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RC: CRAN 1.6.0 #292

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Sep 8, 2024
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a7cf25a
Use parametrized unit testing
IndrajeetPatil Aug 10, 2024
6b6afe3
Apply automatic changes
IndrajeetPatil Aug 10, 2024
fb0b022
refactor test
IndrajeetPatil Aug 10, 2024
162abb8
Apply automatic changes
IndrajeetPatil Aug 10, 2024
6a86c4d
make reproducible
IndrajeetPatil Aug 10, 2024
770762c
Merge branch 'use-patrick' of https://github.com/IndrajeetPatil/stats…
IndrajeetPatil Aug 10, 2024
133a048
Apply automatic changes
IndrajeetPatil Aug 10, 2024
f91c2c5
fix rd issue
IndrajeetPatil Aug 10, 2024
2938d2a
Merge branch 'use-patrick' of https://github.com/IndrajeetPatil/stats…
IndrajeetPatil Aug 10, 2024
a3a3ea0
fix lints
IndrajeetPatil Aug 10, 2024
4979ec9
Update test-one-sample.R
IndrajeetPatil Aug 10, 2024
8832cca
Update test-one-sample.R
IndrajeetPatil Aug 10, 2024
e0e87bb
minor
IndrajeetPatil Aug 11, 2024
c248f31
remove unnecessary test comment
IndrajeetPatil Aug 11, 2024
0b0785f
remove unneeded ignoring of attr in expectation
IndrajeetPatil Aug 11, 2024
6f5a294
Merge branch 'main' into use-patrick
IndrajeetPatil Sep 2, 2024
7167ed5
Bump deps
IndrajeetPatil Sep 8, 2024
eb1aade
Makes tests R 4.3 compatible?
IndrajeetPatil Sep 8, 2024
bd62370
increase precision in snapshots
IndrajeetPatil Sep 8, 2024
6e1ee21
"fix" vignette issue and fragile test
IndrajeetPatil Sep 8, 2024
d83cb4e
ignore docs folder; possible fix for pkgdown path
IndrajeetPatil Sep 8, 2024
a7455f9
bump version and NEWS
IndrajeetPatil Sep 8, 2024
5ea6222
revert "fix"
IndrajeetPatil Sep 8, 2024
57e4080
Apply automatic changes
IndrajeetPatil Sep 8, 2024
9dad146
Update styler.yaml
IndrajeetPatil Sep 8, 2024
e2eb81a
Apply automatic changes
IndrajeetPatil Sep 8, 2024
4a5ab41
man -> inst fix works in CI?
IndrajeetPatil Sep 8, 2024
03e4bf6
Revert "man -> inst fix works in CI?"
IndrajeetPatil Sep 8, 2024
d935b41
bandaid for now
IndrajeetPatil Sep 8, 2024
9dfc180
Update .gitignore
IndrajeetPatil Sep 8, 2024
de24328
Update stats_details.Rmd
IndrajeetPatil Sep 8, 2024
ec3dc2c
not sure why pkgdown is still reading this file
IndrajeetPatil Sep 8, 2024
adb6e04
Update .Rbuildignore
IndrajeetPatil Sep 8, 2024
930f0ad
Update .Rbuildignore
IndrajeetPatil Sep 8, 2024
0860be9
fix precommit
IndrajeetPatil Sep 8, 2024
bb85d62
remove problematic URLs and `movies_wide` data
IndrajeetPatil Sep 8, 2024
2e9e718
Delete movies_wide.rdata
IndrajeetPatil Sep 8, 2024
a748bb7
Clean up authors field
IndrajeetPatil Sep 8, 2024
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18 changes: 8 additions & 10 deletions .Rbuildignore
Original file line number Diff line number Diff line change
@@ -1,6 +1,7 @@
.ls-lint.yml
^.*\.Rproj$
^.gitlab-ci\.yaml$
^.dev$
^.gitlab-ci\.yml$
^API$
^CITATION\.cff$
^CODE_OF_CONDUCT\.md$
Expand All @@ -19,37 +20,34 @@
^WIP/.
^\.Rproj\.user$
^\.circleci$
^\.coveralls\.yaml$
^\.coveralls\.yml$
^\.covrignore$
^\.github$
^\.github/ISSUE_TEMPLATE$
^\.github/workflows/R\.yaml$
^\.github/workflows/pr-commands\.yaml$
^\.gitsum$
^\.httr-oauth$
^\.lintr$
^\.pre-commit-config\.yaml$
^\.travis\.yaml$
^\.travis\.yml$
^\cache$
^_pkgdown\.yaml$
^_pkgdown\.yml$
^appveyor\.yaml$
^brew\-log$
^appveyor\.yml$
^codecov\.yaml$
^codemeta\.json$
^cran-comments\.md$
^data-raw$
^doc$
^docs$
^gitsum$
^hextools/.
^man-roxygen$
^old/.
^paper.*$
^pkgdown$
^revdep$
^shell$
^tests/manual$
^tests/testmanual$
hextools
publication/*
references.bib
shell
tests\^spelling
27 changes: 17 additions & 10 deletions vignettes/stats_details.Rmd → .dev/stats_details.Rmd
Original file line number Diff line number Diff line change
Expand Up @@ -4,19 +4,26 @@ output:
rmarkdown::html_vignette:
toc: true
toc_depth: 4
keep_md: true
vignette: >
%\VignetteIndexEntry{Test and effect size details}
%\VignetteEngine{knitr::rmarkdown}
%\VignetteEncoding{UTF-8}
---

```{r}
```{r setup}
#| label = "setup",
#| message = FALSE,
#| warning = FALSE,
#| include = FALSE,
#| echo = FALSE
source("setup.R")
source("../setup.R")

