolean",keyboard:"boolean"};class On extends W{constructor(t,e){super(t,e),this._dialog=z.findOne(".modal-dialog",this._element),this._backdrop=this._initializeBackDrop(),this._focustrap=this._initializeFocusTrap(),this._isShown=!1,this._isTransitioning=!1,this._scrollBar=new cn,this._addEventListeners()}static get Default(){return Tn}static get DefaultType(){return Cn}static get NAME(){return"modal"}toggle(t){return this._isShown?this.hide():this.show(t)}show(t){this._isShown||this._isTransitioning||N.trigger(this._element,pn,{relatedTarget:t}).defaultPrevented||(this._isShown=!0,this._isTransitioning=!0,this._scrollBar.hide(),document.body.classList.add(wn),this._adjustDialog(),this._backdrop.show((()=>this._showElement(t))))}hide(){this._isShown&&!this._isTransitioning&&(N.trigger(this._element,dn).defaultPrevented||(this._isShown=!1,this._isTransitioning=!0,this._focustrap.deactivate(),this._element.classList.remove(An),this._queueCallback((()=>this._hideModal()),this._element,this._isAnimated())))}dispose(){N.off(window,hn),N.off(this._dialog,hn),this._backdrop.dispose(),this._focustrap.deactivate(),super.dispose()}handleUpdate(){this._adjustDialog()}_initializeBackDrop(){return new Ui({isVisible:Boolean(this._config.backdrop),isAnimated:this._isAnimated()})}_initializeFocusTrap(){return new sn({trapElement:this._element})}_showElement(t){document.body.contains(this._element)||document.body.append(this._element),this._element.style.display="block",this._element.removeAttribute("aria-hidden"),this._element.setAttribute("aria-modal",!0),this._element.setAttribute("role","dialog"),this._element.scrollTop=0;const e=z.findOne(".modal-body",this._dialog);e&&(e.scrollTop=0),d(this._element),this._element.classList.add(An),this._queueCallback((()=>{this._config.focus&&this._focustrap.activate(),this._isTransitioning=!1,N.trigger(this._element,mn,{relatedTarget:t})}),this._dialog,this._isAnimated())}_addEventListeners(){N.on(this._element,vn,(t=>{"Escape"===t.key&&(this._config.keyboard?this.hide():this._triggerBackdropTransition())})),N.on(window,gn,(()=>{this._isShown&&!this._isTransitioning&&this._adjustDialog()})),N.on(this._element,bn,(t=>{N.one(this._element,_n,(e=>{this._element===t.target&&this._element===e.target&&("static"!==this._config.backdrop?this._config.backdrop&&this.hide():this._triggerBackdropTransition())}))}))}_hideModal(){this._element.style.display="none",this._element.setAttribute("aria-hidden",!0),this._element.removeAttribute("aria-modal"),this._element.removeAttribute("role"),this._isTransitioning=!1,this._backdrop.hide((()=>{document.body.classList.remove(wn),this._resetAdjustments(),this._scrollBar.reset(),N.trigger(this._element,fn)}))}_isAnimated(){return this._element.classList.contains("fade")}_triggerBackdropTransition(){if(N.trigger(this._element,un).defaultPrevented)return;const t=this._element.scrollHeight>document.documentElement.clientHeight,e=this._element.style.overflowY;"hidden"===e||this._element.classList.contains(En)||(t||(this._element.style.overflowY="hidden"),this._element.classList.add(En),this._queueCallback((()=>{this._element.classList.remove(En),this._queueCallback((()=>{this._element.style.overflowY=e}),this._dialog)}),this._dialog),this._element.focus())}_adjustDialog(){const t=this._element.scrollHeight>document.documentElement.clientHeight,e=this._scrollBar.getWidth(),i=e>0;if(i&&!t){const t=p()?"paddingLeft":"paddingRight";this._element.style[t]=`${e}px`}if(!i&&t){const t=p()?"paddingRight":"paddingLeft";this._element.style[t]=`${e}px`}}_resetAdjustments(){this._element.style.paddingLeft="",this._element.style.paddingRight=""}static jQueryInterface(t,e){return this.each((function(){const i=On.getOrCreateInstance(this,t);if("string"==typeof t){if(void 0===i[t])throw new TypeError(`No method named "${t}"`);i[t](e)}}))}}N.on(document,yn,'[data-bs-toggle="modal"]',(function(t){const e=z.getElementFromSelector(this);["A","AREA"].includes(this.tagName)&&t.preventDefault(),N.one(e,pn,(t=>{t.defaultPrevented||N.one(e,fn,(()=>{a(this)&&this.focus()}))}));const i=z.findOne(".modal.show");i&&On.getInstance(i).hide(),On.getOrCreateInstance(e).toggle(this)})),R(On),m(On);const xn=".bs.offcanvas",kn=".data-api",Ln=`load${xn}${kn}`,Sn="show",Dn="showing",$n="hiding",In=".offcanvas.show",Nn=`show${xn}`,Pn=`shown${xn}`,Mn=`hide${xn}`,jn=`hidePrevented${xn}`,Fn=`hidden${xn}`,Hn=`resize${xn}`,Wn=`click${xn}${kn}`,Bn=`keydown.dismiss${xn}`,zn={backdrop:!0,keyboard:!0,scroll:!1},Rn={backdrop:"(boolean|string)",keyboard:"boolean",scroll:"boolean"};class qn extends W{constructor(t,e){super(t,e),this._isShown=!1,this._backdrop=this._initializeBackDrop(),this._focustrap=this._initializeFocusTrap(),this._addEventListeners()}static get Default(){return zn}static get DefaultType(){return Rn}static get NAME(){return"offcanvas"}toggle(t){return this._isShown?this.hide():this.show(t)}show(t){this._isShown||N.trigger(this._element,Nn,{relatedTarget:t}).defaultPrevented||(this._isShown=!0,this._backdrop.show(),this._config.scroll||(new cn).hide(),this._element.setAttribute("aria-modal",!0),this._element.setAttribute("role","dialog"),this._element.classList.add(Dn),this._queueCallback((()=>{this._config.scroll&&!this._config.backdrop||this._focustrap.activate(),this._element.classList.add(Sn),this._element.classList.remove(Dn),N.trigger(this._element,Pn,{relatedTarget:t})}),this._element,!0))}hide(){this._isShown&&(N.trigger(this._element,Mn).defaultPrevented||(this._focustrap.deactivate(),this._element.blur(),this._isShown=!1,this._element.classList.add($n),this._backdrop.hide(),this._queueCallback((()=>{this._element.classList.remove(Sn,$n),this._element.removeAttribute("aria-modal"),this._element.removeAttribute("role"),this._config.scroll||(new cn).reset(),N.trigger(this._element,Fn)}),this._element,!0)))}dispose(){this._backdrop.dispose(),this._focustrap.deactivate(),super.dispose()}_initializeBackDrop(){const t=Boolean(this._config.backdrop);return new Ui({className:"offcanvas-backdrop",isVisible:t,isAnimated:!0,rootElement:this._element.parentNode,clickCallback:t?()=>{"static"!==this._config.backdrop?this.hide():N.trigger(this._element,jn)}:null})}_initializeFocusTrap(){return new sn({trapElement:this._element})}_addEventListeners(){N.on(this._element,Bn,(t=>{"Escape"===t.key&&(this._config.keyboard?this.hide():N.trigger(this._element,jn))}))}static jQueryInterface(t){return this.each((function(){const e=qn.getOrCreateInstance(this,t);if("string"==typeof t){if(void 0===e[t]||t.startsWith("_")||"constructor"===t)throw new TypeError(`No method named "${t}"`);e[t](this)}}))}}N.on(document,Wn,'[data-bs-toggle="offcanvas"]',(function(t){const e=z.getElementFromSelector(this);if(["A","AREA"].includes(this.tagName)&&t.preventDefault(),l(this))return;N.one(e,Fn,(()=>{a(this)&&this.focus()}));const i=z.findOne(In);i&&i!==e&&qn.getInstance(i).hide(),qn.getOrCreateInstance(e).toggle(this)})),N.on(window,Ln,(()=>{for(const t of z.find(In))qn.getOrCreateInstance(t).show()})),N.on(window,Hn,(()=>{for(const t of z.find("[aria-modal][class*=show][class*=offcanvas-]"))"fixed"!==getComputedStyle(t).position&&qn.getOrCreateInstance(t).hide()})),R(qn),m(qn);const Vn={"*":["class","dir","id","lang","role",/^aria-[\w-]*$/i],a:["target","href","title","rel"],area:[],b:[],br:[],col:[],code:[],div:[],em:[],hr:[],h1:[],h2:[],h3:[],h4:[],h5:[],h6:[],i:[],img:["src","srcset","alt","title","width","height"],li:[],ol:[],p:[],pre:[],s:[],small:[],span:[],sub:[],sup:[],strong:[],u:[],ul:[]},Kn=new Set(["background","cite","href","itemtype","longdesc","poster","src","xlink:href"]),Qn=/^(?!javascript:)(?:[a-z0-9+.-]+:|[^&:/?#]*(?:[/?#]|$))/i,Xn=(t,e)=>{const i=t.nodeName.toLowerCase();return e.includes(i)?!Kn.has(i)||Boolean(Qn.test(t.nodeValue)):e.filter((t=>t instanceof RegExp)).some((t=>t.test(i)))},Yn={allowList:Vn,content:{},extraClass:"",html:!1,sanitize:!0,sanitizeFn:null,template:"
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")),e}_typeCheckConfig(t){super._typeCheckConfig(t),this._checkContent(t.content)}_checkContent(t){for(const[e,i]of Object.entries(t))super._typeCheckConfig({selector:e,entry:i},Gn)}_setContent(t,e,i){const n=z.findOne(i,t);n&&((e=this._resolvePossibleFunction(e))?o(e)?this._putElementInTemplate(r(e),n):this._config.html?n.innerHTML=this._maybeSanitize(e):n.textContent=e:n.remove())}_maybeSanitize(t){return this._config.sanitize?function(t,e,i){if(!t.length)return t;if(i&&"function"==typeof i)return i(t);const n=(new window.DOMParser).parseFromString(t,"text/html"),s=[].concat(...n.body.querySelectorAll("*"));for(const t of s){const i=t.nodeName.toLowerCase();if(!Object.keys(e).includes(i)){t.remove();continue}const n=[].concat(...t.attributes),s=[].concat(e["*"]||[],e[i]||[]);for(const e of n)Xn(e,s)||t.removeAttribute(e.nodeName)}return n.body.innerHTML}(t,this._config.allowList,this._config.sanitizeFn):t}_resolvePossibleFunction(t){return g(t,[this])}_putElementInTemplate(t,e){if(this._config.html)return e.innerHTML="",void e.append(t);e.textContent=t.textContent}}const Zn=new Set(["sanitize","allowList","sanitizeFn"]),ts="fade",es="show",is=".modal",ns="hide.bs.modal",ss="hover",os="focus",rs={AUTO:"auto",TOP:"top",RIGHT:p()?"left":"right",BOTTOM:"bottom",LEFT:p()?"right":"left"},as={allowList:Vn,animation:!0,boundary:"clippingParents",container:!1,customClass:"",delay:0,fallbackPlacements:["top","right","bottom","left"],html:!1,offset:[0,6],placement:"top",popperConfig:null,sanitize:!0,sanitizeFn:null,selector:!1,template:'',title:"",trigger:"hover focus"},ls={allowList:"object",animation:"boolean",boundary:"(string|element)",container:"(string|element|boolean)",customClass:"(string|function)",delay:"(number|object)",fallbackPlacements:"array",html:"boolean",offset:"(array|string|function)",placement:"(string|function)",popperConfig:"(null|object|function)",sanitize:"boolean",sanitizeFn:"(null|function)",selector:"(string|boolean)",template:"string",title:"(string|element|function)",trigger:"string"};class cs extends W{constructor(t,e){if(void 0===vi)throw new TypeError("Bootstrap's tooltips require Popper (https://popper.js.org)");super(t,e),this._isEnabled=!0,this._timeout=0,this._isHovered=null,this._activeTrigger={},this._popper=null,this._templateFactory=null,this._newContent=null,this.tip=null,this._setListeners(),this._config.selector||this._fixTitle()}static get Default(){return as}static get DefaultType(){return ls}static get NAME(){return"tooltip"}enable(){this._isEnabled=!0}disable(){this._isEnabled=!1}toggleEnabled(){this._isEnabled=!this._isEnabled}toggle(){this._isEnabled&&(this._activeTrigger.click=!this._activeTrigger.click,this._isShown()?this._leave():this._enter())}dispose(){clearTimeout(this._timeout),N.off(this._element.closest(is),ns,this._hideModalHandler),this._element.getAttribute("data-bs-original-title")&&this._element.setAttribute("title",this._element.getAttribute("data-bs-original-title")),this._disposePopper(),super.dispose()}show(){if("none"===this._element.style.display)throw new Error("Please use show on visible elements");if(!this._isWithContent()||!this._isEnabled)return;const t=N.trigger(this._element,this.constructor.eventName("show")),e=(c(this._element)||this._element.ownerDocument.documentElement).contains(this._element);if(t.defaultPrevented||!e)return;this._disposePopper();const i=this._getTipElement();this._element.setAttribute("aria-describedby",i.getAttribute("id"));const{container:n}=this._config;if(this._element.ownerDocument.documentElement.contains(this.tip)||(n.append(i),N.trigger(this._element,this.constructor.eventName("inserted"))),this._popper=this._createPopper(i),i.classList.add(es),"ontouchstart"in document.documentElement)for(const t of[].concat(...document.body.children))N.on(t,"mouseover",h);this._queueCallback((()=>{N.trigger(this._element,this.constructor.eventName("shown")),!1===this._isHovered&&this._leave(),this._isHovered=!1}),this.tip,this._isAnimated())}hide(){if(this._isShown()&&!N.trigger(this._element,this.constructor.eventName("hide")).defaultPrevented){if(this._getTipElement().classList.remove(es),"ontouchstart"in document.documentElement)for(const t of[].concat(...document.body.children))N.off(t,"mouseover",h);this._activeTrigger.click=!1,this._activeTrigger[os]=!1,this._activeTrigger[ss]=!1,this._isHovered=null,this._queueCallback((()=>{this._isWithActiveTrigger()||(this._isHovered||this._disposePopper(),this._element.removeAttribute("aria-describedby"),N.trigger(this._element,this.constructor.eventName("hidden")))}),this.tip,this._isAnimated())}}update(){this._popper&&this._popper.update()}_isWithContent(){return Boolean(this._getTitle())}_getTipElement(){return this.tip||(this.tip=this._createTipElement(this._newContent||this._getContentForTemplate())),this.tip}_createTipElement(t){const e=this._getTemplateFactory(t).toHtml();if(!e)return null;e.classList.remove(ts,es),e.classList.add(`bs-${this.constructor.NAME}-auto`);const i=(t=>{do{t+=Math.floor(1e6*Math.random())}while(document.getElementById(t));return t})(this.constructor.NAME).toString();return e.setAttribute("id",i),this._isAnimated()&&e.classList.add(ts),e}setContent(t){this._newContent=t,this._isShown()&&(this._disposePopper(),this.show())}_getTemplateFactory(t){return this._templateFactory?this._templateFactory.changeContent(t):this._templateFactory=new Jn({...this._config,content:t,extraClass:this._resolvePossibleFunction(this._config.customClass)}),this._templateFactory}_getContentForTemplate(){return{".tooltip-inner":this._getTitle()}}_getTitle(){return this._resolvePossibleFunction(this._config.title)||this._element.getAttribute("data-bs-original-title")}_initializeOnDelegatedTarget(t){return this.constructor.getOrCreateInstance(t.delegateTarget,this._getDelegateConfig())}_isAnimated(){return this._config.animation||this.tip&&this.tip.classList.contains(ts)}_isShown(){return this.tip&&this.tip.classList.contains(es)}_createPopper(t){const e=g(this._config.placement,[this,t,this._element]),i=rs[e.toUpperCase()];return bi(this._element,t,this._getPopperConfig(i))}_getOffset(){const{offset:t}=this._config;return"string"==typeof t?t.split(",").map((t=>Number.parseInt(t,10))):"function"==typeof t?e=>t(e,this._element):t}_resolvePossibleFunction(t){return g(t,[this._element])}_getPopperConfig(t){const e={placement:t,modifiers:[{name:"flip",options:{fallbackPlacements:this._config.fallbackPlacements}},{name:"offset",options:{offset:this._getOffset()}},{name:"preventOverflow",options:{boundary:this._config.boundary}},{name:"arrow",options:{element:`.${this.constructor.NAME}-arrow`}},{name:"preSetPlacement",enabled:!0,phase:"beforeMain",fn:t=>{this._getTipElement().setAttribute("data-popper-placement",t.state.placement)}}]};return{...e,...g(this._config.popperConfig,[e])}}_setListeners(){const t=this._config.trigger.split(" ");for(const e of t)if("click"===e)N.on(this._element,this.constructor.eventName("click"),this._config.selector,(t=>{this._initializeOnDelegatedTarget(t).toggle()}));else if("manual"!==e){const t=e===ss?this.constructor.eventName("mouseenter"):this.constructor.eventName("focusin"),i=e===ss?this.constructor.eventName("mouseleave"):this.constructor.eventName("focusout");N.on(this._element,t,this._config.selector,(t=>{const e=this._initializeOnDelegatedTarget(t);e._activeTrigger["focusin"===t.type?os:ss]=!0,e._enter()})),N.on(this._element,i,this._config.selector,(t=>{const e=this._initializeOnDelegatedTarget(t);e._activeTrigger["focusout"===t.type?os:ss]=e._element.contains(t.relatedTarget),e._leave()}))}this._hideModalHandler=()=>{this._element&&this.hide()},N.on(this._element.closest(is),ns,this._hideModalHandler)}_fixTitle(){const t=this._element.getAttribute("title");t&&(this._element.getAttribute("aria-label")||this._element.textContent.trim()||this._element.setAttribute("aria-label",t),this._element.setAttribute("data-bs-original-title",t),this._element.removeAttribute("title"))}_enter(){this._isShown()||this._isHovered?this._isHovered=!0:(this._isHovered=!0,this._setTimeout((()=>{this._isHovered&&this.show()}),this._config.delay.show))}_leave(){this._isWithActiveTrigger()||(this._isHovered=!1,this._setTimeout((()=>{this._isHovered||this.hide()}),this._config.delay.hide))}_setTimeout(t,e){clearTimeout(this._timeout),this._timeout=setTimeout(t,e)}_isWithActiveTrigger(){return Object.values(this._activeTrigger).includes(!0)}_getConfig(t){const e=F.getDataAttributes(this._element);for(const t of Object.keys(e))Zn.has(t)&&delete e[t];return t={...e,..."object"==typeof t&&t?t:{}},t=this._mergeConfigObj(t),t=this._configAfterMerge(t),this._typeCheckConfig(t),t}_configAfterMerge(t){return t.container=!1===t.container?document.body:r(t.container),"number"==typeof t.delay&&(t.delay={show:t.delay,hide:t.delay}),"number"==typeof t.title&&(t.title=t.title.toString()),"number"==typeof t.content&&(t.content=t.content.toString()),t}_getDelegateConfig(){const t={};for(const[e,i]of Object.entries(this._config))this.constructor.Default[e]!==i&&(t[e]=i);return t.selector=!1,t.trigger="manual",t}_disposePopper(){this._popper&&(this._popper.destroy(),this._popper=null),this.tip&&(this.tip.remove(),this.tip=null)}static jQueryInterface(t){return this.each((function(){const e=cs.getOrCreateInstance(this,t);if("string"==typeof t){if(void 0===e[t])throw new TypeError(`No method named "${t}"`);e[t]()}}))}}m(cs);const hs={...cs.Default,content:"",offset:[0,8],placement:"right",template:'',trigger:"click"},ds={...cs.DefaultType,content:"(null|string|element|function)"};class us extends cs{static get Default(){return hs}static get DefaultType(){return ds}static get 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e=this._observableSections.get(t.target.hash);if(e){t.preventDefault();const i=this._rootElement||window,n=e.offsetTop-this._element.offsetTop;if(i.scrollTo)return void i.scrollTo({top:n,behavior:"smooth"});i.scrollTop=n}})))}_getNewObserver(){const t={root:this._rootElement,threshold:this._config.threshold,rootMargin:this._config.rootMargin};return new IntersectionObserver((t=>this._observerCallback(t)),t)}_observerCallback(t){const e=t=>this._targetLinks.get(`#${t.target.id}`),i=t=>{this._previousScrollData.visibleEntryTop=t.target.offsetTop,this._process(e(t))},n=(this._rootElement||document.documentElement).scrollTop,s=n>=this._previousScrollData.parentScrollTop;this._previousScrollData.parentScrollTop=n;for(const o of t){if(!o.isIntersecting){this._activeTarget=null,this._clearActiveClass(e(o));continue}const t=o.target.offsetTop>=this._previousScrollData.visibleEntryTop;if(s&&t){if(i(o),!n)return}else s||t||i(o)}}_initializeTargetsAndObservables(){this._targetLinks=new 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c("cut"),t};function o(t,e){var n,o,t=(n=t,o="rtl"===document.documentElement.getAttribute("dir"),(t=document.createElement("textarea")).style.fontSize="12pt",t.style.border="0",t.style.padding="0",t.style.margin="0",t.style.position="absolute",t.style[o?"right":"left"]="-9999px",o=window.pageYOffset||document.documentElement.scrollTop,t.style.top="".concat(o,"px"),t.setAttribute("readonly",""),t.value=n,t);return e.container.appendChild(t),e=r()(t),c("copy"),t.remove(),e}var f=function(t){var e=1.container-fluid.crosstalk-bscols{margin-left:auto;margin-right:auto}.crosstalk-input-checkboxgroup .crosstalk-options-group .crosstalk-options-column{display:inline-block;padding-right:12px;vertical-align:top}@media only screen and (max-width: 480px){.crosstalk-input-checkboxgroup .crosstalk-options-group .crosstalk-options-column{display:block;padding-right:inherit}}.crosstalk-input{margin-bottom:15px}.crosstalk-input .control-label{margin-bottom:0;vertical-align:middle}.crosstalk-input input[type="checkbox"]{margin:4px 0 0;margin-top:1px;line-height:normal}.crosstalk-input .checkbox{position:relative;display:block;margin-top:10px;margin-bottom:10px}.crosstalk-input .checkbox>label{padding-left:20px;margin-bottom:0;font-weight:400;cursor:pointer}.crosstalk-input .checkbox input[type="checkbox"],.crosstalk-input .checkbox-inline input[type="checkbox"]{position:absolute;margin-top:2px;margin-left:-20px}.crosstalk-input .checkbox+.checkbox{margin-top:-5px}.crosstalk-input .checkbox-inline{position:relative;display:inline-block;padding-left:20px;margin-bottom:0;font-weight:400;vertical-align:middle;cursor:pointer}.crosstalk-input .checkbox-inline+.checkbox-inline{margin-top:0;margin-left:10px} diff --git a/src/site_libs/crosstalk-1.2.1/js/crosstalk.js b/src/site_libs/crosstalk-1.2.1/js/crosstalk.js deleted file mode 100644 index fd9eb53..0000000 --- a/src/site_libs/crosstalk-1.2.1/js/crosstalk.js +++ /dev/null @@ -1,1474 +0,0 @@ -(function(){function e(t,n,r){function s(o,u){if(!n[o]){if(!t[o]){var a=typeof require=="function"&&require;if(!u&&a)return a(o,!0);if(i)return i(o,!0);var f=new Error("Cannot find module '"+o+"'");throw f.code="MODULE_NOT_FOUND",f}var l=n[o]={exports:{}};t[o][0].call(l.exports,function(e){var n=t[o][1][e];return s(n?n:e)},l,l.exports,e,t,n,r)}return n[o].exports}var i=typeof require=="function"&&require;for(var o=0;o b) { - return 1; - } -} - -/** - * @private - */ - -var FilterSet = function () { - function FilterSet() { - _classCallCheck(this, FilterSet); - - this.reset(); - } - - _createClass(FilterSet, [{ - key: "reset", - value: function reset() { - // Key: handle ID, Value: array of selected keys, or null - this._handles = {}; - // Key: key string, Value: count of handles that include it - this._keys = {}; - this._value = null; - this._activeHandles = 0; - } - }, { - key: "update", - value: function update(handleId, keys) { - if (keys !