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Merge pull request #122 from opensafely-core/sort-packages
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sort packages.csv
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bloodearnest authored Jan 27, 2023
2 parents a6f89fa + e4f1961 commit 002b03e
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2 changes: 1 addition & 1 deletion add-pkg.sh
Original file line number Diff line number Diff line change
Expand Up @@ -38,7 +38,7 @@ else
fi

docker tag "r-$NAME" "$IMAGE"
docker run -v "$PWD:/out" "$IMAGE" -e 'write.csv(installed.packages()[, c("Package","Version")], row.names=FALSE, file="/out/packages.csv")'
docker run "$IMAGE" -e 'write.csv(installed.packages()[, c("Package","Version")], row.names=FALSE, file="/dev/stdout")' 2>/dev/null | sort > packages.csv

set +x
echo "Run this to push:"
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134 changes: 67 additions & 67 deletions packages.csv
Original file line number Diff line number Diff line change
@@ -1,64 +1,17 @@
"Package","Version"
"BH","1.72.0-3"
"Brobdingnag","1.2-6"
"DBI","1.1.0"
"DT","0.15"
"Epi","2.46"
"FNN","1.1.3"
"Formula","1.2-3"
"GGally","2.0.0"
"Gmisc","2.0.1"
"HDInterval","0.2.2"
"Hmisc","4.4-1"
"KMsurv","0.1-5"
"KernSmooth","2.23-17"
"MASS","7.3-52"
"MatchIt","4.2.0"
"Matrix","1.2-18"
"MatrixModels","0.4-1"
"ModelMetrics","1.2.2.2"
"NHPoisson","3.3"
"Publish","2020.12.23"
"R.methodsS3","1.8.1"
"R.oo","1.25.0"
"R.utils","2.12.0"
"R6","2.4.1"
"RColorBrewer","1.1-2"
"RConics","1.1.1"
"RCurl","1.98-1.2"
"ROI","1.0-0"
"ROI.plugin.lpsolve","1.0-0"
"RSpectra","0.16-1"
"Rcpp","1.0.5"
"RcppArmadillo","0.9.900.3.0"
"RcppEigen","0.3.3.7.0"
"RcppParallel","5.0.2"
"RcppProgress","0.4.2"
"RcppRoll","0.3.0"
"RcppThread","2.1.3"
"Rdpack","2.1.1"
"SCCS","1.2"
"SQUAREM","2020.5"
"SparseM","1.78"
"StanHeaders","2.21.0-6"
"TH.data","1.1-0"
"UpSetR","1.4.0"
"V8","3.2.0"
"VGAM","1.1-6"
"WeightIt","0.13.1"
"XML","3.99-0.6"
"abind","1.4-5"
"arrow","4.0.0.1"
"ash","1.0-15"
"askpass","1.1"
"assertthat","0.2.1"
"aweek","1.0.2"
"backports","1.4.1"
"base","4.0.2"
"base64enc","0.1-3"
"bayesm","3.1-4"
"bayesplot","1.7.2"
"bayestestR","0.8.2"
"bdsmatrix","1.3-4"
"BH","1.72.0-3"
"binom","1.1-1"
"bit","4.0.4"
"bit64","4.0.5"
Expand All @@ -68,13 +21,14 @@
"brglm2","0.7.1"
"bridgesampling","1.0-0"
"brms","2.13.5"
"Brobdingnag","1.2-6"
"broom","0.7.5"
"broom.helpers","1.2.1"
"caTools","1.18.2"
"callr","3.4.3"
"car","3.0-9"
"carData","3.0-4"
"caret","6.0-86"
"caTools","1.18.2"
"cellranger","1.1.0"
"checkmate","2.0.0"
"class","7.3-17"
Expand All @@ -90,6 +44,7 @@
"colorspace","1.4-1"
"colourpicker","1.0"
"commonmark","1.7"
"compiler","4.0.2"
"conquer","1.0.2"
"consort","1.0.1"
"corpcor","1.6.9"
Expand All @@ -101,17 +56,20 @@
"credentials","1.3.0"
"crosstalk","1.1.0.1"
"curl","4.3"
"datasets","4.0.2"
"data.table","1.13.0"
"date","1.2-39"
"DBI","1.1.0"
"dbplyr","1.4.4"
"deSolve","1.28"
"desc","1.2.0"
"deSolve","1.28"
"detectseparation","0.2"
"dfidx","0.0-4"
"digest","0.6.25"
"distributional","0.2.0"
"doParallel","1.0.15"
"dplyr","1.0.2"
"DT","0.15"
"dtplyr","1.0.1"
"dtw","1.23-1"
"dtwclust","5.5.10"
Expand All @@ -121,6 +79,7 @@
"egg","0.4.5"
"ellipsis","0.3.1"
"enrichwith","0.3.1"
"Epi","2.46"
"estimatr","0.30.2"
"etm","1.1.1"
"evaluate","0.14"
Expand All @@ -135,13 +94,15 @@
"finalfit","1.0.4"
"flexclust","1.4-1"