# TODO: check if the pkgdown issue with child document path is resolved # nolint.
# for now, run `rmarkdown::render("vignettes/web_only/stats_details.Rmd")` from root directory
knitr::opts_chunk$set(
eval = if (identical(Sys.getenv("IN_PKGDOWN"), "true")) FALSE else TRUE
)
```

This vignette can be cited as:
Expand All @@ -38,7 +45,7 @@ Abbreviations used: CI = Confidence Interval

## Summary of functionality

```{r child="../man/rmd-fragments/functionality.Rmd"}
```{r child="../../man/rmd-fragments/functionality.Rmd"}
```

## Summary of tests and effect sizes
Expand All @@ -52,37 +59,37 @@ more about how one-way (between-subjects) ANOVA, you can run

### `centrality_description()`

```{r child="../man/rmd-fragments/centrality_description.Rmd"}
```{r child="../../man/rmd-fragments/centrality_description.Rmd"}
```

### `oneway_anova()`

```{r child="../man/rmd-fragments/oneway_anova.Rmd"}
```{r child="../../man/rmd-fragments/oneway_anova.Rmd"}
```

### `two_sample_test()`

```{r child="../man/rmd-fragments/two_sample_test.Rmd"}
```{r child="../../man/rmd-fragments/two_sample_test.Rmd"}
```

### `one_sample_test()`

```{r child="../man/rmd-fragments/one_sample_test.Rmd"}
```{r child="../../man/rmd-fragments/one_sample_test.Rmd"}
```

### `corr_test()`

```{r child="../man/rmd-fragments/corr_test.Rmd"}
```{r child="../../man/rmd-fragments/corr_test.Rmd"}
```

### `contingency_table()`

```{r child="../man/rmd-fragments/contingency_table.Rmd"}
```{r child="../../man/rmd-fragments/contingency_table.Rmd"}
```