== null) { - keys = keys.slice(0); // clone before sorting - keys.sort(naturalComparator); - } - - var _diffSortedLists = (0, _util.diffSortedLists)(this._handles[handleId], keys), - added = _diffSortedLists.added, - removed = _diffSortedLists.removed; - - this._handles[handleId] = keys; - - for (var i = 0; i < added.length; i++) { - this._keys[added[i]] = (this._keys[added[i]] || 0) + 1; - } - for (var _i = 0; _i < removed.length; _i++) { - this._keys[removed[_i]]--; - } - - this._updateValue(keys); - } - - /** - * @param {string[]} keys Sorted array of strings that indicate - * a superset of possible keys. - * @private - */ - - }, { - key: "_updateValue", - value: function _updateValue() { - var keys = arguments.length > 0 && arguments[0] !== undefined ? arguments[0] : this._allKeys; - - var handleCount = Object.keys(this._handles).length; - if (handleCount === 0) { - this._value = null; - } else { - this._value = []; - for (var i = 0; i < keys.length; i++) { - var count = this._keys[keys[i]]; - if (count === handleCount) { - this._value.push(keys[i]); - } - } - } - } - }, { - key: "clear", - value: function clear(handleId) { - if (typeof this._handles[handleId] === "undefined") { - return; - } - - var keys = this._handles[handleId]; - if (!keys) { - keys = []; - } - - for (var i = 0; i < keys.length; i++) { - this._keys[keys[i]]--; - } - delete this._handles[handleId]; - - this._updateValue(); - } - }, { - key: "value", - get: function get() { - return this._value; - } - }, { - key: "_allKeys", - get: function get() { - var allKeys = Object.keys(this._keys); - allKeys.sort(naturalComparator); - return allKeys; - } - }]); - - return FilterSet; -}(); - -exports.default = FilterSet; - -},{"./util":11}],4:[function(require,module,exports){ -(function (global){ -"use strict"; - -Object.defineProperty(exports, "__esModule", { - value: true -}); - -var _createClass = function () { function defineProperties(target, props) { for (var i = 0; i < props.length; i++) { var descriptor = props[i]; descriptor.enumerable = descriptor.enumerable || false; descriptor.configurable = true; if ("value" in descriptor) descriptor.writable = true; Object.defineProperty(target, descriptor.key, descriptor); } } return function (Constructor, protoProps, staticProps) { if (protoProps) defineProperties(Constructor.prototype, protoProps); if (staticProps) defineProperties(Constructor, staticProps); return Constructor; }; }(); - -var _typeof = typeof Symbol === "function" && typeof Symbol.iterator === "symbol" ? function (obj) { return typeof obj; } : function (obj) { return obj && typeof Symbol === "function" && obj.constructor === Symbol && obj !== Symbol.prototype ? "symbol" : typeof obj; }; - -exports.default = group; - -var _var2 = require("./var"); - -var _var3 = _interopRequireDefault(_var2); - -function _interopRequireDefault(obj) { return obj && obj.__esModule ? obj : { default: obj }; } - -function _classCallCheck(instance, Constructor) { if (!(instance instanceof Constructor)) { throw new TypeError("Cannot call a class as a function"); } } - -// Use a global so that multiple copies of crosstalk.js can be loaded and still -// have groups behave as singletons across all copies. -global.__crosstalk_groups = global.__crosstalk_groups || {}; -var groups = global.__crosstalk_groups; - -function group(groupName) { - if (groupName && typeof groupName === "string") { - if (!groups.hasOwnProperty(groupName)) { - groups[groupName] = new Group(groupName); - } - return groups[groupName]; - } else if ((typeof groupName === "undefined" ? "undefined" : _typeof(groupName)) === "object" && groupName._vars && groupName.var) { - // Appears to already be a group object - return groupName; - } else if (Array.isArray(groupName) && groupName.length == 1 && typeof groupName[0] === "string") { - return group(groupName[0]); - } else { - throw new Error("Invalid groupName argument"); - } -} - -var Group = function () { - function Group(name) { - _classCallCheck(this, Group); - - this.name = name; - this._vars = {}; - } - - _createClass(Group, [{ - key: "var", - value: function _var(name) { - if (!name || typeof name !== "string") { - throw new Error("Invalid var name"); - } - - if (!this._vars.hasOwnProperty(name)) this._vars[name] = new _var3.default(this, name); - return this._vars[name]; - } - }, { - key: "has", - value: function has(name) { - if (!name || typeof name !== "string") { - throw new Error("Invalid var name"); - } - - return this._vars.hasOwnProperty(name); - } - }]); - - return Group; -}(); - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{"./var":12}],5:[function(require,module,exports){ -(function (global){ -"use strict"; - -Object.defineProperty(exports, "__esModule", { - value: true -}); - -var _group = require("./group"); - -var _group2 = _interopRequireDefault(_group); - -var _selection = require("./selection"); - -var _filter = require("./filter"); - -var _input = require("./input"); - -require("./input_selectize"); - -require("./input_checkboxgroup"); - -require("./input_slider"); - -function _interopRequireDefault(obj) { return obj && obj.__esModule ? obj : { default: obj }; } - -var defaultGroup = (0, _group2.default)("default"); - -function var_(name) { - return defaultGroup.var(name); -} - -function has(name) { - return defaultGroup.has(name); -} - -if (global.Shiny) { - global.Shiny.addCustomMessageHandler("update-client-value", function (message) { - if (typeof message.group === "string") { - (0, _group2.default)(message.group).var(message.name).set(message.value); - } else { - var_(message.name).set(message.value); - } - }); -} - -var crosstalk = { - group: _group2.default, - var: var_, - has: has, - SelectionHandle: _selection.SelectionHandle, - FilterHandle: _filter.FilterHandle, - bind: _input.bind -}; - -/** - * @namespace crosstalk - */ -exports.default = crosstalk; - -global.crosstalk = crosstalk; - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{"./filter":2,"./group":4,"./input":6,"./input_checkboxgroup":7,"./input_selectize":8,"./input_slider":9,"./selection":10}],6:[function(require,module,exports){ -(function (global){ -"use strict"; - -Object.defineProperty(exports, "__esModule", { - value: true -}); -exports.register = register; -exports.bind = bind; -var $ = global.jQuery; - -var bindings = {}; - -function register(reg) { - bindings[reg.className] = reg; - if (global.document && global.document.readyState !== "complete") { - $(function () { - bind(); - }); - } else if (global.document) { - setTimeout(bind, 100); - } -} - -function bind() { - Object.keys(bindings).forEach(function (className) { - var binding = bindings[className]; - $("." + binding.className).not(".crosstalk-input-bound").each(function (i, el) { - bindInstance(binding, el); - }); - }); -} - -// Escape jQuery identifier -function $escape(val) { - return val.replace(/([!"#$%&'()*+,./:;<=>?@[\\\]^`{|}~])/g, "\\$1"); -} - -function bindEl(el) { - var $el = $(el); - Object.keys(bindings).forEach(function (className) { - if ($el.hasClass(className) && !$el.hasClass("crosstalk-input-bound")) { - var binding = bindings[className]; - bindInstance(binding, el); - } - }); -} - -function bindInstance(binding, el) { - var jsonEl = $(el).find("script[type='application/json'][data-for='" + $escape(el.id) + "']"); - var data = JSON.parse(jsonEl[0].innerText); - - var instance = binding.factory(el, data); - $(el).data("crosstalk-instance", instance); - $(el).addClass("crosstalk-input-bound"); -} - -if (global.Shiny) { - var inputBinding = new global.Shiny.InputBinding(); - var _$ = global.jQuery; - _$.extend(inputBinding, { - find: function find(scope) { - return _$(scope).find(".crosstalk-input"); - }, - initialize: function initialize(el) { - if (!_$(el).hasClass("crosstalk-input-bound")) { - bindEl(el); - } - }, - getId: function getId(el) { - return el.id; - }, - getValue: function getValue(el) {}, - setValue: function setValue(el, value) {}, - receiveMessage: function receiveMessage(el, data) {}, - subscribe: function subscribe(el, callback) { - _$(el).data("crosstalk-instance").resume(); - }, - unsubscribe: function unsubscribe(el) { - _$(el).data("crosstalk-instance").suspend(); - } - }); - global.Shiny.inputBindings.register(inputBinding, "crosstalk.inputBinding"); -} - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{}],7:[function(require,module,exports){ -(function (global){ -"use strict"; - -var _input = require("./input"); - -var input = _interopRequireWildcard(_input); - -var _filter = require("./filter"); - -function _interopRequireWildcard(obj) { if (obj && obj.__esModule) { return obj; } else { var newObj = {}; if (obj != null) { for (var key in obj) { if (Object.prototype.hasOwnProperty.call(obj, key)) newObj[key] = obj[key]; } } newObj.default = obj; return newObj; } } - -var $ = global.jQuery; - -input.register({ - className: "crosstalk-input-checkboxgroup", - - factory: function factory(el, data) { - /* - * map: {"groupA": ["keyA", "keyB", ...], ...} - * group: "ct-groupname" - */ - var ctHandle = new _filter.FilterHandle(data.group); - - var lastKnownKeys = void 0; - var $el = $(el); - $el.on("change", "input[type='checkbox']", function () { - var checked = $el.find("input[type='checkbox']:checked"); - if (checked.length === 0) { - lastKnownKeys = null; - ctHandle.clear(); - } else { - var keys = {}; - checked.each(function () { - data.map[this.value].forEach(function (key) { - keys[key] = true; - }); - }); - var keyArray = Object.keys(keys); - keyArray.sort(); - lastKnownKeys = keyArray; - ctHandle.set(keyArray); - } - }); - - return { - suspend: function suspend() { - ctHandle.clear(); - }, - resume: function resume() { - if (lastKnownKeys) ctHandle.set(lastKnownKeys); - } - }; - } -}); - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{"./filter":2,"./input":6}],8:[function(require,module,exports){ -(function (global){ -"use strict"; - -var _input = require("./input"); - -var input = _interopRequireWildcard(_input); - -var _util = require("./util"); - -var util = _interopRequireWildcard(_util); - -var _filter = require("./filter"); - -function _interopRequireWildcard(obj) { if (obj && obj.__esModule) { return obj; } else { var newObj = {}; if (obj != null) { for (var key in obj) { if (Object.prototype.hasOwnProperty.call(obj, key)) newObj[key] = obj[key]; } } newObj.default = obj; return newObj; } } - -var $ = global.jQuery; - -input.register({ - className: "crosstalk-input-select", - - factory: function factory(el, data) { - /* - * items: {value: [...], label: [...]} - * map: {"groupA": ["keyA", "keyB", ...], ...} - * group: "ct-groupname" - */ - - var first = [{ value: "", label: "(All)" }]; - var items = util.dataframeToD3(data.items); - var opts = { - options: first.concat(items), - valueField: "value", - labelField: "label", - searchField: "label" - }; - - var select = $(el).find("select")[0]; - - var selectize = $(select).selectize(opts)[0].selectize; - - var ctHandle = new _filter.FilterHandle(data.group); - - var lastKnownKeys = void 0; - selectize.on("change", function () { - if (selectize.items.length === 0) { - lastKnownKeys = null; - ctHandle.clear(); - } else { - var keys = {}; - selectize.items.forEach(function (group) { - data.map[group].forEach(function (key) { - keys[key] = true; - }); - }); - var keyArray = Object.keys(keys); - keyArray.sort(); - lastKnownKeys = keyArray; - ctHandle.set(keyArray); - } - }); - - return { - suspend: function suspend() { - ctHandle.clear(); - }, - resume: function resume() { - if (lastKnownKeys) ctHandle.set(lastKnownKeys); - } - }; - } -}); - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{"./filter":2,"./input":6,"./util":11}],9:[function(require,module,exports){ -(function (global){ -"use strict"; - -var _slicedToArray = function () { function sliceIterator(arr, i) { var _arr = []; var _n = true; var _d = false; var _e = undefined; try { for (var _i = arr[Symbol.iterator](), _s; !(_n = (_s = _i.next()).done); _n = true) { _arr.push(_s.value); if (i && _arr.length === i) break; } } catch (err) { _d = true; _e = err; } finally { try { if (!_n && _i["return"]) _i["return"](); } finally { if (_d) throw _e; } } return _arr; } return function (arr, i) { if (Array.isArray(arr)) { return arr; } else if (Symbol.iterator in Object(arr)) { return sliceIterator(arr, i); } else { throw new TypeError("Invalid attempt to destructure non-iterable instance"); } }; }(); - -var _input = require("./input"); - -var input = _interopRequireWildcard(_input); - -var _filter = require("./filter"); - -function _interopRequireWildcard(obj) { if (obj && obj.__esModule) { return obj; } else { var newObj = {}; if (obj != null) { for (var key in obj) { if (Object.prototype.hasOwnProperty.call(obj, key)) newObj[key] = obj[key]; } } newObj.default = obj; return newObj; } } - -var $ = global.jQuery; -var strftime = global.strftime; - -input.register({ - className: "crosstalk-input-slider", - - factory: function factory(el, data) { - /* - * map: {"groupA": ["keyA", "keyB", ...], ...} - * group: "ct-groupname" - */ - var ctHandle = new _filter.FilterHandle(data.group); - - var opts = {}; - var $el = $(el).find("input"); - var dataType = $el.data("data-type"); - var timeFormat = $el.data("time-format"); - var round = $el.data("round"); - var timeFormatter = void 0; - - // Set up formatting functions - if (dataType === "date") { - timeFormatter = strftime.utc(); - opts.prettify = function (num) { - return timeFormatter(timeFormat, new Date(num)); - }; - } else if (dataType === "datetime") { - var timezone = $el.data("timezone"); - if (timezone) timeFormatter = strftime.timezone(timezone);else timeFormatter = strftime; - - opts.prettify = function (num) { - return timeFormatter(timeFormat, new Date(num)); - }; - } else if (dataType === "number") { - if (typeof round !== "undefined") opts.prettify = function (num) { - var factor = Math.pow(10, round); - return Math.round(num * factor) / factor; - }; - } - - $el.ionRangeSlider(opts); - - function getValue() { - var result = $el.data("ionRangeSlider").result; - - // Function for converting numeric value from slider to appropriate type. - var convert = void 0; - var dataType = $el.data("data-type"); - if (dataType === "date") { - convert = function convert(val) { - return formatDateUTC(new Date(+val)); - }; - } else if (dataType === "datetime") { - convert = function convert(val) { - // Convert ms to s - return +val / 1000; - }; - } else { - convert = function convert(val) { - return +val; - }; - } - - if ($el.data("ionRangeSlider").options.type === "double") { - return [convert(result.from), convert(result.to)]; - } else { - return convert(result.from); - } - } - - var lastKnownKeys = null; - - $el.on("change.crosstalkSliderInput", function (event) { - if (!$el.data("updating") && !$el.data("animating")) { - var _getValue = getValue(), - _getValue2 = _slicedToArray(_getValue, 2), - from = _getValue2[0], - to = _getValue2[1]; - - var keys = []; - for (var i = 0; i < data.values.length; i++) { - var val = data.values[i]; - if (val >= from && val <= to) { - keys.push(data.keys[i]); - } - } - keys.sort(); - ctHandle.set(keys); - lastKnownKeys = keys; - } - }); - - // let $el = $(el); - // $el.on("change", "input[type="checkbox"]", function() { - // let checked = $el.find("input[type="checkbox"]:checked"); - // if (checked.length === 0) { - // ctHandle.clear(); - // } else { - // let keys = {}; - // checked.each(function() { - // data.map[this.value].forEach(function(key) { - // keys[key] = true; - // }); - // }); - // let keyArray = Object.keys(keys); - // keyArray.sort(); - // ctHandle.set(keyArray); - // } - // }); - - return { - suspend: function suspend() { - ctHandle.clear(); - }, - resume: function resume() { - if (lastKnownKeys) ctHandle.set(lastKnownKeys); - } - }; - } -}); - -// Convert a number to a string with leading zeros -function padZeros(n, digits) { - var str = n.toString(); - while (str.length < digits) { - str = "0" + str; - }return str; -} - -// Given a Date object, return a string in yyyy-mm-dd format, using the -// UTC date. This may be a day off from the date in the local time zone. -function formatDateUTC(date) { - if (date instanceof Date) { - return date.getUTCFullYear() + "-" + padZeros(date.getUTCMonth() + 1, 2) + "-" + padZeros(date.getUTCDate(), 2); - } else { - return null; - } -} - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{"./filter":2,"./input":6}],10:[function(require,module,exports){ -"use strict"; - -Object.defineProperty(exports, "__esModule", { - value: true -}); -exports.SelectionHandle = undefined; - -var _createClass = function () { function defineProperties(target, props) { for (var i = 0; i < props.length; i++) { var descriptor = props[i]; descriptor.enumerable = descriptor.enumerable || false; descriptor.configurable = true; if ("value" in descriptor) descriptor.writable = true; Object.defineProperty(target, descriptor.key, descriptor); } } return function (Constructor, protoProps, staticProps) { if (protoProps) defineProperties(Constructor.prototype, protoProps); if (staticProps) defineProperties(Constructor, staticProps); return Constructor; }; }(); - -var _events = require("./events"); - -var _events2 = _interopRequireDefault(_events); - -var _group = require("./group"); - -var _group2 = _interopRequireDefault(_group); - -var _util = require("./util"); - -var util = _interopRequireWildcard(_util); - -function _interopRequireWildcard(obj) { if (obj && obj.__esModule) { return obj; } else { var newObj = {}; if (obj != null) { for (var key in obj) { if (Object.prototype.hasOwnProperty.call(obj, key)) newObj[key] = obj[key]; } } newObj.default = obj; return newObj; } } - -function _interopRequireDefault(obj) { return obj && obj.__esModule ? obj : { default: obj }; } - -function _classCallCheck(instance, Constructor) { if (!(instance instanceof Constructor)) { throw new TypeError("Cannot call a class as a function"); } } - -/** - * Use this class to read and write (and listen for changes to) the selection - * for a Crosstalk group. This is intended to be used for linked brushing. - * - * If two (or more) `SelectionHandle` instances in the same webpage share the - * same group name, they will share the same state. Setting the selection using - * one `SelectionHandle` instance will result in the `value` property instantly - * changing across the others, and `"change"` event listeners on all instances - * (including the one that initiated the sending) will fire. - * - * @param {string} [group] - The name of the Crosstalk group, or if none, - * null or undefined (or any other falsy value). This can be changed later - * via the [SelectionHandle#setGroup](#setGroup) method. - * @param {Object} [extraInfo] - An object whose properties will be copied to - * the event object whenever an event is emitted. - */ -var SelectionHandle = exports.SelectionHandle = function () { - function SelectionHandle() { - var group = arguments.length > 0 && arguments[0] !== undefined ? arguments[0] : null; - var extraInfo = arguments.length > 1 && arguments[1] !== undefined ? arguments[1] : null; - - _classCallCheck(this, SelectionHandle); - - this._eventRelay = new _events2.default(); - this._emitter = new util.SubscriptionTracker(this._eventRelay); - - // Name of the group we're currently tracking, if any. Can change over time. - this._group = null; - // The Var we're currently tracking, if any. Can change over time. - this._var = null; - // The event handler subscription we currently have on var.on("change"). - this._varOnChangeSub = null; - - this._extraInfo = util.extend({ sender: this }, extraInfo); - - this.setGroup(group); - } - - /** - * Changes the Crosstalk group membership of this SelectionHandle. The group - * being switched away from (if any) will not have its selection value - * modified as a result of calling `setGroup`, even if this handle was the - * most recent handle to set the selection of the group. - * - * The group being switched to (if any) will also not have its selection value - * modified as a result of calling `setGroup`. If you want to set the - * selection value of the new group, call `set` explicitly. - * - * @param {string} group - The name of the Crosstalk group, or null (or - * undefined) to clear the group. - */ - - - _createClass(SelectionHandle, [{ - key: "setGroup", - value: function setGroup(group) { - var _this = this; - - // If group is unchanged, do nothing - if (this._group === group) return; - // Treat null, undefined, and other falsy values the same - if (!this._group && !group) return; - - if (this._var) { - this._var.off("change", this._varOnChangeSub); - this._var = null; - this._varOnChangeSub = null; - } - - this._group = group; - - if (group) { - this._var = (0, _group2.default)(group).var("selection"); - var sub = this._var.on("change", function (e) { - _this._eventRelay.trigger("change", e, _this); - }); - this._varOnChangeSub = sub; - } - } - - /** - * Retrieves the current selection for the group represented by this - * `SelectionHandle`. - * - * - If no selection is active, then this value will be falsy. - * - If a selection is active, but no data points are selected, then this - * value will be an empty array. - * - If a selection is active, and data points are selected, then the keys - * of the selected data points will be present in the array. - */ - - }, { - key: "_mergeExtraInfo", - - - /** - * Combines the given `extraInfo` (if any) with the handle's default - * `_extraInfo` (if any). - * @private - */ - value: function _mergeExtraInfo(extraInfo) { - // Important incidental effect: shallow clone is returned - return util.extend({}, this._extraInfo ? this._extraInfo : null, extraInfo ? extraInfo : null); - } - - /** - * Overwrites the current selection for the group, and raises the `"change"` - * event among all of the group's '`SelectionHandle` instances (including - * this one). - * - * @fires SelectionHandle#change - * @param {string[]} selectedKeys - Falsy, empty array, or array of keys (see - * {@link SelectionHandle#value}). - * @param {Object} [extraInfo] - Extra properties to be included on the event - * object that's passed to listeners (in addition to any options that were - * passed into the `SelectionHandle` constructor). - */ - - }, { - key: "set", - value: function set(selectedKeys, extraInfo) { - if (this._var) this._var.set(selectedKeys, this._mergeExtraInfo(extraInfo)); - } - - /** - * Overwrites the current selection for the group, and raises the `"change"` - * event among all of the group's '`SelectionHandle` instances (including - * this one). - * - * @fires SelectionHandle#change - * @param {Object} [extraInfo] - Extra properties to be included on the event - * object that's passed to listeners (in addition to any that were passed - * into the `SelectionHandle` constructor). - */ - - }, { - key: "clear", - value: function clear(extraInfo) { - if (this._var) this.set(void 0, this._mergeExtraInfo(extraInfo)); - } - - /** - * Subscribes to events on this `SelectionHandle`. - * - * @param {string} eventType - Indicates the type of events to listen to. - * Currently, only `"change"` is supported. - * @param {SelectionHandle~listener} listener - The callback function that - * will be invoked when the event occurs. - * @return {string} - A token to pass to {@link SelectionHandle#off} to cancel - * this subscription. - */ - - }, { - key: "on", - value: function on(eventType, listener) { - return this._emitter.on(eventType, listener); - } - - /** - * Cancels event subscriptions created by {@link SelectionHandle#on}. - * - * @param {string} eventType - The type of event to unsubscribe. - * @param {string|SelectionHandle~listener} listener - Either the callback - * function previously passed into {@link SelectionHandle#on}, or the - * string that was returned from {@link SelectionHandle#on}. - */ - - }, { - key: "off", - value: function off(eventType, listener) { - return this._emitter.off(eventType, listener); - } - - /** - * Shuts down the `SelectionHandle` object. - * - * Removes all event listeners that were added through this handle. - */ - - }, { - key: "close", - value: function close() { - this._emitter.removeAllListeners(); - this.setGroup(null); - } - }, { - key: "value", - get: function get() { - return this._var ? this._var.get() : null; - } - }]); - - return SelectionHandle; -}(); - -/** - * @callback SelectionHandle~listener - * @param {Object} event - An object containing details of the event. For - * `"change"` events, this includes the properties `value` (the new - * value of the selection, or `undefined` if no selection is active), - * `oldValue` (the previous value of the selection), and `sender` (the - * `SelectionHandle` instance that made the change). - */ - -/** - * @event SelectionHandle#change - * @type {object} - * @property {object} value - The new value of the selection, or `undefined` - * if no selection is active. - * @property {object} oldValue - The previous value of the selection. - * @property {SelectionHandle} sender - The `SelectionHandle` instance that - * changed the value. - */ - -},{"./events":1,"./group":4,"./util":11}],11:[function(require,module,exports){ -"use strict"; - -Object.defineProperty(exports, "__esModule", { - value: true -}); - -var _createClass = function () { function defineProperties(target, props) { for (var i = 0; i < props.length; i++) { var descriptor = props[i]; descriptor.enumerable = descriptor.enumerable || false; descriptor.configurable = true; if ("value" in descriptor) descriptor.writable = true; Object.defineProperty(target, descriptor.key, descriptor); } } return function (Constructor, protoProps, staticProps) { if (protoProps) defineProperties(Constructor.prototype, protoProps); if (staticProps) defineProperties(Constructor, staticProps); return Constructor; }; }(); - -var _typeof = typeof Symbol === "function" && typeof Symbol.iterator === "symbol" ? function (obj) { return typeof obj; } : function (obj) { return obj && typeof Symbol === "function" && obj.constructor === Symbol && obj !== Symbol.prototype ? "symbol" : typeof obj; }; - -exports.extend = extend; -exports.checkSorted = checkSorted; -exports.diffSortedLists = diffSortedLists; -exports.dataframeToD3 = dataframeToD3; - -function _classCallCheck(instance, Constructor) { if (!(instance instanceof Constructor)) { throw new TypeError("Cannot call a class as a function"); } } - -function extend(target) { - for (var _len = arguments.length, sources = Array(_len > 1 ? _len - 1 : 0), _key = 1; _key < _len; _key++) { - sources[_key - 1] = arguments[_key]; - } - - for (var i = 0; i < sources.length; i++) { - var src = sources[i]; - if (typeof src === "undefined" || src === null) continue; - - for (var key in src) { - if (src.hasOwnProperty(key)) { - target[key] = src[key]; - } - } - } - return target; -} - -function checkSorted(list) { - for (var i = 1; i < list.length; i++) { - if (list[i] <= list[i - 1]) { - throw new Error("List is not sorted or contains duplicate"); - } - } -} - -function diffSortedLists(a, b) { - var i_a = 0; - var i_b = 0; - - if (!a) a = []; - if (!b) b = []; - - var a_only = []; - var b_only = []; - - checkSorted(a); - checkSorted(b); - - while (i_a < a.length && i_b < b.length) { - if (a[i_a] === b[i_b]) { - i_a++; - i_b++; - } else if (a[i_a] < b[i_b]) { - a_only.push(a[i_a++]); - } else { - b_only.push(b[i_b++]); - } - } - - if (i_a < a.length) a_only = a_only.concat(a.slice(i_a)); - if (i_b < b.length) b_only = b_only.concat(b.slice(i_b)); - return { - removed: a_only, - added: b_only - }; -} - -// Convert from wide: { colA: [1,2,3], colB: [4,5,6], ... } -// to long: [ {colA: 1, colB: 4}, {colA: 2, colB: 5}, ... ] -function dataframeToD3(df) { - var names = []; - var length = void 0; - for (var name in df) { - if (df.hasOwnProperty(name)) names.push(name); - if (_typeof(df[name]) !== "object" || typeof df[name].length === "undefined") { - throw new Error("All fields must be arrays"); - } else if (typeof length !== "undefined" && length !== df[name].length) { - throw new Error("All fields must be arrays of the same length"); - } - length = df[name].length; - } - var results = []; - var item = void 0; - for (var row = 0; row < length; row++) { - item = {}; - for (var col = 0; col < names.length; col++) { - item[names[col]] = df[names[col]][row]; - } - results.push(item); - } - return results; -} - -/** - * Keeps track of all event listener additions/removals and lets all active - * listeners be removed with a single operation. - * - * @private - */ - -var SubscriptionTracker = exports.SubscriptionTracker = function () { - function SubscriptionTracker(emitter) { - _classCallCheck(this, SubscriptionTracker); - - this._emitter = emitter; - this._subs = {}; - } - - _createClass(SubscriptionTracker, [{ - key: "on", - value: function on(eventType, listener) { - var sub = this._emitter.on(eventType, listener); - this._subs[sub] = eventType; - return sub; - } - }, { - key: "off", - value: function off(eventType, listener) { - var sub = this._emitter.off(eventType, listener); - if (sub) { - delete this._subs[sub]; - } - return sub; - } - }, { - key: "removeAllListeners", - value: function removeAllListeners() { - var _this = this; - - var current_subs = this._subs; - this._subs = {}; - Object.keys(current_subs).forEach(function (sub) { - _this._emitter.off(current_subs[sub], sub); - }); - } - }]); - - return SubscriptionTracker; -}(); - -},{}],12:[function(require,module,exports){ -(function (global){ -"use strict"; - -Object.defineProperty(exports, "__esModule", { - value: true -}); - -var _typeof = typeof Symbol === "function" && typeof Symbol.iterator === "symbol" ? function (obj) { return typeof obj; } : function (obj) { return obj && typeof Symbol === "function" && obj.constructor === Symbol && obj !== Symbol.prototype ? "symbol" : typeof obj; }; - -var _createClass = function () { function defineProperties(target, props) { for (var i = 0; i < props.length; i++) { var descriptor = props[i]; descriptor.enumerable = descriptor.enumerable || false; descriptor.configurable = true; if ("value" in descriptor) descriptor.writable = true; Object.defineProperty(target, descriptor.key, descriptor); } } return function (Constructor, protoProps, staticProps) { if (protoProps) defineProperties(Constructor.prototype, protoProps); if (staticProps) defineProperties(Constructor, staticProps); return Constructor; }; }(); - -var _events = require("./events"); - -var _events2 = _interopRequireDefault(_events); - -function _interopRequireDefault(obj) { return obj && obj.__esModule ? obj : { default: obj }; } - -function _classCallCheck(instance, Constructor) { if (!(instance instanceof Constructor)) { throw new TypeError("Cannot call a class as a function"); } } - -var Var = function () { - function Var(group, name, /*optional*/value) { - _classCallCheck(this, Var); - - this._group = group; - this._name = name; - this._value = value; - this._events = new _events2.default(); - } - - _createClass(Var, [{ - key: "get", - value: function get() { - return this._value; - } - }, { - key: "set", - value: function set(value, /*optional*/event) { - if (this._value === value) { - // Do nothing; the value hasn't changed - return; - } - var oldValue = this._value; - this._value = value; - // Alert JavaScript listeners that the value has changed - var evt = {}; - if (event && (typeof event === "undefined" ? "undefined" : _typeof(event)) === "object") { - for (var k in event) { - if (event.hasOwnProperty(k)) evt[k] = event[k]; - } - } - evt.oldValue = oldValue; - evt.value = value; - this._events.trigger("change", evt, this); - - // TODO: Make this extensible, to let arbitrary back-ends know that - // something has changed - if (global.Shiny && global.Shiny.onInputChange) { - global.Shiny.onInputChange(".clientValue-" + (this._group.name !== null ? this._group.name + "-" : "") + this._name, typeof value === "undefined" ? null : value); - } - } - }, { - key: "on", - value: function on(eventType, listener) { - return this._events.on(eventType, listener); - } - }, { - key: "off", - value: function off(eventType, listener) { - return this._events.off(eventType, listener); - } - }]); - - return Var; -}(); - -exports.default = Var; - -}).call(this,typeof global !== "undefined" ? global : typeof self !== "undefined" ? self : typeof window !== "undefined" ? window : {}) - -},{"./events":1}]},{},[5]) -//# sourceMappingURL=crosstalk.js.map diff --git a/src/site_libs/crosstalk-1.2.1/js/crosstalk.js.map b/src/site_libs/crosstalk-1.2.1/js/crosstalk.js.map deleted file mode 100644 index cff94f0..0000000 --- a/src/site_libs/crosstalk-1.2.1/js/crosstalk.js.map +++ /dev/null @@ -1,37 +0,0 @@ -{ - "version": 3, - "sources": [ - "node_modules/browser-pack/_prelude.js", - "javascript/src/events.js", - "javascript/src/filter.js", - "javascript/src/filterset.js", - "javascript/src/group.js", - "javascript/src/index.js", - "javascript/src/input.js", - "javascript/src/input_checkboxgroup.js", - "javascript/src/input_selectize.js", - "javascript/src/input_slider.js", - "javascript/src/selection.js", - "javascript/src/util.js", - "javascript/src/var.js" - ], - "names": [], - "mappings": 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- "file": "generated.js", - "sourceRoot": "", - "sourcesContent": [ - "(function(){function e(t,n,r){function s(o,u){if(!n[o]){if(!t[o]){var a=typeof require==\"function\"&&require;if(!u&&a)return a(o,!0);if(i)return i(o,!0);var f=new Error(\"Cannot find module '\"+o+\"'\");throw f.code=\"MODULE_NOT_FOUND\",f}var l=n[o]={exports:{}};t[o][0].call(l.exports,function(e){var n=t[o][1][e];return s(n?n:e)},l,l.exports,e,t,n,r)}return n[o].exports}var i=typeof require==\"function\"&&require;for(var o=0;o {\n this._eventRelay.trigger(\"change\", e, this);\n });\n this._varOnChangeSub = sub;\n }\n }\n\n /**\n * Combine the given `extraInfo` (if any) with the handle's default\n * `_extraInfo` (if any).\n * @private\n */\n _mergeExtraInfo(extraInfo) {\n return util.extend({},\n this._extraInfo ? this._extraInfo : null,\n extraInfo ? extraInfo : null);\n }\n\n /**\n * Close the handle. This clears this handle's contribution to the filter set,\n * and unsubscribes all event listeners.\n */\n close() {\n this._emitter.removeAllListeners();\n this.clear();\n this.setGroup(null);\n }\n\n /**\n * Clear this handle's contribution to the filter set.\n *\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any options that were\n * passed into the `FilterHandle` constructor).\n * \n * @fires FilterHandle#change\n */\n clear(extraInfo) {\n if (!this._filterSet)\n return;\n this._filterSet.clear(this._id);\n this._onChange(extraInfo);\n }\n\n /**\n * Set this handle's contribution to the filter set. This array should consist\n * of the keys of the rows that _should_ be displayed; any keys that are not\n * present in the array will be considered _filtered out_. Note that multiple\n * `FilterHandle` instances in the group may each contribute an array of keys,\n * and only those keys that appear in _all_ of the arrays make it through the\n * filter.\n *\n * @param {string[]} keys - Empty array, or array of keys. To clear the\n * filter, don't pass an empty array; instead, use the\n * {@link FilterHandle#clear} method.\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any options that were\n * passed into the `FilterHandle` constructor).\n * \n * @fires FilterHandle#change\n */\n set(keys, extraInfo) {\n if (!this._filterSet)\n return;\n this._filterSet.update(this._id, keys);\n this._onChange(extraInfo);\n }\n\n /**\n * @return {string[]|null} - Either: 1) an array of keys that made it through\n * all of the `FilterHandle` instances, or, 2) `null`, which means no filter\n * is being applied (all data should be displayed).\n */\n get filteredKeys() {\n return this._filterSet ? this._filterSet.value : null;\n }\n\n /**\n * Subscribe to events on this `FilterHandle`.\n *\n * @param {string} eventType - Indicates the type of events to listen to.\n * Currently, only `\"change\"` is supported.\n * @param {FilterHandle~listener} listener - The callback function that\n * will be invoked when the event occurs.\n * @return {string} - A token to pass to {@link FilterHandle#off} to cancel\n * this subscription.\n */\n on(eventType, listener) {\n return this._emitter.on(eventType, listener);\n }\n\n /**\n * Cancel event subscriptions created by {@link FilterHandle#on}.\n *\n * @param {string} eventType - The type of event to unsubscribe.\n * @param {string|FilterHandle~listener} listener - Either the callback\n * function previously passed into {@link FilterHandle#on}, or the\n * string that was returned from {@link FilterHandle#on}.\n */\n off(eventType, listener) {\n return this._emitter.off(eventType, listener);\n }\n\n _onChange(extraInfo) {\n if (!this._filterSet)\n return;\n this._filterVar.set(this._filterSet.value, this._mergeExtraInfo(extraInfo));\n }\n\n /**\n * @callback FilterHandle~listener\n * @param {Object} event - An object containing details of the event. For\n * `\"change\"` events, this includes the properties `value` (the new\n * value of the filter set, or `null` if no filter set is active),\n * `oldValue` (the previous value of the filter set), and `sender` (the\n * `FilterHandle` instance that made the change).\n */\n\n}\n\n/**\n * @event FilterHandle#change\n * @type {object}\n * @property {object} value - The new value of the filter set, or `null`\n * if no filter set is active.\n * @property {object} oldValue - The previous value of the filter set.\n * @property {FilterHandle} sender - The `FilterHandle` instance that\n * changed the value.\n */\n", - "import { diffSortedLists } from \"./util\";\n\nfunction naturalComparator(a, b) {\n if (a === b) {\n return 0;\n } else if (a < b) {\n return -1;\n } else if (a > b) {\n return 1;\n }\n}\n\n/**\n * @private\n */\nexport default class FilterSet {\n constructor() {\n this.reset();\n }\n\n reset() {\n // Key: handle ID, Value: array of selected keys, or null\n this._handles = {};\n // Key: key string, Value: count of handles that include it\n this._keys = {};\n this._value = null;\n this._activeHandles = 0;\n }\n\n get value() {\n return this._value;\n }\n\n update(handleId, keys) {\n if (keys !== null) {\n keys = keys.slice(0); // clone before sorting\n keys.sort(naturalComparator);\n }\n\n let {added, removed} = diffSortedLists(this._handles[handleId], keys);\n this._handles[handleId] = keys;\n\n for (let i = 0; i < added.length; i++) {\n this._keys[added[i]] = (this._keys[added[i]] || 0) + 1;\n }\n for (let i = 0; i < removed.length; i++) {\n this._keys[removed[i]]--;\n }\n\n this._updateValue(keys);\n }\n\n /**\n * @param {string[]} keys Sorted array of strings that indicate\n * a superset of possible keys.\n * @private\n */\n _updateValue(keys = this._allKeys) {\n let handleCount = Object.keys(this._handles).length;\n if (handleCount === 0) {\n this._value = null;\n } else {\n this._value = [];\n for (let i = 0; i < keys.length; i++) {\n let count = this._keys[keys[i]];\n if (count === handleCount) {\n this._value.push(keys[i]);\n }\n }\n }\n }\n\n clear(handleId) {\n if (typeof(this._handles[handleId]) === \"undefined\") {\n return;\n }\n\n let keys = this._handles[handleId];\n if (!keys) {\n keys = [];\n }\n\n for (let i = 0; i < keys.length; i++) {\n this._keys[keys[i]]--;\n }\n delete this._handles[handleId];\n\n this._updateValue();\n }\n\n get _allKeys() {\n let allKeys = Object.keys(this._keys);\n allKeys.sort(naturalComparator);\n return allKeys;\n }\n}\n", - "import Var from \"./var\";\n\n// Use a global so that multiple copies of crosstalk.js can be loaded and still\n// have groups behave as singletons across all copies.\nglobal.__crosstalk_groups = global.__crosstalk_groups || {};\nlet groups = global.__crosstalk_groups;\n\nexport default function group(groupName) {\n if (groupName && typeof(groupName) === \"string\") {\n if (!groups.hasOwnProperty(groupName)) {\n groups[groupName] = new Group(groupName);\n }\n return groups[groupName];\n } else if (typeof(groupName) === \"object\" && groupName._vars && groupName.var) {\n // Appears to already be a group object\n return groupName;\n } else if (Array.isArray(groupName) &&\n groupName.length == 1 &&\n typeof(groupName[0]) === \"string\") {\n return group(groupName[0]);\n } else {\n throw new Error(\"Invalid groupName argument\");\n }\n}\n\nclass Group {\n constructor(name) {\n this.name = name;\n this._vars = {};\n }\n\n var(name) {\n if (!name || typeof(name) !== \"string\") {\n throw new Error(\"Invalid var name\");\n }\n\n if (!this._vars.hasOwnProperty(name))\n this._vars[name] = new Var(this, name);\n return this._vars[name];\n }\n\n has(name) {\n if (!name || typeof(name) !== \"string\") {\n throw new Error(\"Invalid var name\");\n }\n\n return this._vars.hasOwnProperty(name);\n }\n}\n", - "import group from \"./group\";\nimport { SelectionHandle } from \"./selection\";\nimport { FilterHandle } from \"./filter\";\nimport { bind } from \"./input\";\nimport \"./input_selectize\";\nimport \"./input_checkboxgroup\";\nimport \"./input_slider\";\n\nconst defaultGroup = group(\"default\");\n\nfunction var_(name) {\n return defaultGroup.var(name);\n}\n\nfunction has(name) {\n return defaultGroup.has(name);\n}\n\nif (global.Shiny) {\n global.Shiny.addCustomMessageHandler(\"update-client-value\", function(message) {\n if (typeof(message.group) === \"string\") {\n group(message.group).var(message.name).set(message.value);\n } else {\n var_(message.name).set(message.value);\n }\n });\n}\n\nconst crosstalk = {\n group: group,\n var: var_,\n has: has,\n SelectionHandle: SelectionHandle,\n FilterHandle: FilterHandle,\n bind: bind\n};\n\n/**\n * @namespace crosstalk\n */\nexport default crosstalk;\nglobal.crosstalk = crosstalk;\n", - "let $ = global.jQuery;\n\nlet bindings = {};\n\nexport function register(reg) {\n bindings[reg.className] = reg;\n if (global.document && global.document.readyState !== \"complete\") {\n $(() => {\n bind();\n });\n } else if (global.document) {\n setTimeout(bind, 100);\n }\n}\n\nexport function bind() {\n Object.keys(bindings).forEach(function(className) {\n let binding = bindings[className];\n $(\".\" + binding.className).not(\".crosstalk-input-bound\").each(function(i, el) {\n bindInstance(binding, el);\n });\n });\n}\n\n// Escape jQuery identifier\nfunction $escape(val) {\n return val.replace(/([!\"#$%&'()*+,./:;<=>?@[\\\\\\]^`{|}~])/g, \"\\\\$1\");\n}\n\nfunction bindEl(el) {\n let $el = $(el);\n Object.keys(bindings).forEach(function(className) {\n if ($el.hasClass(className) && !