### `meta_analysis()`

```{r child="../man/rmd-fragments/meta_analysis.Rmd"}
```{r child="../../man/rmd-fragments/meta_analysis.Rmd"}
```

## Effect size interpretation
Expand Down
1 change: 1 addition & 0 deletions .github/workflows/R-CMD-check-hard.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -45,6 +45,7 @@ jobs:
any::rmarkdown
any::curl
any::testthat
any::patrick
needs: check

- uses: r-lib/actions/check-r-package@v2
Expand Down
7 changes: 3 additions & 4 deletions .github/workflows/styler.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -30,12 +30,11 @@ jobs:
local::.
r-lib/pkgapi
r-lib/styler
any::roxygen2
r-lib/roxygen2
any::metaplus
anthonynorth/roxyglobals
needs: |
metaplus
styler
roxygen2
check

- name: Enable styler cache
run: |
Expand Down
2 changes: 2 additions & 0 deletions .gitignore
Original file line number Diff line number Diff line change
@@ -1,5 +1,6 @@
Meta
doc
docs
# Windows image file caches
Thumbs.db
ehthumbs.db
Expand Down Expand Up @@ -37,6 +38,7 @@ $RECYCLE.BIN/
Network Trash Folder
Temporary Items
# R Studio files
*.html
.RData
.Rhistory
.Rproj.user
Expand Down
2 changes: 1 addition & 1 deletion .pre-commit-config.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -6,7 +6,7 @@ default_language_version:

repos:
- repo: https://github.com/lorenzwalthert/precommit
rev: v0.4.2
rev: v0.4.3
hooks:
- id: no-browser-statement
- id: no-debug-statement
Expand Down
28 changes: 19 additions & 9 deletions CITATION.cff
Original file line number Diff line number Diff line change
Expand Up @@ -97,7 +97,7 @@ references:
given-names: Mattan S.
year: '2024'
doi: 10.32614/CRAN.package.afex
version: '>= 1.3-1'
version: '>= 1.4-1'
- type: software
title: BayesFactor
abstract: 'BayesFactor: Computation of Bayes Factors for Common Designs'
Expand Down Expand Up @@ -181,7 +181,7 @@ references:
orcid: https://orcid.org/0000-0001-9560-6336
year: '2024'
doi: 10.32614/CRAN.package.datawizard
version: '>= 0.12.2'
version: '>= 0.12.3'
- type: software
title: dplyr
abstract: 'dplyr: A Grammar of Data Manipulation'
Expand Down Expand Up @@ -304,7 +304,7 @@ references:
orcid: https://orcid.org/0000-0002-9271-5075
year: '2024'
doi: 10.32614/CRAN.package.insight
version: '>= 0.20.2'
version: '>= 0.20.4'
- type: software
title: magrittr
abstract: 'magrittr: A Forward-Pipe Operator for R'
Expand Down Expand Up @@ -353,7 +353,7 @@ references:
orcid: https://orcid.org/0000-0001-9560-6336
year: '2024'
doi: 10.32614/CRAN.package.parameters
version: '>= 0.22.1'
version: '>= 0.22.2'
- type: software
title: performance
abstract: 'performance: Assessment of Regression Models Performance'
Expand Down Expand Up @@ -391,7 +391,7 @@ references:
orcid: https://orcid.org/0000-0003-4315-6788
year: '2024'
doi: 10.32614/CRAN.package.performance
version: '>= 0.12.2'
version: '>= 0.12.3'
- type: software
title: PMCMRplus
abstract: 'PMCMRplus: Calculate Pairwise Multiple Comparisons of Mean Rank Sums
Expand Down Expand Up @@ -449,7 +449,6 @@ references:
name: R Foundation for Statistical Computing
address: Vienna, Austria
year: '2024'
doi: 10.32614/CRAN.package.stats
- type: software
title: tibble
abstract: 'tibble: Simple Data Frames'
Expand Down Expand Up @@ -510,7 +509,7 @@ references:
given-names: Winston
year: '2024'
doi: 10.32614/CRAN.package.withr
version: '>= 3.0.0'
version: '>= 3.0.1'
- type: software