$el.hasClass(\"crosstalk-input-bound\")) {\n let binding = bindings[className];\n bindInstance(binding, el);\n }\n });\n}\n\nfunction bindInstance(binding, el) {\n let jsonEl = $(el).find(\"script[type='application/json'][data-for='\" + $escape(el.id) + \"']\");\n let data = JSON.parse(jsonEl[0].innerText);\n\n let instance = binding.factory(el, data);\n $(el).data(\"crosstalk-instance\", instance);\n $(el).addClass(\"crosstalk-input-bound\");\n}\n\nif (global.Shiny) {\n let inputBinding = new global.Shiny.InputBinding();\n let $ = global.jQuery;\n $.extend(inputBinding, {\n find: function(scope) {\n return $(scope).find(\".crosstalk-input\");\n },\n initialize: function(el) {\n if (!$(el).hasClass(\"crosstalk-input-bound\")) {\n bindEl(el);\n }\n },\n getId: function(el) {\n return el.id;\n },\n getValue: function(el) {\n\n },\n setValue: function(el, value) {\n\n },\n receiveMessage: function(el, data) {\n\n },\n subscribe: function(el, callback) {\n $(el).data(\"crosstalk-instance\").resume();\n },\n unsubscribe: function(el) {\n $(el).data(\"crosstalk-instance\").suspend();\n }\n });\n global.Shiny.inputBindings.register(inputBinding, \"crosstalk.inputBinding\");\n}\n", - "import * as input from \"./input\";\nimport { FilterHandle } from \"./filter\";\n\nlet $ = global.jQuery;\n\ninput.register({\n className: \"crosstalk-input-checkboxgroup\",\n\n factory: function(el, data) {\n /*\n * map: {\"groupA\": [\"keyA\", \"keyB\", ...], ...}\n * group: \"ct-groupname\"\n */\n let ctHandle = new FilterHandle(data.group);\n\n let lastKnownKeys;\n let $el = $(el);\n $el.on(\"change\", \"input[type='checkbox']\", function() {\n let checked = $el.find(\"input[type='checkbox']:checked\");\n if (checked.length === 0) {\n lastKnownKeys = null;\n ctHandle.clear();\n } else {\n let keys = {};\n checked.each(function() {\n data.map[this.value].forEach(function(key) {\n keys[key] = true;\n });\n });\n let keyArray = Object.keys(keys);\n keyArray.sort();\n lastKnownKeys = keyArray;\n ctHandle.set(keyArray);\n }\n });\n\n return {\n suspend: function() {\n ctHandle.clear();\n },\n resume: function() {\n if (lastKnownKeys)\n ctHandle.set(lastKnownKeys);\n }\n };\n }\n});\n", - "import * as input from \"./input\";\nimport * as util from \"./util\";\nimport { FilterHandle } from \"./filter\";\n\nlet $ = global.jQuery;\n\ninput.register({\n className: \"crosstalk-input-select\",\n\n factory: function(el, data) {\n /*\n * items: {value: [...], label: [...]}\n * map: {\"groupA\": [\"keyA\", \"keyB\", ...], ...}\n * group: \"ct-groupname\"\n */\n\n let first = [{value: \"\", label: \"(All)\"}];\n let items = util.dataframeToD3(data.items);\n let opts = {\n options: first.concat(items),\n valueField: \"value\",\n labelField: \"label\",\n searchField: \"label\"\n };\n\n let select = $(el).find(\"select\")[0];\n\n let selectize = $(select).selectize(opts)[0].selectize;\n\n let ctHandle = new FilterHandle(data.group);\n\n let lastKnownKeys;\n selectize.on(\"change\", function() {\n if (selectize.items.length === 0) {\n lastKnownKeys = null;\n ctHandle.clear();\n } else {\n let keys = {};\n selectize.items.forEach(function(group) {\n data.map[group].forEach(function(key) {\n keys[key] = true;\n });\n });\n let keyArray = Object.keys(keys);\n keyArray.sort();\n lastKnownKeys = keyArray;\n ctHandle.set(keyArray);\n }\n });\n\n return {\n suspend: function() {\n ctHandle.clear();\n },\n resume: function() {\n if (lastKnownKeys)\n ctHandle.set(lastKnownKeys);\n }\n };\n }\n});\n", - "import * as input from \"./input\";\nimport { FilterHandle } from \"./filter\";\n\nlet $ = global.jQuery;\nlet strftime = global.strftime;\n\ninput.register({\n className: \"crosstalk-input-slider\",\n\n factory: function(el, data) {\n /*\n * map: {\"groupA\": [\"keyA\", \"keyB\", ...], ...}\n * group: \"ct-groupname\"\n */\n let ctHandle = new FilterHandle(data.group);\n\n let opts = {};\n let $el = $(el).find(\"input\");\n let dataType = $el.data(\"data-type\");\n let timeFormat = $el.data(\"time-format\");\n let round = $el.data(\"round\");\n let timeFormatter;\n\n // Set up formatting functions\n if (dataType === \"date\") {\n timeFormatter = strftime.utc();\n opts.prettify = function(num) {\n return timeFormatter(timeFormat, new Date(num));\n };\n\n } else if (dataType === \"datetime\") {\n let timezone = $el.data(\"timezone\");\n if (timezone)\n timeFormatter = strftime.timezone(timezone);\n else\n timeFormatter = strftime;\n\n opts.prettify = function(num) {\n return timeFormatter(timeFormat, new Date(num));\n };\n } else if (dataType === \"number\") {\n if (typeof round !== \"undefined\")\n opts.prettify = function(num) {\n let factor = Math.pow(10, round);\n return Math.round(num * factor) / factor;\n };\n }\n\n $el.ionRangeSlider(opts);\n\n function getValue() {\n let result = $el.data(\"ionRangeSlider\").result;\n\n // Function for converting numeric value from slider to appropriate type.\n let convert;\n let dataType = $el.data(\"data-type\");\n if (dataType === \"date\") {\n convert = function(val) {\n return formatDateUTC(new Date(+val));\n };\n } else if (dataType === \"datetime\") {\n convert = function(val) {\n // Convert ms to s\n return +val / 1000;\n };\n } else {\n convert = function(val) { return +val; };\n }\n\n if ($el.data(\"ionRangeSlider\").options.type === \"double\") {\n return [convert(result.from), convert(result.to)];\n } else {\n return convert(result.from);\n }\n }\n\n let lastKnownKeys = null;\n\n $el.on(\"change.crosstalkSliderInput\", function(event) {\n if (!$el.data(\"updating\") && !$el.data(\"animating\")) {\n let [from, to] = getValue();\n let keys = [];\n for (let i = 0; i < data.values.length; i++) {\n let val = data.values[i];\n if (val >= from && val <= to) {\n keys.push(data.keys[i]);\n }\n }\n keys.sort();\n ctHandle.set(keys);\n lastKnownKeys = keys;\n }\n });\n\n\n // let $el = $(el);\n // $el.on(\"change\", \"input[type=\"checkbox\"]\", function() {\n // let checked = $el.find(\"input[type=\"checkbox\"]:checked\");\n // if (checked.length === 0) {\n // ctHandle.clear();\n // } else {\n // let keys = {};\n // checked.each(function() {\n // data.map[this.value].forEach(function(key) {\n // keys[key] = true;\n // });\n // });\n // let keyArray = Object.keys(keys);\n // keyArray.sort();\n // ctHandle.set(keyArray);\n // }\n // });\n\n return {\n suspend: function() {\n ctHandle.clear();\n },\n resume: function() {\n if (lastKnownKeys)\n ctHandle.set(lastKnownKeys);\n }\n };\n }\n});\n\n\n// Convert a number to a string with leading zeros\nfunction padZeros(n, digits) {\n let str = n.toString();\n while (str.length < digits)\n str = \"0\" + str;\n return str;\n}\n\n// Given a Date object, return a string in yyyy-mm-dd format, using the\n// UTC date. This may be a day off from the date in the local time zone.\nfunction formatDateUTC(date) {\n if (date instanceof Date) {\n return date.getUTCFullYear() + \"-\" +\n padZeros(date.getUTCMonth()+1, 2) + \"-\" +\n padZeros(date.getUTCDate(), 2);\n\n } else {\n return null;\n }\n}\n", - "import Events from \"./events\";\nimport grp from \"./group\";\nimport * as util from \"./util\";\n\n/**\n * Use this class to read and write (and listen for changes to) the selection\n * for a Crosstalk group. This is intended to be used for linked brushing.\n *\n * If two (or more) `SelectionHandle` instances in the same webpage share the\n * same group name, they will share the same state. Setting the selection using\n * one `SelectionHandle` instance will result in the `value` property instantly\n * changing across the others, and `\"change\"` event listeners on all instances\n * (including the one that initiated the sending) will fire.\n *\n * @param {string} [group] - The name of the Crosstalk group, or if none,\n * null or undefined (or any other falsy value). This can be changed later\n * via the [SelectionHandle#setGroup](#setGroup) method.\n * @param {Object} [extraInfo] - An object whose properties will be copied to\n * the event object whenever an event is emitted.\n */\nexport class SelectionHandle {\n\n constructor(group = null, extraInfo = null) {\n this._eventRelay = new Events();\n this._emitter = new util.SubscriptionTracker(this._eventRelay);\n\n // Name of the group we're currently tracking, if any. Can change over time.\n this._group = null;\n // The Var we're currently tracking, if any. Can change over time.\n this._var = null;\n // The event handler subscription we currently have on var.on(\"change\").\n this._varOnChangeSub = null;\n\n this._extraInfo = util.extend({ sender: this }, extraInfo);\n\n this.setGroup(group);\n }\n\n /**\n * Changes the Crosstalk group membership of this SelectionHandle. The group\n * being switched away from (if any) will not have its selection value\n * modified as a result of calling `setGroup`, even if this handle was the\n * most recent handle to set the selection of the group.\n *\n * The group being switched to (if any) will also not have its selection value\n * modified as a result of calling `setGroup`. If you want to set the\n * selection value of the new group, call `set` explicitly.\n *\n * @param {string} group - The name of the Crosstalk group, or null (or\n * undefined) to clear the group.\n */\n setGroup(group) {\n // If group is unchanged, do nothing\n if (this._group === group)\n return;\n // Treat null, undefined, and other falsy values the same\n if (!this._group && !group)\n return;\n\n if (this._var) {\n this._var.off(\"change\", this._varOnChangeSub);\n this._var = null;\n this._varOnChangeSub = null;\n }\n\n this._group = group;\n\n if (group) {\n this._var = grp(group).var(\"selection\");\n let sub = this._var.on(\"change\", (e) => {\n this._eventRelay.trigger(\"change\", e, this);\n });\n this._varOnChangeSub = sub;\n }\n }\n\n /**\n * Retrieves the current selection for the group represented by this\n * `SelectionHandle`.\n *\n * - If no selection is active, then this value will be falsy.\n * - If a selection is active, but no data points are selected, then this\n * value will be an empty array.\n * - If a selection is active, and data points are selected, then the keys\n * of the selected data points will be present in the array.\n */\n get value() {\n return this._var ? this._var.get() : null;\n }\n\n /**\n * Combines the given `extraInfo` (if any) with the handle's default\n * `_extraInfo` (if any).\n * @private\n */\n _mergeExtraInfo(extraInfo) {\n // Important incidental effect: shallow clone is returned\n return util.extend({},\n this._extraInfo ? this._extraInfo : null,\n extraInfo ? extraInfo : null);\n }\n\n /**\n * Overwrites the current selection for the group, and raises the `\"change\"`\n * event among all of the group's '`SelectionHandle` instances (including\n * this one).\n *\n * @fires SelectionHandle#change\n * @param {string[]} selectedKeys - Falsy, empty array, or array of keys (see\n * {@link SelectionHandle#value}).\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any options that were\n * passed into the `SelectionHandle` constructor).\n */\n set(selectedKeys, extraInfo) {\n if (this._var)\n this._var.set(selectedKeys, this._mergeExtraInfo(extraInfo));\n }\n\n /**\n * Overwrites the current selection for the group, and raises the `\"change\"`\n * event among all of the group's '`SelectionHandle` instances (including\n * this one).\n *\n * @fires SelectionHandle#change\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any that were passed\n * into the `SelectionHandle` constructor).\n */\n clear(extraInfo) {\n if (this._var)\n this.set(void 0, this._mergeExtraInfo(extraInfo));\n }\n\n /**\n * Subscribes to events on this `SelectionHandle`.\n *\n * @param {string} eventType - Indicates the type of events to listen to.\n * Currently, only `\"change\"` is supported.\n * @param {SelectionHandle~listener} listener - The callback function that\n * will be invoked when the event occurs.\n * @return {string} - A token to pass to {@link SelectionHandle#off} to cancel\n * this subscription.\n */\n on(eventType, listener) {\n return this._emitter.on(eventType, listener);\n }\n\n /**\n * Cancels event subscriptions created by {@link SelectionHandle#on}.\n *\n * @param {string} eventType - The type of event to unsubscribe.\n * @param {string|SelectionHandle~listener} listener - Either the callback\n * function previously passed into {@link SelectionHandle#on}, or the\n * string that was returned from {@link SelectionHandle#on}.\n */\n off(eventType, listener) {\n return this._emitter.off(eventType, listener);\n }\n\n /**\n * Shuts down the `SelectionHandle` object.\n *\n * Removes all event listeners that were added through this handle.\n */\n close() {\n this._emitter.removeAllListeners();\n this.setGroup(null);\n }\n}\n\n/**\n * @callback SelectionHandle~listener\n * @param {Object} event - An object containing details of the event. For\n * `\"change\"` events, this includes the properties `value` (the new\n * value of the selection, or `undefined` if no selection is active),\n * `oldValue` (the previous value of the selection), and `sender` (the\n * `SelectionHandle` instance that made the change).\n */\n\n/**\n * @event SelectionHandle#change\n * @type {object}\n * @property {object} value - The new value of the selection, or `undefined`\n * if no selection is active.\n * @property {object} oldValue - The previous value of the selection.\n * @property {SelectionHandle} sender - The `SelectionHandle` instance that\n * changed the value.\n */\n", - "export function extend(target, ...sources) {\n for (let i = 0; i < sources.length; i++) {\n let src = sources[i];\n if (typeof(src) === \"undefined\" || src === null)\n continue;\n\n for (let key in src) {\n if (src.hasOwnProperty(key)) {\n target[key] = src[key];\n }\n }\n }\n return target;\n}\n\nexport function checkSorted(list) {\n for (let i = 1; i < list.length; i++) {\n if (list[i] <= list[i-1]) {\n throw new Error(\"List is not sorted or contains duplicate\");\n }\n }\n}\n\nexport function diffSortedLists(a, b) {\n let i_a = 0;\n let i_b = 0;\n\n if (!a) a = [];\n if (!b) b = [];\n\n let a_only = [];\n let b_only = [];\n\n checkSorted(a);\n checkSorted(b);\n\n while (i_a < a.length && i_b < b.length) {\n if (a[i_a] === b[i_b]) {\n i_a++;\n i_b++;\n } else if (a[i_a] < b[i_b]) {\n a_only.push(a[i_a++]);\n } else {\n b_only.push(b[i_b++]);\n }\n }\n\n if (i_a < a.length)\n a_only = a_only.concat(a.slice(i_a));\n if (i_b < b.length)\n b_only = b_only.concat(b.slice(i_b));\n return {\n removed: a_only,\n added: b_only\n };\n}\n\n// Convert from wide: { colA: [1,2,3], colB: [4,5,6], ... }\n// to long: [ {colA: 1, colB: 4}, {colA: 2, colB: 5}, ... ]\nexport function dataframeToD3(df) {\n let names = [];\n let length;\n for (let name in df) {\n if (df.hasOwnProperty(name))\n names.push(name);\n if (typeof(df[name]) !== \"object\" || typeof(df[name].length) === \"undefined\") {\n throw new Error(\"All fields must be arrays\");\n } else if (typeof(length) !== \"undefined\" && length !== df[name].length) {\n throw new Error(\"All fields must be arrays of the same length\");\n }\n length = df[name].length;\n }\n let results = [];\n let item;\n for (let row = 0; row < length; row++) {\n item = {};\n for (let col = 0; col < names.length; col++) {\n item[names[col]] = df[names[col]][row];\n }\n results.push(item);\n }\n return results;\n}\n\n/**\n * Keeps track of all event listener additions/removals and lets all active\n * listeners be removed with a single operation.\n *\n * @private\n */\nexport class SubscriptionTracker {\n constructor(emitter) {\n this._emitter = emitter;\n this._subs = {};\n }\n\n on(eventType, listener) {\n let sub = this._emitter.on(eventType, listener);\n this._subs[sub] = eventType;\n return sub;\n }\n\n off(eventType, listener) {\n let sub = this._emitter.off(eventType, listener);\n if (sub) {\n delete this._subs[sub];\n }\n return sub;\n }\n\n removeAllListeners() {\n let current_subs = this._subs;\n this._subs = {};\n Object.keys(current_subs).forEach((sub) => {\n this._emitter.off(current_subs[sub], sub);\n });\n }\n}\n", - "import Events from \"./events\";\n\nexport default class Var {\n constructor(group, name, /*optional*/ value) {\n this._group = group;\n this._name = name;\n this._value = value;\n this._events = new Events();\n }\n\n get() {\n return this._value;\n }\n\n set(value, /*optional*/ event) {\n if (this._value === value) {\n // Do nothing; the value hasn't changed\n return;\n }\n let oldValue = this._value;\n this._value = value;\n // Alert JavaScript listeners that the value has changed\n let evt = {};\n if (event && typeof(event) === \"object\") {\n for (let k in event) {\n if (event.hasOwnProperty(k))\n evt[k] = event[k];\n }\n }\n evt.oldValue = oldValue;\n evt.value = value;\n this._events.trigger(\"change\", evt, this);\n\n // TODO: Make this extensible, to let arbitrary back-ends know that\n // something has changed\n if (global.Shiny && global.Shiny.onInputChange) {\n global.Shiny.onInputChange(\n \".clientValue-\" +\n (this._group.name !== null ? this._group.name + \"-\" : \"\") +\n this._name,\n typeof(value) === \"undefined\" ? null : value\n );\n }\n }\n\n on(eventType, listener) {\n return this._events.on(eventType, listener);\n }\n\n off(eventType, listener) {\n return this._events.off(eventType, listener);\n }\n}\n" - ] -} \ No newline at end of file diff --git a/src/site_libs/crosstalk-1.2.1/js/crosstalk.min.js b/src/site_libs/crosstalk-1.2.1/js/crosstalk.min.js deleted file mode 100644 index b7ec0ac..0000000 --- a/src/site_libs/crosstalk-1.2.1/js/crosstalk.min.js +++ /dev/null @@ -1,2 +0,0 @@ -!function o(u,a,l){function s(n,e){if(!a[n]){if(!u[n]){var t="function"==typeof require&&require;if(!e&&t)return t(n,!0);if(f)return f(n,!0);var r=new Error("Cannot find module '"+n+"'");throw r.code="MODULE_NOT_FOUND",r}var i=a[n]={exports:{}};u[n][0].call(i.exports,function(e){var t=u[n][1][e];return s(t||e)},i,i.exports,o,u,a,l)}return a[n].exports}for(var f="function"==typeof require&&require,e=0;e?@[\\\]^`{|}~])/g,"\\$1")+"']"),r=JSON.parse(n[0].innerText),i=e.factory(t,r);o(t).data("crosstalk-instance",i),o(t).addClass("crosstalk-input-bound")}if(t.Shiny){var e=new t.Shiny.InputBinding,u=t.jQuery;u.extend(e,{find:function(e){return u(e).find(".crosstalk-input")},initialize:function(e){var t,n;u(e).hasClass("crosstalk-input-bound")||(n=o(t=e),Object.keys(r).forEach(function(e){n.hasClass(e)&&!n.hasClass("crosstalk-input-bound")&&i(r[e],t)}))},getId:function(e){return e.id},getValue:function(e){},setValue:function(e,t){},receiveMessage:function(e,t){},subscribe:function(e,t){u(e).data("crosstalk-instance").resume()},unsubscribe:function(e){u(e).data("crosstalk-instance").suspend()}}),t.Shiny.inputBindings.register(e,"crosstalk.inputBinding")}}).call(this,"undefined"!=typeof global?global:"undefined"!=typeof self?self:"undefined"!=typeof window?window:{})},{}],7:[function(r,e,t){(function(e){"use strict";var t=function(e){{if(e&&e.__esModule)return e;var t={};if(null!=e)for(var n in e)Object.prototype.hasOwnProperty.call(e,n)&&(t[n]=e[n]);return t.default=e,t}}(r("./input")),n=r("./filter");var a=e.jQuery;t.register({className:"crosstalk-input-checkboxgroup",factory:function(e,r){var i=new n.FilterHandle(r.group),o=void 0,u=a(e);return u.on("change","input[type='checkbox']",function(){var e=u.find("input[type='checkbox']:checked");if(0===e.length)o=null,i.clear();else{var t={};e.each(function(){r.map[this.value].forEach(function(e){t[e]=!0})});var n=Object.keys(t);n.sort(),o=n,i.set(n)}}),{suspend:function(){i.clear()},resume:function(){o&&i.set(o)}}}})}).call(this,"undefined"!=typeof global?global:"undefined"!=typeof self?self:"undefined"!=typeof window?window:{})},{"./filter":2,"./input":6}],8:[function(r,e,t){(function(e){"use strict";var t=n(r("./input")),l=n(r("./util")),s=r("./filter");function n(e){if(e&&e.__esModule)return e;var t={};if(null!=e)for(var n in e)Object.prototype.hasOwnProperty.call(e,n)&&(t[n]=e[n]);return t.default=e,t}var f=e.jQuery;t.register({className:"crosstalk-input-select",factory:function(e,n){var t=l.dataframeToD3(n.items),r={options:[{value:"",label:"(All)"}].concat(t),valueField:"value",labelField:"label",searchField:"label"},i=f(e).find("select")[0],o=f(i).selectize(r)[0].selectize,u=new s.FilterHandle(n.group),a=void 0;return o.on("change",function(){if(0===o.items.length)a=null,u.clear();else{var t={};o.items.forEach(function(e){n.map[e].forEach(function(e){t[e]=!0})});var e=Object.keys(t);e.sort(),a=e,u.set(e)}}),{suspend:function(){u.clear()},resume:function(){a&&u.set(a)}}}})}).call(this,"undefined"!=typeof global?global:"undefined"!=typeof self?self:"undefined"!=typeof window?window:{})},{"./filter":2,"./input":6,"./util":11}],9:[function(n,e,t){(function(e){"use strict";var d=function(e,t){if(Array.isArray(e))return e;if(Symbol.iterator in Object(e))return function(e,t){var n=[],r=!0,i=!1,o=void 0;try{for(var u,a=e[Symbol.iterator]();!(r=(u=a.next()).done)&&(n.push(u.value),!t||n.length!==t);r=!0);}catch(e){i=!0,o=e}finally{try{!r&&a.return&&a.return()}finally{if(i)throw o}}return n}(e,t);throw new TypeError("Invalid attempt to destructure non-iterable instance")},t=function(e){{if(e&&e.__esModule)return e;var t={};if(null!=e)for(var n in e)Object.prototype.hasOwnProperty.call(e,n)&&(t[n]=e[n]);return t.default=e,t}}(n("./input")),a=n("./filter");var v=e.jQuery,p=e.strftime;function y(e,t){for(var n=e.toString();n.length {\n this._eventRelay.trigger(\"change\", e, this);\n });\n this._varOnChangeSub = sub;\n }\n }\n\n /**\n * Combine the given `extraInfo` (if any) with the handle's default\n * `_extraInfo` (if any).\n * @private\n */\n _mergeExtraInfo(extraInfo) {\n return util.extend({},\n this._extraInfo ? this._extraInfo : null,\n extraInfo ? extraInfo : null);\n }\n\n /**\n * Close the handle. This clears this handle's contribution to the filter set,\n * and unsubscribes all event listeners.\n */\n close() {\n this._emitter.removeAllListeners();\n this.clear();\n this.setGroup(null);\n }\n\n /**\n * Clear this handle's contribution to the filter set.\n *\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any options that were\n * passed into the `FilterHandle` constructor).\n * \n * @fires FilterHandle#change\n */\n clear(extraInfo) {\n if (!this._filterSet)\n return;\n this._filterSet.clear(this._id);\n this._onChange(extraInfo);\n }\n\n /**\n * Set this handle's contribution to the filter set. This array should consist\n * of the keys of the rows that _should_ be displayed; any keys that are not\n * present in the array will be considered _filtered out_. Note that multiple\n * `FilterHandle` instances in the group may each contribute an array of keys,\n * and only those keys that appear in _all_ of the arrays make it through the\n * filter.\n *\n * @param {string[]} keys - Empty array, or array of keys. To clear the\n * filter, don't pass an empty array; instead, use the\n * {@link FilterHandle#clear} method.\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any options that were\n * passed into the `FilterHandle` constructor).\n * \n * @fires FilterHandle#change\n */\n set(keys, extraInfo) {\n if (!this._filterSet)\n return;\n this._filterSet.update(this._id, keys);\n this._onChange(extraInfo);\n }\n\n /**\n * @return {string[]|null} - Either: 1) an array of keys that made it through\n * all of the `FilterHandle` instances, or, 2) `null`, which means no filter\n * is being applied (all data should be displayed).\n */\n get filteredKeys() {\n return this._filterSet ? this._filterSet.value : null;\n }\n\n /**\n * Subscribe to events on this `FilterHandle`.\n *\n * @param {string} eventType - Indicates the type of events to listen to.\n * Currently, only `\"change\"` is supported.\n * @param {FilterHandle~listener} listener - The callback function that\n * will be invoked when the event occurs.\n * @return {string} - A token to pass to {@link FilterHandle#off} to cancel\n * this subscription.\n */\n on(eventType, listener) {\n return this._emitter.on(eventType, listener);\n }\n\n /**\n * Cancel event subscriptions created by {@link FilterHandle#on}.\n *\n * @param {string} eventType - The type of event to unsubscribe.\n * @param {string|FilterHandle~listener} listener - Either the callback\n * function previously passed into {@link FilterHandle#on}, or the\n * string that was returned from {@link FilterHandle#on}.\n */\n off(eventType, listener) {\n return this._emitter.off(eventType, listener);\n }\n\n _onChange(extraInfo) {\n if (!this._filterSet)\n return;\n this._filterVar.set(this._filterSet.value, this._mergeExtraInfo(extraInfo));\n }\n\n /**\n * @callback FilterHandle~listener\n * @param {Object} event - An object containing details of the event. For\n * `\"change\"` events, this includes the properties `value` (the new\n * value of the filter set, or `null` if no filter set is active),\n * `oldValue` (the previous value of the filter set), and `sender` (the\n * `FilterHandle` instance that made the change).\n */\n\n}\n\n/**\n * @event FilterHandle#change\n * @type {object}\n * @property {object} value - The new value of the filter set, or `null`\n * if no filter set is active.\n * @property {object} oldValue - The previous value of the filter set.\n * @property {FilterHandle} sender - The `FilterHandle` instance that\n * changed the value.\n */\n","import { diffSortedLists } from \"./util\";\n\nfunction naturalComparator(a, b) {\n if (a === b) {\n return 0;\n } else if (a < b) {\n return -1;\n } else if (a > b) {\n return 1;\n }\n}\n\n/**\n * @private\n */\nexport default class FilterSet {\n constructor() {\n this.reset();\n }\n\n reset() {\n // Key: handle ID, Value: array of selected keys, or null\n this._handles = {};\n // Key: key string, Value: count of handles that include it\n this._keys = {};\n this._value = null;\n this._activeHandles = 0;\n }\n\n get value() {\n return this._value;\n }\n\n update(handleId, keys) {\n if (keys !== null) {\n keys = keys.slice(0); // clone before sorting\n keys.sort(naturalComparator);\n }\n\n let {added, removed} = diffSortedLists(this._handles[handleId], keys);\n this._handles[handleId] = keys;\n\n for (let i = 0; i < added.length; i++) {\n this._keys[added[i]] = (this._keys[added[i]] || 0) + 1;\n }\n for (let i = 0; i < removed.length; i++) {\n this._keys[removed[i]]--;\n }\n\n this._updateValue(keys);\n }\n\n /**\n * @param {string[]} keys Sorted array of strings that indicate\n * a superset of possible keys.\n * @private\n */\n _updateValue(keys = this._allKeys) {\n let handleCount = Object.keys(this._handles).length;\n if (handleCount === 0) {\n this._value = null;\n } else {\n this._value = [];\n for (let i = 0; i < keys.length; i++) {\n let count = this._keys[keys[i]];\n if (count === handleCount) {\n this._value.push(keys[i]);\n }\n }\n }\n }\n\n clear(handleId) {\n if (typeof(this._handles[handleId]) === \"undefined\") {\n return;\n }\n\n let keys = this._handles[handleId];\n if (!keys) {\n keys = [];\n }\n\n for (let i = 0; i < keys.length; i++) {\n this._keys[keys[i]]--;\n }\n delete this._handles[handleId];\n\n this._updateValue();\n }\n\n get _allKeys() {\n let allKeys = Object.keys(this._keys);\n allKeys.sort(naturalComparator);\n return allKeys;\n }\n}\n","import Var from \"./var\";\n\n// Use a global so that multiple copies of crosstalk.js can be loaded and still\n// have groups behave as singletons across all copies.\nglobal.__crosstalk_groups = global.__crosstalk_groups || {};\nlet groups = global.__crosstalk_groups;\n\nexport default function group(groupName) {\n if (groupName && typeof(groupName) === \"string\") {\n if (!groups.hasOwnProperty(groupName)) {\n groups[groupName] = new Group(groupName);\n }\n return groups[groupName];\n } else if (typeof(groupName) === \"object\" && groupName._vars && groupName.var) {\n // Appears to already be a group object\n return groupName;\n } else if (Array.isArray(groupName) &&\n groupName.length == 1 &&\n typeof(groupName[0]) === \"string\") {\n return group(groupName[0]);\n } else {\n throw new Error(\"Invalid groupName argument\");\n }\n}\n\nclass Group {\n constructor(name) {\n this.name = name;\n this._vars = {};\n }\n\n var(name) {\n if (!name || typeof(name) !== \"string\") {\n throw new Error(\"Invalid var name\");\n }\n\n if (!this._vars.hasOwnProperty(name))\n this._vars[name] = new Var(this, name);\n return this._vars[name];\n }\n\n has(name) {\n if (!name || typeof(name) !== \"string\") {\n throw new Error(\"Invalid var name\");\n }\n\n return this._vars.hasOwnProperty(name);\n }\n}\n","import group from \"./group\";\nimport { SelectionHandle } from \"./selection\";\nimport { FilterHandle } from \"./filter\";\nimport { bind } from \"./input\";\nimport \"./input_selectize\";\nimport \"./input_checkboxgroup\";\nimport \"./input_slider\";\n\nconst defaultGroup = group(\"default\");\n\nfunction var_(name) {\n return defaultGroup.var(name);\n}\n\nfunction has(name) {\n return defaultGroup.has(name);\n}\n\nif (global.Shiny) {\n global.Shiny.addCustomMessageHandler(\"update-client-value\", function(message) {\n if (typeof(message.group) === \"string\") {\n group(message.group).var(message.name).set(message.value);\n } else {\n var_(message.name).set(message.value);\n }\n });\n}\n\nconst crosstalk = {\n group: group,\n var: var_,\n has: has,\n SelectionHandle: SelectionHandle,\n FilterHandle: FilterHandle,\n bind: bind\n};\n\n/**\n * @namespace crosstalk\n */\nexport default crosstalk;\nglobal.crosstalk = crosstalk;\n","let $ = global.jQuery;\n\nlet bindings = {};\n\nexport function register(reg) {\n bindings[reg.className] = reg;\n if (global.document && global.document.readyState !== \"complete\") {\n $(() => {\n bind();\n });\n } else if (global.document) {\n setTimeout(bind, 100);\n }\n}\n\nexport function bind() {\n Object.keys(bindings).forEach(function(className) {\n let binding = bindings[className];\n $(\".\" + binding.className).not(\".crosstalk-input-bound\").each(function(i, el) {\n bindInstance(binding, el);\n });\n });\n}\n\n// Escape jQuery identifier\nfunction $escape(val) {\n return val.replace(/([!\"#$%&'()*+,./:;<=>?@[\\\\\\]^`{|}~])/g, \"\\\\$1\");\n}\n\nfunction bindEl(el) {\n let $el = $(el);\n Object.keys(bindings).forEach(function(className) {\n if ($el.hasClass(className) && !$el.hasClass(\"crosstalk-input-bound\")) {\n let binding = bindings[className];\n bindInstance(binding, el);\n }\n });\n}\n\nfunction bindInstance(binding, el) {\n let jsonEl = $(el).find(\"script[type='application/json'][data-for='\" + $escape(el.id) + \"']\");\n let data = JSON.parse(jsonEl[0].innerText);\n\n let instance = binding.factory(el, data);\n $(el).data(\"crosstalk-instance\", instance);\n $(el).addClass(\"crosstalk-input-bound\");\n}\n\nif (global.Shiny) {\n let inputBinding = new global.Shiny.InputBinding();\n let $ = global.jQuery;\n $.extend(inputBinding, {\n find: function(scope) {\n return $(scope).find(\".crosstalk-input\");\n },\n initialize: function(el) {\n if (!$(el).hasClass(\"crosstalk-input-bound\")) {\n bindEl(el);\n }\n },\n getId: function(el) {\n return el.id;\n },\n getValue: function(el) {\n\n },\n setValue: function(el, value) {\n\n },\n receiveMessage: function(el, data) {\n\n },\n subscribe: function(el, callback) {\n $(el).data(\"crosstalk-instance\").resume();\n },\n unsubscribe: function(el) {\n $(el).data(\"crosstalk-instance\").suspend();\n }\n });\n global.Shiny.inputBindings.register(inputBinding, \"crosstalk.inputBinding\");\n}\n","import * as input from \"./input\";\nimport { FilterHandle } from \"./filter\";\n\nlet $ = global.jQuery;\n\ninput.register({\n className: \"crosstalk-input-checkboxgroup\",\n\n factory: function(el, data) {\n /*\n * map: {\"groupA\": [\"keyA\", \"keyB\", ...], ...}\n * group: \"ct-groupname\"\n */\n let ctHandle = new FilterHandle(data.group);\n\n let lastKnownKeys;\n let $el = $(el);\n $el.on(\"change\", \"input[type='checkbox']\", function() {\n let checked = $el.find(\"input[type='checkbox']:checked\");\n if (checked.length === 0) {\n lastKnownKeys = null;\n ctHandle.clear();\n } else {\n let keys = {};\n checked.each(function() {\n data.map[this.value].forEach(function(key) {\n keys[key] = true;\n });\n });\n let keyArray = Object.keys(keys);\n keyArray.sort();\n lastKnownKeys = keyArray;\n ctHandle.set(keyArray);\n }\n });\n\n return {\n suspend: function() {\n ctHandle.clear();\n },\n resume: function() {\n if (lastKnownKeys)\n ctHandle.set(lastKnownKeys);\n }\n };\n }\n});\n","import * as input from \"./input\";\nimport * as util from \"./util\";\nimport { FilterHandle } from \"./filter\";\n\nlet $ = global.jQuery;\n\ninput.register({\n className: \"crosstalk-input-select\",\n\n factory: function(el, data) {\n /*\n * items: {value: [...], label: [...]}\n * map: {\"groupA\": [\"keyA\", \"keyB\", ...], ...}\n * group: \"ct-groupname\"\n */\n\n let first = [{value: \"\", label: \"(All)\"}];\n let items = util.dataframeToD3(data.items);\n let opts = {\n options: first.concat(items),\n valueField: \"value\",\n labelField: \"label\",\n searchField: \"label\"\n };\n\n let select = $(el).find(\"select\")[0];\n\n let selectize = $(select).selectize(opts)[0].selectize;\n\n let ctHandle = new FilterHandle(data.group);\n\n let lastKnownKeys;\n selectize.on(\"change\", function() {\n if (selectize.items.length === 0) {\n lastKnownKeys = null;\n ctHandle.clear();\n } else {\n let keys = {};\n selectize.items.forEach(function(group) {\n data.map[group].forEach(function(key) {\n keys[key] = true;\n });\n });\n let keyArray = Object.keys(keys);\n keyArray.sort();\n lastKnownKeys = keyArray;\n ctHandle.set(keyArray);\n }\n });\n\n return {\n suspend: function() {\n ctHandle.clear();\n },\n resume: function() {\n if (lastKnownKeys)\n ctHandle.set(lastKnownKeys);\n }\n };\n }\n});\n","import * as input from \"./input\";\nimport { FilterHandle } from \"./filter\";\n\nlet $ = global.jQuery;\nlet strftime = global.strftime;\n\ninput.register({\n className: \"crosstalk-input-slider\",\n\n factory: function(el, data) {\n /*\n * map: {\"groupA\": [\"keyA\", \"keyB\", ...], ...}\n * group: \"ct-groupname\"\n */\n let ctHandle = new FilterHandle(data.group);\n\n let opts = {};\n let $el = $(el).find(\"input\");\n let dataType = $el.data(\"data-type\");\n let timeFormat = $el.data(\"time-format\");\n let round = $el.data(\"round\");\n let timeFormatter;\n\n // Set up formatting functions\n if (dataType === \"date\") {\n timeFormatter = strftime.utc();\n opts.prettify = function(num) {\n return timeFormatter(timeFormat, new Date(num));\n };\n\n } else if (dataType === \"datetime\") {\n let timezone = $el.data(\"timezone\");\n if (timezone)\n timeFormatter = strftime.timezone(timezone);\n else\n timeFormatter = strftime;\n\n opts.prettify = function(num) {\n return timeFormatter(timeFormat, new Date(num));\n };\n } else if (dataType === \"number\") {\n if (typeof round !== \"undefined\")\n opts.prettify = function(num) {\n let factor = Math.pow(10, round);\n return Math.round(num * factor) / factor;\n };\n }\n\n $el.ionRangeSlider(opts);\n\n function getValue() {\n let result = $el.data(\"ionRangeSlider\").result;\n\n // Function for converting numeric value from slider to appropriate type.\n let convert;\n let dataType = $el.data(\"data-type\");\n if (dataType === \"date\") {\n convert = function(val) {\n return formatDateUTC(new Date(+val));\n };\n } else if (dataType === \"datetime\") {\n convert = function(val) {\n // Convert ms to s\n return +val / 1000;\n };\n } else {\n convert = function(val) { return +val; };\n }\n\n if ($el.data(\"ionRangeSlider\").options.type === \"double\") {\n return [convert(result.from), convert(result.to)];\n } else {\n return convert(result.from);\n }\n }\n\n let lastKnownKeys = null;\n\n $el.on(\"change.crosstalkSliderInput\", function(event) {\n if (!$el.data(\"updating\") && !$el.data(\"animating\")) {\n let [from, to] = getValue();\n let keys = [];\n for (let i = 0; i < data.values.length; i++) {\n let val = data.values[i];\n if (val >= from && val <= to) {\n keys.push(data.keys[i]);\n }\n }\n keys.sort();\n ctHandle.set(keys);\n lastKnownKeys = keys;\n }\n });\n\n\n // let $el = $(el);\n // $el.on(\"change\", \"input[type=\"checkbox\"]\", function() {\n // let checked = $el.find(\"input[type=\"checkbox\"]:checked\");\n // if (checked.length === 0) {\n // ctHandle.clear();\n // } else {\n // let keys = {};\n // checked.each(function() {\n // data.map[this.value].forEach(function(key) {\n // keys[key] = true;\n // });\n // });\n // let keyArray = Object.keys(keys);\n // keyArray.sort();\n // ctHandle.set(keyArray);\n // }\n // });\n\n return {\n suspend: function() {\n ctHandle.clear();\n },\n resume: function() {\n if (lastKnownKeys)\n ctHandle.set(lastKnownKeys);\n }\n };\n }\n});\n\n\n// Convert a number to a string with leading zeros\nfunction padZeros(n, digits) {\n let str = n.toString();\n while (str.length < digits)\n str = \"0\" + str;\n return str;\n}\n\n// Given a Date object, return a string in yyyy-mm-dd format, using the\n// UTC date. This may be a day off from the date in the local time zone.\nfunction formatDateUTC(date) {\n if (date instanceof Date) {\n return date.getUTCFullYear() + \"-\" +\n padZeros(date.getUTCMonth()+1, 2) + \"-\" +\n padZeros(date.getUTCDate(), 2);\n\n } else {\n return null;\n }\n}\n","import Events from \"./events\";\nimport grp from \"./group\";\nimport * as util from \"./util\";\n\n/**\n * Use this class to read and write (and listen for changes to) the selection\n * for a Crosstalk group. This is intended to be used for linked brushing.\n *\n * If two (or more) `SelectionHandle` instances in the same webpage share the\n * same group name, they will share the same state. Setting the selection using\n * one `SelectionHandle` instance will result in the `value` property instantly\n * changing across the others, and `\"change\"` event listeners on all instances\n * (including the one that initiated the sending) will fire.\n *\n * @param {string} [group] - The name of the Crosstalk group, or if none,\n * null or undefined (or any other falsy value). This can be changed later\n * via the [SelectionHandle#setGroup](#setGroup) method.\n * @param {Object} [extraInfo] - An object whose properties will be copied to\n * the event object whenever an event is emitted.\n */\nexport class SelectionHandle {\n\n constructor(group = null, extraInfo = null) {\n this._eventRelay = new Events();\n this._emitter = new util.SubscriptionTracker(this._eventRelay);\n\n // Name of the group we're currently tracking, if any. Can change over time.\n this._group = null;\n // The Var we're currently tracking, if any. Can change over time.\n this._var = null;\n // The event handler subscription we currently have on var.on(\"change\").\n this._varOnChangeSub = null;\n\n this._extraInfo = util.extend({ sender: this }, extraInfo);\n\n this.setGroup(group);\n }\n\n /**\n * Changes the Crosstalk group membership of this SelectionHandle. The group\n * being switched away from (if any) will not have its selection value\n * modified as a result of calling `setGroup`, even if this handle was the\n * most recent handle to set the selection of the group.\n *\n * The group being switched to (if any) will also not have its selection value\n * modified as a result of calling `setGroup`. If you want to set the\n * selection value of the new group, call `set` explicitly.\n *\n * @param {string} group - The name of the Crosstalk group, or null (or\n * undefined) to clear the group.\n */\n setGroup(group) {\n // If group is unchanged, do nothing\n if (this._group === group)\n return;\n // Treat null, undefined, and other falsy values the same\n if (!this._group && !group)\n return;\n\n if (this._var) {\n this._var.off(\"change\", this._varOnChangeSub);\n this._var = null;\n this._varOnChangeSub = null;\n }\n\n this._group = group;\n\n if (group) {\n this._var = grp(group).var(\"selection\");\n let sub = this._var.on(\"change\", (e) => {\n this._eventRelay.trigger(\"change\", e, this);\n });\n this._varOnChangeSub = sub;\n }\n }\n\n /**\n * Retrieves the current selection for the group represented by this\n * `SelectionHandle`.\n *\n * - If no selection is active, then this value will be falsy.\n * - If a selection is active, but no data points are selected, then this\n * value will be an empty array.\n * - If a selection is active, and data points are selected, then the keys\n * of the selected data points will be present in the array.\n */\n get value() {\n return this._var ? this._var.get() : null;\n }\n\n /**\n * Combines the given `extraInfo` (if any) with the handle's default\n * `_extraInfo` (if any).\n * @private\n */\n _mergeExtraInfo(extraInfo) {\n // Important incidental effect: shallow clone is returned\n return util.extend({},\n this._extraInfo ? this._extraInfo : null,\n extraInfo ? extraInfo : null);\n }\n\n /**\n * Overwrites the current selection for the group, and raises the `\"change\"`\n * event among all of the group's '`SelectionHandle` instances (including\n * this one).\n *\n * @fires SelectionHandle#change\n * @param {string[]} selectedKeys - Falsy, empty array, or array of keys (see\n * {@link SelectionHandle#value}).\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any options that were\n * passed into the `SelectionHandle` constructor).\n */\n set(selectedKeys, extraInfo) {\n if (this._var)\n this._var.set(selectedKeys, this._mergeExtraInfo(extraInfo));\n }\n\n /**\n * Overwrites the current selection for the group, and raises the `\"change\"`\n * event among all of the group's '`SelectionHandle` instances (including\n * this one).\n *\n * @fires SelectionHandle#change\n * @param {Object} [extraInfo] - Extra properties to be included on the event\n * object that's passed to listeners (in addition to any that were passed\n * into the `SelectionHandle` constructor).\n */\n clear(extraInfo) {\n if (this._var)\n this.set(void 0, this._mergeExtraInfo(extraInfo));\n }\n\n /**\n * Subscribes to events on this `SelectionHandle`.\n *\n * @param {string} eventType - Indicates the type of events to listen to.\n * Currently, only `\"change\"` is supported.\n * @param {SelectionHandle~listener} listener - The callback function that\n * will be invoked when the event occurs.\n * @return {string} - A token to pass to {@link SelectionHandle#off} to cancel\n * this subscription.\n */\n on(eventType, listener) {\n return this._emitter.on(eventType, listener);\n }\n\n /**\n * Cancels event subscriptions created by {@link SelectionHandle#on}.\n *\n * @param {string} eventType - The type of event to unsubscribe.\n * @param {string|SelectionHandle~listener} listener - Either the callback\n * function previously passed into {@link SelectionHandle#on}, or the\n * string that was returned from {@link SelectionHandle#on}.