title: WRS2
abstract: 'WRS2: A Collection of Robust Statistical Methods'
Expand Down Expand Up @@ -545,7 +544,7 @@ references:
abstract: 'bayestestR: Understand and Describe Bayesian Models and Posterior Distributions'
notes: Suggests
url: https://easystats.github.io/bayestestR/
repository: https://easystats.r-universe.dev
repository: https://CRAN.R-project.org/package=bayestestR
authors:
- family-names: Makowski
given-names: Dominique
Expand Down Expand Up @@ -676,6 +675,18 @@ references:
year: '2024'
doi: 10.32614/CRAN.package.metaplus
version: '>= 1.0-5'
- type: software
title: patrick
abstract: 'patrick: Parameterized Unit Testing'
notes: Suggests
url: https://github.com/google/patrick
repository: https://CRAN.R-project.org/package=patrick
authors:
- family-names: Quinn
given-names: Michael
email: [email protected]
year: '2024'
doi: 10.32614/CRAN.package.patrick
- type: software
title: rmarkdown
abstract: 'rmarkdown: Dynamic Documents for R'
Expand Down Expand Up @@ -775,4 +786,3 @@ references:
name: R Foundation for Statistical Computing
address: Vienna, Austria
year: '2024'
doi: 10.32614/CRAN.package.utils
20 changes: 10 additions & 10 deletions DESCRIPTION
Original file line number Diff line number Diff line change
@@ -1,10 +1,9 @@
Type: Package
Package: statsExpressions
Title: Tidy Dataframes and Expressions with Statistical Details
Version: 1.5.5.9000
Version: 1.6.0
Authors@R:
person("Indrajeet", "Patil", , "[email protected]", role = c("cre", "aut", "cph"),
comment = c(ORCID = "0000-0003-1995-6531", Twitter = "@patilindrajeets"))
person("Indrajeet", "Patil", , "[email protected]", role = c("cre", "aut", "cph"))
Maintainer: Indrajeet Patil <[email protected]>
Description: Utilities for producing dataframes with rich details for the
most common types of statistical approaches and tests: parametric,
Expand All @@ -22,24 +21,24 @@ BugReports: https://github.com/IndrajeetPatil/statsExpressions/issues
Depends:
R (>= 4.1.0)
Imports:
afex (>= 1.3-1),
afex (>= 1.4-1),
BayesFactor (>= 0.9.12-4.7),
correlation (>= 0.8.5),
datawizard (>= 0.12.2),
datawizard (>= 0.12.3),
dplyr (>= 1.1.4),
effectsize (>= 0.8.9),
glue (>= 1.7.0),
insight (>= 0.20.2),
insight (>= 0.20.4),
magrittr (>= 2.0.3),
parameters (>= 0.22.1),
performance (>= 0.12.2),
parameters (>= 0.22.2),
performance (>= 0.12.3),
PMCMRplus (>= 1.9.10),
purrr (>= 1.0.2),
rlang (>= 1.1.4),
stats,
tibble (>= 3.2.1),
tidyr (>= 1.3.1),
withr (>= 3.0.0),
withr (>= 3.0.1),
WRS2 (>= 1.1-6),
zeallot (>= 0.1.0)
Suggests:
Expand All @@ -49,6 +48,7 @@ Suggests:
metaBMA,
metafor,
metaplus (>= 1.0-5),
patrick,
rmarkdown,
rstantools,
survival,
Expand All @@ -65,4 +65,4 @@ Language: en-US
LazyData: true
Roxygen: list( markdown = TRUE, roclets = c("collate", "namespace", "rd",
"pkgapi::api_roclet", "roxyglobals::global_roclet") )
RoxygenNote: 7.3.2
RoxygenNote: 7.3.2.9000
9 changes: 8 additions & 1 deletion NEWS.md
Original file line number Diff line number Diff line change
@@ -1,4 +1,11 @@
# statsExpressions 1.5.5.9000
# statsExpressions 1.6.0

## MAJOR CHANGES

- _Test and effect size details_ vignette is now available only on the package
website (https://indrajeetpatil.github.io/statsExpressions/articles/).

- Unused dataset has been removed: `movies_wide`.

# statsExpressions 1.5.5

Expand Down
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