\n */\n off(eventType, listener) {\n return this._emitter.off(eventType, listener);\n }\n\n /**\n * Shuts down the `SelectionHandle` object.\n *\n * Removes all event listeners that were added through this handle.\n */\n close() {\n this._emitter.removeAllListeners();\n this.setGroup(null);\n }\n}\n\n/**\n * @callback SelectionHandle~listener\n * @param {Object} event - An object containing details of the event. For\n * `\"change\"` events, this includes the properties `value` (the new\n * value of the selection, or `undefined` if no selection is active),\n * `oldValue` (the previous value of the selection), and `sender` (the\n * `SelectionHandle` instance that made the change).\n */\n\n/**\n * @event SelectionHandle#change\n * @type {object}\n * @property {object} value - The new value of the selection, or `undefined`\n * if no selection is active.\n * @property {object} oldValue - The previous value of the selection.\n * @property {SelectionHandle} sender - The `SelectionHandle` instance that\n * changed the value.\n */\n","export function extend(target, ...sources) {\n for (let i = 0; i < sources.length; i++) {\n let src = sources[i];\n if (typeof(src) === \"undefined\" || src === null)\n continue;\n\n for (let key in src) {\n if (src.hasOwnProperty(key)) {\n target[key] = src[key];\n }\n }\n }\n return target;\n}\n\nexport function checkSorted(list) {\n for (let i = 1; i < list.length; i++) {\n if (list[i] <= list[i-1]) {\n throw new Error(\"List is not sorted or contains duplicate\");\n }\n }\n}\n\nexport function diffSortedLists(a, b) {\n let i_a = 0;\n let i_b = 0;\n\n if (!a) a = [];\n if (!b) b = [];\n\n let a_only = [];\n let b_only = [];\n\n checkSorted(a);\n checkSorted(b);\n\n while (i_a < a.length && i_b < b.length) {\n if (a[i_a] === b[i_b]) {\n i_a++;\n i_b++;\n } else if (a[i_a] < b[i_b]) {\n a_only.push(a[i_a++]);\n } else {\n b_only.push(b[i_b++]);\n }\n }\n\n if (i_a < a.length)\n a_only = a_only.concat(a.slice(i_a));\n if (i_b < b.length)\n b_only = b_only.concat(b.slice(i_b));\n return {\n removed: a_only,\n added: b_only\n };\n}\n\n// Convert from wide: { colA: [1,2,3], colB: [4,5,6], ... }\n// to long: [ {colA: 1, colB: 4}, {colA: 2, colB: 5}, ... ]\nexport function dataframeToD3(df) {\n let names = [];\n let length;\n for (let name in df) {\n if (df.hasOwnProperty(name))\n names.push(name);\n if (typeof(df[name]) !== \"object\" || typeof(df[name].length) === \"undefined\") {\n throw new Error(\"All fields must be arrays\");\n } else if (typeof(length) !== \"undefined\" && length !== df[name].length) {\n throw new Error(\"All fields must be arrays of the same length\");\n }\n length = df[name].length;\n }\n let results = [];\n let item;\n for (let row = 0; row < length; row++) {\n item = {};\n for (let col = 0; col < names.length; col++) {\n item[names[col]] = df[names[col]][row];\n }\n results.push(item);\n }\n return results;\n}\n\n/**\n * Keeps track of all event listener additions/removals and lets all active\n * listeners be removed with a single operation.\n *\n * @private\n */\nexport class SubscriptionTracker {\n constructor(emitter) {\n this._emitter = emitter;\n this._subs = {};\n }\n\n on(eventType, listener) {\n let sub = this._emitter.on(eventType, listener);\n this._subs[sub] = eventType;\n return sub;\n }\n\n off(eventType, listener) {\n let sub = this._emitter.off(eventType, listener);\n if (sub) {\n delete this._subs[sub];\n }\n return sub;\n }\n\n removeAllListeners() {\n let current_subs = this._subs;\n this._subs = {};\n Object.keys(current_subs).forEach((sub) => {\n this._emitter.off(current_subs[sub], sub);\n });\n }\n}\n","import Events from \"./events\";\n\nexport default class Var {\n constructor(group, name, /*optional*/ value) {\n this._group = group;\n this._name = name;\n this._value = value;\n this._events = new Events();\n }\n\n get() {\n return this._value;\n }\n\n set(value, /*optional*/ event) {\n if (this._value === value) {\n // Do nothing; the value hasn't changed\n return;\n }\n let oldValue = this._value;\n this._value = value;\n // Alert JavaScript listeners that the value has changed\n let evt = {};\n if (event && typeof(event) === \"object\") {\n for (let k in event) {\n if (event.hasOwnProperty(k))\n evt[k] = event[k];\n }\n }\n evt.oldValue = oldValue;\n evt.value = value;\n this._events.trigger(\"change\", evt, this);\n\n // TODO: Make this extensible, to let arbitrary back-ends know that\n // something has changed\n if (global.Shiny && global.Shiny.onInputChange) {\n global.Shiny.onInputChange(\n \".clientValue-\" +\n (this._group.name !== null ? this._group.name + \"-\" : \"\") +\n this._name,\n typeof(value) === \"undefined\" ? null : value\n );\n }\n }\n\n on(eventType, listener) {\n return this._events.on(eventType, listener);\n }\n\n off(eventType, listener) {\n return this._events.off(eventType, listener);\n }\n}\n"]} \ No newline at end of file diff --git a/src/site_libs/crosstalk-1.2.1/scss/crosstalk.scss b/src/site_libs/crosstalk-1.2.1/scss/crosstalk.scss deleted file mode 100644 index 3566561..0000000 --- a/src/site_libs/crosstalk-1.2.1/scss/crosstalk.scss +++ /dev/null @@ -1,75 +0,0 @@ -/* Adjust margins outwards, so column contents line up with the edges of the - parent of container-fluid. */ -.container-fluid.crosstalk-bscols { - margin-left: -30px; - margin-right: -30px; - white-space: normal; -} - -/* But don't adjust the margins outwards if we're directly under the body, - i.e. we were the top-level of something at the console. */ -body > .container-fluid.crosstalk-bscols { - margin-left: auto; - margin-right: auto; -} - -.crosstalk-input-checkboxgroup .crosstalk-options-group .crosstalk-options-column { - display: inline-block; - padding-right: 12px; - vertical-align: top; -} - -@media only screen and (max-width:480px) { - .crosstalk-input-checkboxgroup .crosstalk-options-group .crosstalk-options-column { - display: block; - padding-right: inherit; - } -} - -/* Relevant BS3 styles to make filter_checkbox() look reasonable without Bootstrap */ -.crosstalk-input { - margin-bottom: 15px; /* a la .form-group */ - .control-label { - margin-bottom: 0; - vertical-align: middle; - } - input[type="checkbox"] { - margin: 4px 0 0; - margin-top: 1px; - line-height: normal; - } - .checkbox { - position: relative; - display: block; - margin-top: 10px; - margin-bottom: 10px; - } - .checkbox > label{ - padding-left: 20px; - margin-bottom: 0; - font-weight: 400; - cursor: pointer; - } - .checkbox input[type="checkbox"], - .checkbox-inline input[type="checkbox"] { - position: absolute; - margin-top: 2px; - margin-left: -20px; - } - .checkbox + .checkbox { - margin-top: -5px; - } - .checkbox-inline { - position: relative; - display: inline-block; - padding-left: 20px; - margin-bottom: 0; - font-weight: 400; - vertical-align: middle; - cursor: pointer; - } - .checkbox-inline + .checkbox-inline { - margin-top: 0; - margin-left: 10px; - } -} diff --git a/src/site_libs/datatables-binding-0.33/datatables.js b/src/site_libs/datatables-binding-0.33/datatables.js deleted file mode 100644 index 765b53c..0000000 --- a/src/site_libs/datatables-binding-0.33/datatables.js +++ /dev/null @@ -1,1539 +0,0 @@ -(function() { - -// some helper functions: using a global object DTWidget so that it can be used -// in JS() code, e.g. datatable(options = list(foo = JS('code'))); unlike R's -// dynamic scoping, when 'code' is eval'ed, JavaScript does not know objects -// from the "parent frame", e.g. JS('DTWidget') will not work unless it was made -// a global object -var DTWidget = {}; - -// 123456666.7890 -> 123,456,666.7890 -var markInterval = function(d, digits, interval, mark, decMark, precision) { - x = precision ? d.toPrecision(digits) : d.toFixed(digits); - if (!/^-?[\d.]+$/.test(x)) return x; - var xv = x.split('.'); - if (xv.length > 2) return x; // should have at most one decimal point - xv[0] = xv[0].replace(new RegExp('\\B(?=(\\d{' + interval + '})+(?!\\d))', 'g'), mark); - return xv.join(decMark); -}; - -DTWidget.formatCurrency = function(data, currency, digits, interval, mark, decMark, before, zeroPrint) { - var d = parseFloat(data); - if (isNaN(d)) return ''; - if (zeroPrint !== null && d === 0.0) return zeroPrint; - var res = markInterval(d, digits, interval, mark, decMark); - res = before ? (/^-/.test(res) ? '-' + currency + res.replace(/^-/, '') : currency + res) : - res + currency; - return res; -}; - -DTWidget.formatString = function(data, prefix, suffix) { - var d = data; - if (d === null) return ''; - return prefix + d + suffix; -}; - -DTWidget.formatPercentage = function(data, digits, interval, mark, decMark, zeroPrint) { - var d = parseFloat(data); - if (isNaN(d)) return ''; - if (zeroPrint !== null && d === 0.0) return zeroPrint; - return markInterval(d * 100, digits, interval, mark, decMark) + '%'; -}; - -DTWidget.formatRound = function(data, digits, interval, mark, decMark, zeroPrint) { - var d = parseFloat(data); - if (isNaN(d)) return ''; - if (zeroPrint !== null && d === 0.0) return zeroPrint; - return markInterval(d, digits, interval, mark, decMark); -}; - -DTWidget.formatSignif = function(data, digits, interval, mark, decMark, zeroPrint) { - var d = parseFloat(data); - if (isNaN(d)) return ''; - if (zeroPrint !== null && d === 0.0) return zeroPrint; - return markInterval(d, digits, interval, mark, decMark, true); -}; - -DTWidget.formatDate = function(data, method, params) { - var d = data; - if (d === null) return ''; - // (new Date('2015-10-28')).toDateString() may return 2015-10-27 because the - // actual time created could be like 'Tue Oct 27 2015 19:00:00 GMT-0500 (CDT)', - // i.e. the date-only string is treated as UTC time instead of local time - if ((method === 'toDateString' || method === 'toLocaleDateString') && /^\d{4,}\D\d{2}\D\d{2}$/.test(d)) { - d = d.split(/\D/); - d = new Date(d[0], d[1] - 1, d[2]); - } else { - d = new Date(d); - } - return d[method].apply(d, params); -}; - -window.DTWidget = DTWidget; - -// A helper function to update the properties of existing filters -var setFilterProps = function(td, props) { - // Update enabled/disabled state - var $input = $(td).find('input').first(); - var searchable = $input.data('searchable'); - $input.prop('disabled', !searchable || props.disabled); - - // Based on the filter type, set its new values - var type = td.getAttribute('data-type'); - if (['factor', 'logical'].includes(type)) { - // Reformat the new dropdown options for use with selectize - var new_vals = props.params.options.map(function(item) { - return { text: item, value: item }; - }); - - // Find the selectize object - var dropdown = $(td).find('.selectized').eq(0)[0].selectize; - - // Note the current values - var old_vals = dropdown.getValue(); - - // Remove the existing values - dropdown.clearOptions(); - - // Add the new options - dropdown.addOption(new_vals); - - // Preserve the existing values - dropdown.setValue(old_vals); - - } else if (['number', 'integer', 'date', 'time'].includes(type)) { - // Apply internal scaling to new limits. Updating scale not yet implemented. - var slider = $(td).find('.noUi-target').eq(0); - var scale = Math.pow(10, Math.max(0, +slider.data('scale') || 0)); - var new_vals = [props.params.min * scale, props.params.max * scale]; - - // Note what the new limits will be just for this filter - var new_lims = new_vals.slice(); - - // Determine the current values and limits - var old_vals = slider.val().map(Number); - var old_lims = slider.noUiSlider('options').range; - old_lims = [old_lims.min, old_lims.max]; - - // Preserve the current values if filters have been applied; otherwise, apply no filtering - if (old_vals[0] != old_lims[0]) { - new_vals[0] = Math.max(old_vals[0], new_vals[0]); - } - - if (old_vals[1] != old_lims[1]) { - new_vals[1] = Math.min(old_vals[1], new_vals[1]); - } - - // Update the endpoints of the slider - slider.noUiSlider({ - start: new_vals, - range: {'min': new_lims[0], 'max': new_lims[1]} - }, true); - } -}; - -var transposeArray2D = function(a) { - return a.length === 0 ? a : HTMLWidgets.transposeArray2D(a); -}; - -var crosstalkPluginsInstalled = false; - -function maybeInstallCrosstalkPlugins() { - if (crosstalkPluginsInstalled) - return; - crosstalkPluginsInstalled = true; - - $.fn.dataTable.ext.afnFiltering.push( - function(oSettings, aData, iDataIndex) { - var ctfilter = oSettings.nTable.ctfilter; - if (ctfilter && !ctfilter[iDataIndex]) - return false; - - var ctselect = oSettings.nTable.ctselect; - if (ctselect && !ctselect[iDataIndex]) - return false; - - return true; - } - ); -} - -HTMLWidgets.widget({ - name: "datatables", - type: "output", - renderOnNullValue: true, - initialize: function(el, width, height) { - // in order that the type=number inputs return a number - $.valHooks.number = { - get: function(el) { - var value = parseFloat(el.value); - return isNaN(value) ? "" : value; - } - }; - $(el).html(' '); - return { - data: null, - ctfilterHandle: new crosstalk.FilterHandle(), - ctfilterSubscription: null, - ctselectHandle: new crosstalk.SelectionHandle(), - ctselectSubscription: null - }; - }, - renderValue: function(el, data, instance) { - if (el.offsetWidth === 0 || el.offsetHeight === 0) { - instance.data = data; - return; - } - instance.data = null; - var $el = $(el); - $el.empty(); - - if (data === null) { - $el.append(' '); - // clear previous Shiny inputs (if any) - for (var i in instance.clearInputs) instance.clearInputs[i](); - instance.clearInputs = {}; - return; - } - - var crosstalkOptions = data.crosstalkOptions; - if (!crosstalkOptions) crosstalkOptions = { - 'key': null, 'group': null - }; - if (crosstalkOptions.group) { - maybeInstallCrosstalkPlugins(); - instance.ctfilterHandle.setGroup(crosstalkOptions.group); - instance.ctselectHandle.setGroup(crosstalkOptions.group); - } - - // if we are in the viewer then we always want to fillContainer and - // and autoHideNavigation (unless the user has explicitly set these) - if (window.HTMLWidgets.viewerMode) { - if (!data.hasOwnProperty("fillContainer")) - data.fillContainer = true; - if (!data.hasOwnProperty("autoHideNavigation")) - data.autoHideNavigation = true; - } - - // propagate fillContainer to instance (so we have it in resize) - instance.fillContainer = data.fillContainer; - - var cells = data.data; - - if (cells instanceof Array) cells = transposeArray2D(cells); - - $el.append(data.container); - var $table = $el.find('table'); - if (data.class) $table.addClass(data.class); - if (data.caption) $table.prepend(data.caption); - - if (!data.selection) data.selection = { - mode: 'none', selected: null, target: 'row', selectable: null - }; - if (HTMLWidgets.shinyMode && data.selection.mode !== 'none' && - data.selection.target === 'row+column') { - if ($table.children('tfoot').length === 0) { - $table.append($('')); - $table.find('thead tr').clone().appendTo($table.find('tfoot')); - } - } - - // column filters - var filterRow; - switch (data.filter) { - case 'top': - $table.children('thead').append(data.filterHTML); - filterRow = $table.find('thead tr:last td'); - break; - case 'bottom': - if ($table.children('tfoot').length === 0) { - $table.append($('')); - } - $table.children('tfoot').prepend(data.filterHTML); - filterRow = $table.find('tfoot tr:first td'); - break; - } - - var options = { searchDelay: 1000 }; - if (cells !== null) $.extend(options, { - data: cells - }); - - // options for fillContainer - var bootstrapActive = typeof($.fn.popover) != 'undefined'; - if (instance.fillContainer) { - - // force scrollX/scrollY and turn off autoWidth - options.scrollX = true; - options.scrollY = "100px"; // can be any value, we'll adjust below - - // if we aren't paginating then move around the info/filter controls - // to save space at the bottom and rephrase the info callback - if (data.options.paging === false) { - - // we know how to do this cleanly for bootstrap, not so much - // for other themes/layouts - if (bootstrapActive) { - options.dom = "<'row'<'col-sm-4'i><'col-sm-8'f>>" + - "<'row'<'col-sm-12'tr>>"; - } - - options.fnInfoCallback = function(oSettings, iStart, iEnd, - iMax, iTotal, sPre) { - return Number(iTotal).toLocaleString() + " records"; - }; - } - } - - // auto hide navigation if requested - // Note, this only works on client-side processing mode as on server-side, - // cells (data.data) is null; In addition, we require the pageLength option - // being provided explicitly to enable this. Despite we may be able to deduce - // the default value of pageLength, it may complicate things so we'd rather - // put this responsiblity to users and warn them on the R side. - if (data.autoHideNavigation === true && data.options.paging !== false) { - // strip all nav if length >= cells - if ((cells instanceof Array) && data.options.pageLength >= cells.length) - options.dom = bootstrapActive ? "<'row'<'col-sm-12'tr>>" : "t"; - // alternatively lean things out for flexdashboard mobile portrait - else if (bootstrapActive && window.FlexDashboard && window.FlexDashboard.isMobilePhone()) - options.dom = "<'row'<'col-sm-12'f>>" + - "<'row'<'col-sm-12'tr>>" + - "<'row'<'col-sm-12'p>>"; - } - - $.extend(true, options, data.options || {}); - - var searchCols = options.searchCols; - if (searchCols) { - searchCols = searchCols.map(function(x) { - return x === null ? '' : x.search; - }); - // FIXME: this means I don't respect the escapeRegex setting - delete options.searchCols; - } - - // server-side processing? - var server = options.serverSide === true; - - // use the dataSrc function to pre-process JSON data returned from R - var DT_rows_all = [], DT_rows_current = []; - if (server && HTMLWidgets.shinyMode && typeof options.ajax === 'object' && - /^session\/[\da-z]+\/dataobj/.test(options.ajax.url) && !options.ajax.dataSrc) { - options.ajax.dataSrc = function(json) { - DT_rows_all = $.makeArray(json.DT_rows_all); - DT_rows_current = $.makeArray(json.DT_rows_current); - var data = json.data; - if (!colReorderEnabled()) return data; - var table = $table.DataTable(), order = table.colReorder.order(), flag = true, i, j, row; - for (i = 0; i < order.length; ++i) if (order[i] !== i) flag = false; - if (flag) return data; - for (i = 0; i < data.length; ++i) { - row = data[i].slice(); - for (j = 0; j < order.length; ++j) data[i][j] = row[order[j]]; - } - return data; - }; - } - - var thiz = this; - if (instance.fillContainer) $table.on('init.dt', function(e) { - thiz.fillAvailableHeight(el, $(el).innerHeight()); - }); - // If the page contains serveral datatables and one of which enables colReorder, - // the table.colReorder.order() function will exist but throws error when called. - // So it seems like the only way to know if colReorder is enabled or not is to - // check the options. - var colReorderEnabled = function() { return "colReorder" in options; }; - var table = $table.DataTable(options); - $el.data('datatable', table); - - if ('rowGroup' in options) { - // Maintain RowGroup dataSrc when columns are reordered (#1109) - table.on('column-reorder', function(e, settings, details) { - var oldDataSrc = table.rowGroup().dataSrc(); - var newDataSrc = details.mapping[oldDataSrc]; - table.rowGroup().dataSrc(newDataSrc); - }); - } - - // Unregister previous Crosstalk event subscriptions, if they exist - if (instance.ctfilterSubscription) { - instance.ctfilterHandle.off("change", instance.ctfilterSubscription); - instance.ctfilterSubscription = null; - } - if (instance.ctselectSubscription) { - instance.ctselectHandle.off("change", instance.ctselectSubscription); - instance.ctselectSubscription = null; - } - - if (!crosstalkOptions.group) { - $table[0].ctfilter = null; - $table[0].ctselect = null; - } else { - var key = crosstalkOptions.key; - function keysToMatches(keys) { - if (!keys) { - return null; - } else { - var selectedKeys = {}; - for (var i = 0; i < keys.length; i++) { - selectedKeys[keys[i]] = true; - } - var matches = {}; - for (var j = 0; j < key.length; j++) { - if (selectedKeys[key[j]]) - matches[j] = true; - } - return matches; - } - } - - function applyCrosstalkFilter(e) { - $table[0].ctfilter = keysToMatches(e.value); - table.draw(); - } - instance.ctfilterSubscription = instance.ctfilterHandle.on("change", applyCrosstalkFilter); - applyCrosstalkFilter({value: instance.ctfilterHandle.filteredKeys}); - - function applyCrosstalkSelection(e) { - if (e.sender !== instance.ctselectHandle) { - table - .rows('.' + selClass, {search: 'applied'}) - .nodes() - .to$() - .removeClass(selClass); - if (selectedRows) - changeInput('rows_selected', selectedRows(), void 0, true); - } - - if (e.sender !== instance.ctselectHandle && e.value && e.value.length) { - var matches = keysToMatches(e.value); - - // persistent selection with plotly (& leaflet) - var ctOpts = crosstalk.var("plotlyCrosstalkOpts").get() || {}; - if (ctOpts.persistent === true) { - var matches = $.extend(matches, $table[0].ctselect); - } - - $table[0].ctselect = matches; - table.draw(); - } else { - if ($table[0].ctselect) { - $table[0].ctselect = null; - table.draw(); - } - } - } - instance.ctselectSubscription = instance.ctselectHandle.on("change", applyCrosstalkSelection); - // TODO: This next line doesn't seem to work when renderDataTable is used - applyCrosstalkSelection({value: instance.ctselectHandle.value}); - } - - var inArray = function(val, array) { - return $.inArray(val, $.makeArray(array)) > -1; - }; - - // search the i-th column - var searchColumn = function(i, value) { - var regex = false, ci = true; - if (options.search) { - regex = options.search.regex, - ci = options.search.caseInsensitive !== false; - } - // need to transpose the column index when colReorder is enabled - if (table.colReorder) i = table.colReorder.transpose(i); - return table.column(i).search(value, regex, !regex, ci); - }; - - if (data.filter !== 'none') { - if (!data.hasOwnProperty('filterSettings')) data.filterSettings = {}; - - filterRow.each(function(i, td) { - - var $td = $(td), type = $td.data('type'), filter; - var $input = $td.children('div').first().children('input'); - var disabled = $input.prop('disabled'); - var searchable = table.settings()[0].aoColumns[i].bSearchable; - $input.prop('disabled', !searchable || disabled); - $input.data('searchable', searchable); // for updating later - $input.on('input blur', function() { - $input.next('span').toggle(Boolean($input.val())); - }); - // Bootstrap sets pointer-events to none and we won't be able to click - // the clear button - $input.next('span').css('pointer-events', 'auto').hide().click(function() { - $(this).hide().prev('input').val('').trigger('input').focus(); - }); - var searchCol; // search string for this column - if (searchCols && searchCols[i]) { - searchCol = searchCols[i]; - $input.val(searchCol).trigger('input'); - } - var $x = $td.children('div').last(); - - // remove the overflow: hidden attribute of the scrollHead - // (otherwise the scrolling table body obscures the filters) - // The workaround and the discussion from - // https://github.com/rstudio/DT/issues/554#issuecomment-518007347 - // Otherwise the filter selection will not be anchored to the values - // when the columns number is many and scrollX is enabled. - var scrollHead = $(el).find('.dataTables_scrollHead,.dataTables_scrollFoot'); - var cssOverflowHead = scrollHead.css('overflow'); - var scrollBody = $(el).find('.dataTables_scrollBody'); - var cssOverflowBody = scrollBody.css('overflow'); - var scrollTable = $(el).find('.dataTables_scroll'); - var cssOverflowTable = scrollTable.css('overflow'); - if (cssOverflowHead === 'hidden') { - $x.on('show hide', function(e) { - if (e.type === 'show') { - scrollHead.css('overflow', 'visible'); - scrollBody.css('overflow', 'visible'); - scrollTable.css('overflow-x', 'scroll'); - } else { - scrollHead.css('overflow', cssOverflowHead); - scrollBody.css('overflow', cssOverflowBody); - scrollTable.css('overflow-x', cssOverflowTable); - } - }); - $x.css('z-index', 25); - } - - if (inArray(type, ['factor', 'logical'])) { - $input.on({ - click: function() { - $input.parent().hide(); $x.show().trigger('show'); filter[0].selectize.focus(); - }, - input: function() { - var v1 = JSON.stringify(filter[0].selectize.getValue()), v2 = $input.val(); - if (v1 === '[]') v1 = ''; - if (v1 !== v2) filter[0].selectize.setValue(v2 === '' ? [] : JSON.parse(v2)); - } - }); - var $input2 = $x.children('select'); - filter = $input2.selectize($.extend({ - options: $input2.data('options').map(function(v, i) { - return ({text: v, value: v}); - }), - plugins: ['remove_button'], - hideSelected: true, - onChange: function(value) { - if (value === null) value = []; // compatibility with jQuery 3.0 - $input.val(value.length ? JSON.stringify(value) : ''); - if (value.length) $input.trigger('input'); - $input.attr('title', $input.val()); - if (server) { - searchColumn(i, value.length ? JSON.stringify(value) : '').draw(); - return; - } - // turn off filter if nothing selected - $td.data('filter', value.length > 0); - table.draw(); // redraw table, and filters will be applied - } - }, data.filterSettings.select)); - filter[0].selectize.on('blur', function() { - $x.hide().trigger('hide'); $input.parent().show(); $input.trigger('blur'); - }); - filter.next('div').css('margin-bottom', 'auto'); - } else if (type === 'character') { - var fun = function() { - searchColumn(i, $input.val()).draw(); - }; - // throttle searching for server-side processing - var throttledFun = $.fn.dataTable.util.throttle(fun, options.searchDelay); - $input.on('input', function(e, immediate) { - // always bypass throttling when immediate = true (via the updateSearch method) - (immediate || !server) ? fun() : throttledFun(); - }); - } else if (inArray(type, ['number', 'integer', 'date', 'time'])) { - var $x0 = $x; - $x = $x0.children('div').first(); - $x0.css({ - 'background-color': '#fff', - 'border': '1px #ddd solid', - 'border-radius': '4px', - 'padding': data.vertical ? '35px 20px': '20px 20px 10px 20px' - }); - var $spans = $x0.children('span').css({ - 'margin-top': data.vertical ? '0' : '10px', - 'white-space': 'nowrap' - }); - var $span1 = $spans.first(), $span2 = $spans.last(); - var r1 = +$x.data('min'), r2 = +$x.data('max'); - // when the numbers are too small or have many decimal places, the - // slider may have numeric precision problems (#150) - var scale = Math.pow(10, Math.max(0, +$x.data('scale') || 0)); - r1 = Math.round(r1 * scale); r2 = Math.round(r2 * scale); - var scaleBack = function(x, scale) { - if (scale === 1) return x; - var d = Math.round(Math.log(scale) / Math.log(10)); - // to avoid problems like 3.423/100 -> 0.034230000000000003 - return (x / scale).toFixed(d); - }; - var slider_min = function() { - return filter.noUiSlider('options').range.min; - }; - var slider_max = function() { - return filter.noUiSlider('options').range.max; - }; - $input.on({ - focus: function() { - $x0.show().trigger('show'); - // first, make sure the slider div leaves at least 20px between - // the two (slider value) span's - $x0.width(Math.max(160, $span1.outerWidth() + $span2.outerWidth() + 20)); - // then, if the input is really wide or slider is vertical, - // make the slider the same width as the input - if ($x0.outerWidth() < $input.outerWidth() || data.vertical) { - $x0.outerWidth($input.outerWidth()); - } - // make sure the slider div does not reach beyond the right margin - if ($(window).width() < $x0.offset().left + $x0.width()) { - $x0.offset({ - 'left': $input.offset().left + $input.outerWidth() - $x0.outerWidth() - }); - } - }, - blur: function() { - $x0.hide().trigger('hide'); - }, - input: function() { - if ($input.val() === '') filter.val([slider_min(), slider_max()]); - }, - change: function() { - var v = $input.val().replace(/\s/g, ''); - if (v === '') return; - v = v.split('...'); - if (v.length !== 2) { - $input.parent().addClass('has-error'); - return; - } - if (v[0] === '') v[0] = slider_min(); - if (v[1] === '') v[1] = slider_max(); - $input.parent().removeClass('has-error'); - // treat date as UTC time at midnight - var strTime = function(x) { - var s = type === 'date' ? 'T00:00:00Z' : ''; - var t = new Date(x + s).getTime(); - // add 10 minutes to date since it does not hurt the date, and - // it helps avoid the tricky floating point arithmetic problems, - // e.g. sometimes the date may be a few milliseconds earlier - // than the midnight due to precision problems in noUiSlider - return type === 'date' ? t + 3600000 : t; - }; - if (inArray(type, ['date', 'time'])) { - v[0] = strTime(v[0]); - v[1] = strTime(v[1]); - } - if (v[0] != slider_min()) v[0] *= scale; - if (v[1] != slider_max()) v[1] *= scale; - filter.val(v); - } - }); - var formatDate = function(d) { - d = scaleBack(d, scale); - if (type === 'number') return d; - if (type === 'integer') return parseInt(d); - var x = new Date(+d); - if (type === 'date') { - var pad0 = function(x) { - return ('0' + x).substr(-2, 2); - }; - return x.getUTCFullYear() + '-' + pad0(1 + x.getUTCMonth()) - + '-' + pad0(x.getUTCDate()); - } else { - return x.toISOString(); - } - }; - var opts = type === 'date' ? { step: 60 * 60 * 1000 } : - type === 'integer' ? { step: 1 } : {}; - - opts.orientation = data.vertical ? 'vertical': 'horizontal'; - opts.direction = data.vertical ? 'rtl': 'ltr'; - - filter = $x.noUiSlider($.extend({ - start: [r1, r2], - range: {min: r1, max: r2}, - connect: true - }, opts, data.filterSettings.slider)); - if (scale > 1) (function() { - var t1 = r1, t2 = r2; - var val = filter.val(); - while (val[0] > r1 || val[1] < r2) { - if (val[0] > r1) { - t1 -= val[0] - r1; - } - if (val[1] < r2) { - t2 += r2 - val[1]; - } - filter = $x.noUiSlider($.extend({ - start: [t1, t2], - range: {min: t1, max: t2}, - connect: true - }, opts, data.filterSettings.slider), true); - val = filter.val(); - } - r1 = t1; r2 = t2; - })(); - // format with active column renderer, if defined - var colDef = data.options.columnDefs.find(function(def) { - return (def.targets === i || inArray(i, def.targets)) && 'render' in def; - }); - var updateSliderText = function(v1, v2) { - // we only know how to use function renderers - if (colDef && typeof colDef.render === 'function') { - var restore = function(v) { - v = scaleBack(v, scale); - return inArray(type, ['date', 'time']) ? new Date(+v) : v; - } - $span1.text(colDef.render(restore(v1), 'display')); - $span2.text(colDef.render(restore(v2), 'display')); - } else { - $span1.text(formatDate(v1)); - $span2.text(formatDate(v2)); - } - }; - updateSliderText(r1, r2); - var updateSlider = function(e) { - var val = filter.val(); - // turn off filter if in full range - $td.data('filter', val[0] > slider_min() || val[1] < slider_max()); - var v1 = formatDate(val[0]), v2 = formatDate(val[1]), ival; - if ($td.data('filter')) { - ival = v1 + ' ... ' + v2; - $input.attr('title', ival).val(ival).trigger('input'); - } else { - $input.attr('title', '').val(''); - } - updateSliderText(val[0], val[1]); - if (e.type === 'slide') return; // no searching when sliding only - if (server) { - searchColumn(i, $td.data('filter') ? ival : '').draw(); - return; - } - table.draw(); - }; - filter.on({ - set: updateSlider, - slide: updateSlider - }); - } - - // server-side processing will be handled by R (or whatever server - // language you use); the following code is only needed for client-side - // processing - if (server) { - // if a search string has been pre-set, search now - if (searchCol) $input.trigger('input').trigger('change'); - return; - } - - var customFilter = function(settings, data, dataIndex) { - // there is no way to attach a search function to a specific table, - // and we need to make sure a global search function is not applied to - // all tables (i.e. a range filter in a previous table should not be - // applied to the current table); we use the settings object to - // determine if we want to perform searching on the current table, - // since settings.sTableId will be different to different tables - if (table.settings()[0] !== settings) return true; - // no filter on this column or no need to filter this column - if (typeof filter === 'undefined' || !$td.data('filter')) return true; - - var r = filter.val(), v, r0, r1; - var i_data = function(i) { - if (!colReorderEnabled()) return i; - var order = table.colReorder.order(), k; - for (k = 0; k < order.length; ++k) if (order[k] === i) return k; - return i; // in theory it will never be here... - } - v = data[i_data(i)]; - if (type === 'number' || type === 'integer') { - v = parseFloat(v); - // how to handle NaN? currently exclude these rows - if (isNaN(v)) return(false); - r0 = parseFloat(scaleBack(r[0], scale)) - r1 = parseFloat(scaleBack(r[1], scale)); - if (v >= r0 && v <= r1) return true; - } else if (type === 'date' || type === 'time') { - v = new Date(v); - r0 = new Date(r[0] / scale); r1 = new Date(r[1] / scale); - if (v >= r0 && v <= r1) return true; - } else if (type === 'factor') { - if (r.length === 0 || inArray(v, r)) return true; - } else if (type === 'logical') { - if (r.length === 0) return true; - if (inArray(v === '' ? 'na' : v, r)) return true; - } - return false; - }; - - $.fn.dataTable.ext.search.push(customFilter); - - // search for the preset search strings if it is non-empty - if (searchCol) $input.trigger('input').trigger('change'); - - }); - - } - - // highlight search keywords - var highlight = function() { - var body = $(table.table().body()); - // removing the old highlighting first - body.unhighlight(); - - // don't highlight the "not found" row, so we get the rows using the api - if (table.rows({ filter: 'applied' }).data().length === 0) return; - // highlight global search keywords - body.highlight($.trim(table.search()).split(/\s+/)); - // then highlight keywords from individual column filters - if (filterRow) filterRow.each(function(i, td) { - var $td = $(td), type = $td.data('type'); - if (type !== 'character') return; - var $input = $td.children('div').first().children('input'); - var column = table.column(i).nodes().to$(), - val = $.trim($input.val()); - if (type !== 'character' || val === '') return; - column.highlight(val.split(/\s+/)); - }); - }; - - if (options.searchHighlight) { - table - .on('draw.dt.dth column-visibility.dt.dth column-reorder.dt.dth', highlight) - .on('destroy', function() { - // remove event handler - table.off('draw.dt.dth column-visibility.dt.dth column-reorder.dt.dth'); - }); - - // Set the option for escaping regex characters in our search string. This will be used - // for all future matching. - jQuery.fn.highlight.options.escapeRegex = (!options.search || !options.search.regex); - - // initial highlight for state saved conditions and initial states - highlight(); - } - - // run the callback function on the table instance - if (typeof data.callback === 'function') data.callback(table); - - // double click to edit the cell, row, column, or all cells - if (data.editable) table.on('dblclick.dt', 'tbody td', function(e) { - // only bring up the editor when the cell itself is dbclicked, and ignore - // other dbclick events bubbled up (e.g. from the ) - if (e.target !== this) return; - var target = [], immediate = false; - switch (data.editable.target) { - case 'cell': - target = [this]; - immediate = true; // edit will take effect immediately - break; - case 'row': - target = table.cells(table.cell(this).index().row, '*').nodes(); - break; - case 'column': - target = table.cells('*', table.cell(this).index().column).nodes(); - break; - case 'all': - target = table.cells().nodes(); - break; - default: - throw 'The editable parameter must be "cell", "row", "column", or "all"'; - } - var disableCols = data.editable.disable ? data.editable.disable.columns : null; - var numericCols = data.editable.numeric; - var areaCols = data.editable.area; - var dateCols = data.editable.date; - for (var i = 0; i < target.length; i++) { - (function(cell, current) { - var $cell = $(cell), html = $cell.html(); - var _cell = table.cell(cell), value = _cell.data(), index = _cell.index().column; - var $input; - if (inArray(index, numericCols)) { - $input = $(''); - } else if (inArray(index, areaCols)) { - $input = $(''); - } else if (inArray(index, dateCols)) { - $input = $(''); - } else { - $input = $(''); - } - if (!immediate) { - $cell.data('input', $input).data('html', html); - $input.attr('title', 'Hit Ctrl+Enter to finish editing, or Esc to cancel'); - } - $input.val(value); - if (inArray(index, disableCols)) { - $input.attr('readonly', '').css('filter', 'invert(25%)'); - } - $cell.empty().append($input); - if (cell === current) $input.focus(); - $input.css('width', '100%'); - - if (immediate) $input.on('blur', function(e) { - var valueNew = $input.val(); - if (valueNew !== value) { - _cell.data(valueNew); - if (HTMLWidgets.shinyMode) { - changeInput('cell_edit', [cellInfo(cell)], 'DT.cellInfo', null, {priority: 'event'}); - } - // for server-side processing, users have to call replaceData() to update the table - if (!server) table.draw(false); - } else { - $cell.html(html); - } - }).on('keyup', function(e) { - // hit Escape to cancel editing - if (e.keyCode === 27) $input.trigger('blur'); - }); - - // bulk edit (row, column, or all) - if (!immediate) $input.on('keyup', function(e) { - var removeInput = function($cell, restore) { - $cell.data('input').remove(); - if (restore) $cell.html($cell.data('html')); - } - if (e.keyCode === 27) { - for (var i = 0; i < target.length; i++) { - removeInput($(target[i]), true); - } - } else if (e.keyCode === 13 && e.ctrlKey) { - // Ctrl + Enter - var cell, $cell, _cell, cellData = []; - for (var i = 0; i < target.length; i++) { - cell = target[i]; $cell = $(cell); _cell = table.cell(cell); - _cell.data($cell.data('input').val()); - HTMLWidgets.shinyMode && cellData.push(cellInfo(cell)); - removeInput($cell, false); - } - if (HTMLWidgets.shinyMode) { - changeInput('cell_edit', cellData, 'DT.cellInfo', null, {priority: "event"}); - } - if (!server) table.draw(false); - } - }); - })(target[i], this); - } - }); - - // interaction with shiny - if (!HTMLWidgets.shinyMode && !crosstalkOptions.group) return; - - var methods = {}; - var shinyData = {}; - - methods.updateCaption = function(caption) { - if (!caption) return; - $table.children('caption').replaceWith(caption); - } - - // register clear functions to remove input values when the table is removed - instance.clearInputs = {}; - - var changeInput = function(id, value, type, noCrosstalk, opts) { - var event = id; - id = el.id + '_' + id; - if (type) id = id + ':' + type; - // do not update if the new value is the same as old value - if (event !== 'cell_edit' && !/_clicked$/.test(event) && shinyData.hasOwnProperty(id) && shinyData[id] === JSON.stringify(value)) - return; - shinyData[id] = JSON.stringify(value); - if (HTMLWidgets.shinyMode && Shiny.setInputValue) { - Shiny.setInputValue(id, value, opts); - if (!instance.clearInputs[id]) instance.clearInputs[id] = function() { - Shiny.setInputValue(id, null); - } - } - - // HACK - if (event === "rows_selected" && !noCrosstalk) { - if (crosstalkOptions.group) { - var keys = crosstalkOptions.key; - var selectedKeys = null; - if (value) { - selectedKeys = []; - for (var i = 0; i < value.length; i++) { - // The value array's contents use 1-based row numbers, so we must - // convert to 0-based before indexing into the keys array. - selectedKeys.push(keys[value[i] - 1]); - } - } - instance.ctselectHandle.set(selectedKeys); - } - } - }; - - var addOne = function(x) { - return x.map(function(i) { return 1 + i; }); - }; - - var unique = function(x) { - var ux = []; - $.each(x, function(i, el){ - if ($.inArray(el, ux) === -1) ux.push(el); - }); - return ux; - } - - // change the row index of a cell - var tweakCellIndex = function(cell) { - var info = cell.index(); - // some cell may not be valid. e.g, #759 - // when using the RowGroup extension, datatables will - // generate the row label and the cells are not part of - // the data thus contain no row/col info - if (info === undefined) - return {row: null, col: null}; - if (server) { - info.row = DT_rows_current[info.row]; - } else { - info.row += 1; - } - return {row: info.row, col: info.column}; - } - - var cleanSelectedValues = function() { - changeInput('rows_selected', []); - changeInput('columns_selected', []); - changeInput('cells_selected', transposeArray2D([]), 'shiny.matrix'); - } - // #828 we should clean the selection on the server-side when the table reloads - cleanSelectedValues(); - - // a flag to indicates if select extension is initialized or not - var flagSelectExt = table.settings()[0]._select !== undefined; - // the Select extension should only be used in the client mode and - // when the selection.mode is set to none - if (data.selection.mode === 'none' && !server && flagSelectExt) { - var updateRowsSelected = function() { - var rows = table.rows({selected: true}); - var selected = []; - $.each(rows.indexes().toArray(), function(i, v) { - selected.push(v + 1); - }); - changeInput('rows_selected', selected); - } - var updateColsSelected = function() { - var columns = table.columns({selected: true}); - changeInput('columns_selected', columns.indexes().toArray()); - } - var updateCellsSelected = function() { - var cells = table.cells({selected: true}); - var selected = []; - cells.every(function() { - var row = this.index().row; - var col = this.index().column; - selected = selected.concat([[row + 1, col]]); - }); - changeInput('cells_selected', transposeArray2D(selected), 'shiny.matrix'); - } - table.on('select deselect', function(e, dt, type, indexes) { - updateRowsSelected(); - updateColsSelected(); - updateCellsSelected(); - }) - updateRowsSelected(); - updateColsSelected(); - updateCellsSelected(); - } - - var selMode = data.selection.mode, selTarget = data.selection.target; - var selDisable = data.selection.selectable === false; - if (inArray(selMode, ['single', 'multiple'])) { - var selClass = inArray(data.style, ['bootstrap', 'bootstrap4']) ? 'active' : 'selected'; - // selected1: row indices; selected2: column indices - var initSel = function(x) { - if (x === null || typeof x === 'boolean' || selTarget === 'cell') { - return {rows: [], cols: []}; - } else if (selTarget === 'row') { - return {rows: $.makeArray(x), cols: []}; - } else if (selTarget === 'column') { - return {rows: [], cols: $.makeArray(x)}; - } else if (selTarget === 'row+column') { - return {rows: $.makeArray(x.rows), cols: $.makeArray(x.cols)}; - } - } - var selected = data.selection.selected; - var selected1 = initSel(selected).rows, selected2 = initSel(selected).cols; - // selectable should contain either all positive or all non-positive values, not both - // positive values indicate "selectable" while non-positive values means "nonselectable" - // the assertion is performed on R side. (only column indicides could be zero which indicates - // the row name) - var selectable = data.selection.selectable; - var selectable1 = initSel(selectable).rows, selectable2 = initSel(selectable).cols; - - // After users reorder the rows or filter the table, we cannot use the table index - // directly. Instead, we need this function to find out the rows between the two clicks. - // If user filter the table again between the start click and the end click, the behavior - // would be undefined, but it should not be a problem. - var shiftSelRowsIndex = function(start, end) { - var indexes = server ? DT_rows_all : table.rows({ search: 'applied' }).indexes().toArray(); - start = indexes.indexOf(start); end = indexes.indexOf(end); - // if start is larger than end, we need to swap - if (start > end) { - var tmp = end; end = start; start = tmp; - } - return indexes.slice(start, end + 1); - } - - var serverRowIndex = function(clientRowIndex) { - return server ? DT_rows_current[clientRowIndex] : clientRowIndex + 1; - } - - // row, column, or cell selection - var lastClickedRow; - if (inArray(selTarget, ['row', 'row+column'])) { - // Get the current selected rows. It will also - // update the selected1's value based on the current row selection state - // Note we can't put this function inside selectRows() directly, - // the reason is method.selectRows() will override selected1's value but this - // function will add rows to selected1 (keep the existing selection), which is - // inconsistent with column and cell selection. - var selectedRows = function() { - var rows = table.rows('.' + selClass); - var idx = rows.indexes().toArray(); - if (!server) { - selected1 = addOne(idx); - return selected1; - } - idx = idx.map(function(i) { - return DT_rows_current[i]; - }); - selected1 = selMode === 'multiple' ? unique(selected1.concat(idx)) : idx; - return selected1; - } - // Change selected1's value based on selectable1, then refresh the row state - var onlyKeepSelectableRows = function() { - if (selDisable) { // users can't select; useful when only want backend select - selected1 = []; - return; - } - if (selectable1.length === 0) return; - var nonselectable = selectable1[0] <= 0; - if (nonselectable) { - // should make selectable1 positive - selected1 = $(selected1).not(selectable1.map(function(i) { return -i; })).get(); - } else { - selected1 = $(selected1).filter(selectable1).get(); - } - } - // Change selected1's value based on selectable1, then - // refresh the row selection state according to values in selected1 - var selectRows = function(ignoreSelectable) { - if (!ignoreSelectable) onlyKeepSelectableRows(); - table.$('tr.' + selClass).removeClass(selClass); - if (selected1.length === 0) return; - if (server) { - table.rows({page: 'current'}).every(function() { - if (inArray(DT_rows_current[this.index()], selected1)) { - $(this.node()).addClass(selClass); - } - }); - } else { - var selected0 = selected1.map(function(i) { return i - 1; }); - $(table.rows(selected0).nodes()).addClass(selClass); - } - } - table.on('mousedown.dt', 'tbody tr', function(e) { - var $this = $(this), thisRow = table.row(this); - if (selMode === 'multiple') { - if (e.shiftKey && lastClickedRow !== undefined) { - // select or de-select depends on the last clicked row's status - var flagSel = !$this.hasClass(selClass); - var crtClickedRow = serverRowIndex(thisRow.index()); - if (server) { - var rowsIndex = shiftSelRowsIndex(lastClickedRow, crtClickedRow); - // update current page's selClass - rowsIndex.map(function(i) { - var rowIndex = DT_rows_current.indexOf(i); - if (rowIndex >= 0) { - var row = table.row(rowIndex).nodes().to$(); - var flagRowSel = !row.hasClass(selClass); - if (flagSel === flagRowSel) row.toggleClass(selClass); - } - }); - // update selected1 - if (flagSel) { - selected1 = unique(selected1.concat(rowsIndex)); - } else { - selected1 = selected1.filter(function(index) { - return !inArray(index, rowsIndex); - }); - } - } else { - // js starts from 0 - shiftSelRowsIndex(lastClickedRow - 1, crtClickedRow - 1).map(function(value) { - var row = table.row(value).nodes().to$(); - var flagRowSel = !row.hasClass(selClass); - if (flagSel === flagRowSel) row.toggleClass(selClass); - }); - } - e.preventDefault(); - } else { - $this.toggleClass(selClass); - } - } else { - if ($this.hasClass(selClass)) { - $this.removeClass(selClass); - } else { - table.$('tr.' + selClass).removeClass(selClass); - $this.addClass(selClass); - } - } - if (server && !$this.hasClass(selClass)) { - var id = DT_rows_current[thisRow.index()]; - // remove id from selected1 since its class .selected has been removed - if (inArray(id, selected1)) selected1.splice($.inArray(id, selected1), 1); - } - selectedRows(); // update selected1's value based on selClass - selectRows(false); // only keep the selectable rows - changeInput('rows_selected', selected1); - changeInput('row_last_clicked', serverRowIndex(thisRow.index()), null, null, {priority: 'event'}); - lastClickedRow = serverRowIndex(thisRow.index()); - }); - selectRows(false); // in case users have specified pre-selected rows - // restore selected rows after the table is redrawn (e.g. sort/search/page); - // client-side tables will preserve the selections automatically; for - // server-side tables, we have to *real* row indices are in `selected1` - changeInput('rows_selected', selected1); - if (server) table.on('draw.dt', function(e) { selectRows(false); }); - methods.selectRows = function(selected, ignoreSelectable) { - selected1 = $.makeArray(selected); - selectRows(ignoreSelectable); - changeInput('rows_selected', selected1); - } - } - - if (inArray(selTarget, ['column', 'row+column'])) { - if (selTarget === 'row+column') { - $(table.columns().footer()).css('cursor', 'pointer'); - } - // update selected2's value based on selectable2 - var onlyKeepSelectableCols = function() { - if (selDisable) { // users can't select; useful when only want backend select - selected2 = []; - return; - } - if (selectable2.length === 0) return; - var nonselectable = selectable2[0] <= 0; - if (nonselectable) { - // need to make selectable2 positive - selected2 = $(selected2).not(selectable2.map(function(i) { return -i; })).get(); - } else { - selected2 = $(selected2).filter(selectable2).get(); - } - } - // update selected2 and then - // refresh the col selection state according to values in selected2 - var selectCols = function(ignoreSelectable) { - if (!ignoreSelectable) onlyKeepSelectableCols(); - // if selected2 is not a valide index (e.g., larger than the column number) - // table.columns(selected2) will fail and result in a blank table - // this is different from the table.rows(), where the out-of-range indexes - // doesn't affect at all - selected2 = $(selected2).filter(table.columns().indexes()).get(); - table.columns().nodes().flatten().to$().removeClass(selClass); - if (selected2.length > 0) - table.columns(selected2).nodes().flatten().to$().addClass(selClass); - } - var callback = function() { - var colIdx = selTarget === 'column' ? table.cell(this).index().column : - $.inArray(this, table.columns().footer()), - thisCol = $(table.column(colIdx).nodes()); - if (colIdx === -1) return; - if (thisCol.hasClass(selClass)) { - thisCol.removeClass(selClass); - selected2.splice($.inArray(colIdx, selected2), 1); - } else { - if (selMode === 'single') $(table.cells().nodes()).removeClass(selClass); - thisCol.addClass(selClass); - selected2 = selMode === 'single' ? [colIdx] : unique(selected2.concat([colIdx])); - } - selectCols(false); // update selected2 based on selectable - changeInput('columns_selected', selected2); - } - if (selTarget === 'column') { - $(table.table().body()).on('click.dt', 'td', callback); - } else { - $(table.table().footer()).on('click.dt', 'tr th', callback); - } - selectCols(false); // in case users have specified pre-selected columns - changeInput('columns_selected', selected2); - if (server) table.on('draw.dt', function(e) { selectCols(false); }); - methods.selectColumns = function(selected, ignoreSelectable) { - selected2 = $.makeArray(selected); - selectCols(ignoreSelectable); - changeInput('columns_selected', selected2); - } - } - - if (selTarget === 'cell') { - var selected3 = [], selectable3 = []; - if (selected !== null) selected3 = selected; - if (selectable !== null && typeof selectable !== 'boolean') selectable3 = selectable; - var findIndex = function(ij, sel) { - for (var i = 0; i < sel.length; i++) { - if (ij[0] === sel[i][0] && ij[1] === sel[i][1]) return i; - } - return -1; - } - // Change selected3's value based on selectable3, then refresh the cell state - var onlyKeepSelectableCells = function() { - if (selDisable) { // users can't select; useful when only want backend select - selected3 = []; - return; - } - if (selectable3.length === 0) return; - var nonselectable = selectable3[0][0] <= 0; - var out = []; - if (nonselectable) { - selected3.map(function(ij) { - // should make selectable3 positive - if (findIndex([-ij[0], -ij[1]], selectable3) === -1) { out.push(ij); } - }); - } else { - selected3.map(function(ij) { - if (findIndex(ij, selectable3) > -1) { out.push(ij); } - }); - } - selected3 = out; - } - // Change selected3's value based on selectable3, then - // refresh the cell selection state according to values in selected3 - var selectCells = function(ignoreSelectable) { - if (!ignoreSelectable) onlyKeepSelectableCells(); - table.$('td.' + selClass).removeClass(selClass); - if (selected3.length === 0) return; - if (server) { - table.cells({page: 'current'}).every(function() { - var info = tweakCellIndex(this); - if (findIndex([info.row, info.col], selected3) > -1) - $(this.node()).addClass(selClass); - }); - } else { - selected3.map(function(ij) { - $(table.cell(ij[0] - 1, ij[1]).node()).addClass(selClass); - }); - } - }; - table.on('click.dt', 'tbody td', function() { - var $this = $(this), info = tweakCellIndex(table.cell(this)); - if ($this.hasClass(selClass)) { - $this.removeClass(selClass); - selected3.splice(findIndex([info.row, info.col], selected3), 1); - } else { - if (selMode === 'single') $(table.cells().nodes()).removeClass(selClass); - $this.addClass(selClass); - selected3 = selMode === 'single' ? [[info.row, info.col]] : - unique(selected3.concat([[info.row, info.col]])); - } - selectCells(false); // must call this to update selected3 based on selectable3 - changeInput('cells_selected', transposeArray2D(selected3), 'shiny.matrix'); - }); - selectCells(false); // in case users have specified pre-selected columns - changeInput('cells_selected', transposeArray2D(selected3), 'shiny.matrix'); - - if (server) table.on('draw.dt', function(e) { selectCells(false); }); - methods.selectCells = function(selected, ignoreSelectable) { - selected3 = selected ? selected : []; - selectCells(ignoreSelectable); - changeInput('cells_selected', transposeArray2D(selected3), 'shiny.matrix'); - } - } - } - - // expose some table info to Shiny - var updateTableInfo = function(e, settings) { - // TODO: is anyone interested in the page info? - // changeInput('page_info', table.page.info()); - var updateRowInfo = function(id, modifier) { - var idx; - if (server) { - idx = modifier.page === 'current' ? DT_rows_current : DT_rows_all; - } else { - var rows = table.rows($.extend({ - search: 'applied', - page: 'all' - }, modifier)); - idx = addOne(rows.indexes().toArray()); - } - changeInput('rows' + '_' + id, idx); - }; - updateRowInfo('current', {page: 'current'}); - updateRowInfo('all', {}); - } - table.on('draw.dt', updateTableInfo); - updateTableInfo(); - - // state info - table.on('draw.dt column-visibility.dt', function() { - changeInput('state', table.state()); - }); - changeInput('state', table.state()); - - // search info - var updateSearchInfo = function() { - changeInput('search', table.search()); - if (filterRow) changeInput('search_columns', filterRow.toArray().map(function(td) { - return $(td).find('input').first().val(); - })); - } - table.on('draw.dt', updateSearchInfo); - updateSearchInfo(); - - var cellInfo = function(thiz) { - var info = tweakCellIndex(table.cell(thiz)); - info.value = table.cell(thiz).data(); - return info; - } - // the current cell clicked on - table.on('click.dt', 'tbody td', function() { - changeInput('cell_clicked', cellInfo(this), null, null, {priority: 'event'}); - }) - changeInput('cell_clicked', {}); - - // do not trigger table selection when clicking on links unless they have classes - table.on('mousedown.dt', 'tbody td a', function(e) { - if (this.className === '') e.stopPropagation(); - }); - - methods.addRow = function(data, rowname, resetPaging) { - var n = table.columns().indexes().length, d = n - data.length; - if (d === 1) { - data = rowname.concat(data) - } else if (d !== 0) { - console.log(data); - console.log(table.columns().indexes()); - throw 'New data must be of the same length as current data (' + n + ')'; - }; - table.row.add(data).draw(resetPaging); - } - - methods.updateSearch = function(keywords) { - if (keywords.global !== null) - $(table.table().container()).find('input[type=search]').first() - .val(keywords.global).trigger('input'); - var columns = keywords.columns; - if (!filterRow || columns === null) return; - filterRow.toArray().map(function(td, i) { - var v = typeof columns === 'string' ? columns : columns[i]; - if (typeof v === 'undefined') { - console.log('The search keyword for column ' + i + ' is undefined') - return; - } - // Update column search string and values on linked filter widgets. - // 'input' for factor and char filters, 'change' for numeric filters. - $(td).find('input').first().val(v).trigger('input', [true]).trigger('change'); - }); - table.draw(); - } - - methods.hideCols = function(hide, reset) { - if (reset) table.columns().visible(true, false); - table.columns(hide).visible(false); - } - - methods.showCols = function(show, reset) { - if (reset) table.columns().visible(false, false); - table.columns(show).visible(true); - } - - methods.colReorder = function(order, origOrder) { - table.colReorder.order(order, origOrder); - } - - methods.selectPage = function(page) { - if (table.page.info().pages < page || page < 1) { - throw 'Selected page is out of range'; - }; - table.page(page - 1).draw(false); - } - - methods.reloadData = function(resetPaging, clearSelection) { - // empty selections first if necessary - if (methods.selectRows && inArray('row', clearSelection)) methods.selectRows([]); - if (methods.selectColumns && inArray('column', clearSelection)) methods.selectColumns([]); - if (methods.selectCells && inArray('cell', clearSelection)) methods.selectCells([]); - table.ajax.reload(null, resetPaging); - } - - // update table filters (set new limits of sliders) - methods.updateFilters = function(newProps) { - // loop through each filter in the filter row - filterRow.each(function(i, td) { - var k = i; - if (filterRow.length > newProps.length) { - if (i === 0) return; // first column is row names - k = i - 1; - } - // Update the filters to reflect the updated data. - // Allow "falsy" (e.g. NULL) to signify a no-op. - if (newProps[k]) { - setFilterProps(td, newProps[k]); - } - }); - }; - - table.shinyMethods = methods; - }, - resize: function(el, width, height, instance) { - if (instance.data) this.renderValue(el, instance.data, instance); - - // dynamically adjust height if fillContainer = TRUE - if (instance.fillContainer) - this.fillAvailableHeight(el, height); - - this.adjustWidth(el); - }, - - // dynamically set the scroll body to fill available height - // (used with fillContainer = TRUE) - fillAvailableHeight: function(el, availableHeight) { - - // see how much of the table is occupied by header/footer elements - // and use that to compute a target scroll body height - var dtWrapper = $(el).find('div.dataTables_wrapper'); - var dtScrollBody = $(el).find($('div.dataTables_scrollBody')); - var framingHeight = dtWrapper.innerHeight() - dtScrollBody.innerHeight(); - var scrollBodyHeight = availableHeight - framingHeight; - - // we need to set `max-height` to none as datatables library now sets this - // to a fixed height, disabling the ability to resize to fill the window, - // as it will be set to a fixed 100px under such circumstances, e.g., RStudio IDE, - // or FlexDashboard - // see https://github.com/rstudio/DT/issues/951#issuecomment-1026464509 - dtScrollBody.css('max-height', 'none'); - // set the height - dtScrollBody.height(scrollBodyHeight + 'px'); - }, - - // adjust the width of columns; remove the hard-coded widths on table and the - // scroll header when scrollX/Y are enabled - adjustWidth: function(el) { - var $el = $(el), table = $el.data('datatable'); - if (table) table.columns.adjust(); - $el.find('.dataTables_scrollHeadInner').css('width', '') - .children('table').css('margin-left', ''); - } -}); - - if (!HTMLWidgets.shinyMode) return; - - Shiny.addCustomMessageHandler('datatable-calls', function(data) { - var id = data.id; - var el = document.getElementById(id); - var table = el ? $(el).data('datatable') : null; - if (!table) { - console.log("Couldn't find table with id " + id); - return; - } - - var methods = table.shinyMethods, call = data.call; - if (methods[call.method]) { - methods[call.method].apply(table, call.args); - } else { - console.log("Unknown method " + call.method); - } - }); - -})(); diff --git a/src/site_libs/datatables-css-0.0.0/datatables-crosstalk.css b/src/site_libs/datatables-css-0.0.0/datatables-crosstalk.css deleted file mode 100644 index bd1159c..0000000 --- a/src/site_libs/datatables-css-0.0.0/datatables-crosstalk.css +++ /dev/null @@ -1,32 +0,0 @@ -.dt-crosstalk-fade { - opacity: 0.2; -} - -html body div.DTS div.dataTables_scrollBody { - background: none; -} - - -/* -Fix https://github.com/rstudio/DT/issues/563 -If the `table.display` is set to "block" (e.g., pkgdown), the browser will display -datatable objects strangely. The search panel and the page buttons will still be -in full-width but the table body will be "compact" and shorter. -In therory, having this attributes will affect `dom="t"` -with `display: block` users. But in reality, there should be no one. -We may remove the below lines in the future if the upstream agree to have this there. -See https://github.com/DataTables/DataTablesSrc/issues/160 -*/ - -table.dataTable { - display: table; -} - - -/* -When DTOutput(fill = TRUE), it receives a .html-fill-item class (via htmltools::bindFillRole()), which effectively amounts to `flex: 1 1 auto`. That's mostly fine, but the case where `fillContainer=TRUE`+`height:auto`+`flex-basis:auto` and the container (e.g., a bslib::card()) doesn't have a defined height is a bit problematic since the table wants to fit the parent but the parent wants to fit the table, which results pretty small table height (maybe because there is a minimum height somewhere?). It seems better in this case to impose a 400px height default for the table, which we can do by setting `flex-basis` to 400px (the table is still allowed to grow/shrink when the container has an opinionated height). -*/ - -.html-fill-container > .html-fill-item.datatables { - flex-basis: 400px; -} diff --git a/src/site_libs/dt-core-1.13.6/css/jquery.dataTables.extra.css b/src/site_libs/dt-core-1.13.6/css/jquery.dataTables.extra.css deleted file mode 100644 index b2dd141..0000000 --- a/src/site_libs/dt-core-1.13.6/css/jquery.dataTables.extra.css +++ /dev/null @@ -1,28 +0,0 @@ -/* Selected rows/cells */ -table.dataTable tr.selected td, table.dataTable td.selected { - background-color: #b0bed9 !important; -} -/* In case of scrollX/Y or FixedHeader */ -.dataTables_scrollBody .dataTables_sizing { - visibility: hidden; -} - -/* The datatables' theme CSS file doesn't define -the color but with white background. It leads to an issue that -when the HTML's body color is set to 'white', the user can't -see the text since the background is white. One case happens in the -RStudio's IDE when inline viewing the DT table inside an Rmd file, -if the IDE theme is set to "Cobalt". - -See https://github.com/rstudio/DT/issues/447 for more info - -This fixes should have little side-effects because all the other elements -of the default theme use the #333 font color. - -TODO: The upstream may use relative colors for both the table background -and the color. It means the table can display well without this patch -then. At that time, we need to remove the below CSS attributes. -*/ -div.datatables { - color: #333; -} diff --git a/src/site_libs/dt-core-1.13.6/css/jquery.dataTables.min.css b/src/site_libs/dt-core-1.13.6/css/jquery.dataTables.min.css deleted file mode 100644 index ad59f84..0000000 --- a/src/site_libs/dt-core-1.13.6/css/jquery.dataTables.min.css +++ /dev/null @@ -1 +0,0 @@ -:root{--dt-row-selected: 13, 110, 253;--dt-row-selected-text: 255, 255, 255;--dt-row-selected-link: 9, 10, 11;--dt-row-stripe: 0, 0, 0;--dt-row-hover: 0, 0, 0;--dt-column-ordering: 0, 0, 0;--dt-html-background: white}:root.dark{--dt-html-background: rgb(33, 37, 41)}table.dataTable td.dt-control{text-align:center;cursor:pointer}table.dataTable td.dt-control:before{display:inline-block;color:rgba(0, 0, 0, 0.5);content:"►"}table.dataTable tr.dt-hasChild td.dt-control:before{content:"▼"}html.dark table.dataTable td.dt-control:before{color:rgba(255, 255, 255, 0.5)}html.dark table.dataTable tr.dt-hasChild 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