"flexsurv","1.1.1"
"FNN","1.1.3"
"fontBitstreamVera","0.1.1"
"fontLiberation","0.1.0"
"fontquiver","0.2.1"
"forcats","0.5.0"
"foreach","1.5.0"
"foreign","0.8-80"
"forestplot","1.10.1"
"Formula","1.2-3"
"fs","1.5.0"
"furrr","0.1.0"
"future","1.18.0"
Expand All @@ -152,6 +113,7 @@
"getopt","1.20.3"
"gets","0.29"
"ggalluvial","0.12.3"
"GGally","2.0.0"
"ggdist","2.2.0"
"ggfortify","0.4.15"
"ggh4x","0.2.1"
Expand All @@ -167,17 +129,23 @@
"glmnet","4.1-4"
"globals","0.12.5"
"glue","1.4.2"
"Gmisc","2.0.1"
"gnm","1.1-1"
"gower","0.2.2"
"graphics","4.0.2"
"grDevices","4.0.2"
"grid","4.0.2"
"gridExtra","2.3"
"gt","0.2.2"
"gtable","0.3.0"
"gtools","3.8.2"
"gtsummary","1.3.7"
"haven","2.3.1"
"HDInterval","0.2.2"
"hdrcde","3.3"
"here","0.1"
"highr","0.8"
"Hmisc","4.4-1"
"hms","0.5.3"
"htmlTable","2.0.1"
"htmltools","0.5.0"
Expand All @@ -199,7 +167,9 @@
"jtools","2.1.2"
"kableExtra","1.3.4"
"kernlab","0.9-29"
"KernSmooth","2.23-17"
"km.ci","0.5-2"
"KMsurv","0.1-5"
"knitr","1.29"
"ks","1.11.7"
"labeling","0.3"
Expand All @@ -223,12 +193,17 @@
"maptools","1.0-2"
"markdown","1.1"
"marqLevAlg","2.0.7"
"MASS","7.3-52"
"MatchIt","4.2.0"
"mathjaxr","1.6-0"
"Matrix","1.2-18"
"MatrixModels","0.4-1"
"matrixStats","0.56.0"
"maxstat","0.7-25"
"mclust","5.4.7"
"metadat","1.2-0"
"metafor","3.8-1"
"methods","4.0.2"
"mets","1.2.9"
"mgcv","1.8-33"
"mice","3.11.0"
Expand All @@ -238,6 +213,7 @@
"mitools","2.4"
"mlogit","1.1-1"
"mnlogit","1.2.6"
"ModelMetrics","1.2.2.2"
"modelr","0.1.8"
"modelsummary","0.6.6"
"modeltools","0.2-23"
Expand All @@ -248,6 +224,7 @@
"munsell","0.5.0"
"mvtnorm","1.1-1"
"naniar","0.6.0"
"NHPoisson","3.3"
"nleqslv","3.3.2"
"nlme","3.1-149"
"nloptr","1.2.2.2"
Expand All @@ -257,11 +234,12 @@
"openssl","1.4.2"
"openxlsx","4.1.5"
"optparse","1.6.6"
"pROC","1.16.2"
"Package","Version"
"packrat","0.5.0"
"pacman","0.5.1"
"pammtools","0.5.8"
"pander","0.6.3"
"parallel","4.0.2"
"parameters","0.12.0"
"parglm","0.1.6"
"patchwork","1.1.1"
Expand All @@ -283,24 +261,38 @@
"praise","1.0.0"
"predtools","0.0.2"
"prettyunits","1.1.1"
"pROC","1.16.2"
"processx","3.4.4"
"prodlim","2019.11.13"
"progress","1.2.2"
"promises","1.1.1"
"proxy","0.4-27"
"ps","1.3.4"
"pseudo","1.4.3"
"Publish","2020.12.23"
"purrr","0.3.4"
"quadprog","1.5-8"
"quantreg","5.61"
"qvcalc","1.0.2"
"R6","2.4.1"
"rainbow","3.6"
"randomForest","4.6-14"
"randomForestExplainer","0.10.1"
"randtoolbox","2.0.2"
"ranger","0.13.1"
"rappdirs","0.3.1"
"rbibutils","2.0"
"RColorBrewer","1.1-2"
"RConics","1.1.1"
"Rcpp","1.0.5"
"RcppArmadillo","0.9.900.3.0"
"RcppEigen","0.3.3.7.0"
"RcppParallel","5.0.2"
"RcppProgress","0.4.2"
"RcppRoll","0.3.0"
"RcppThread","2.1.3"
"RCurl","1.98-1.2"
"Rdpack","2.1.1"
"readr","1.3.1"
"readxl","1.3.1"
"recipes","0.1.15"
Expand All @@ -319,19 +311,26 @@
"riskRegression","2021.10.10"
"rlang","0.4.10"
"rmarkdown","2.3"
"R.methodsS3","1.8.1"
"rms","6.2-0"
"rngWELL","0.10-7"
"ROI","1.0-0"
"ROI.plugin.lpsolve","1.0-0"
"R.oo","1.25.0"
"rpart","4.1-15"
"rprojroot","1.3-2"
"rsconnect","0.8.16"
"RSpectra","0.16-1"
"rstan","2.21.2"
"rstantools","2.1.1"
"rstatix","0.6.0"
"rstudioapi","0.11"
"R.utils","2.12.0"
"rvest","0.3.6"
"sandwich","2.5-1"
"sass","0.3.0"
"scales","1.1.1"
"SCCS","1.2"
"segmented","1.4-1"
"selectr","0.4-2"
"sf","0.9-5"
Expand All @@ -345,19 +344,27 @@
"snakecase","0.11.0"
"sourcetools","0.1.7"
"sp","1.4-2"
"SparseM","1.78"
"splines2","0.4.1"
"splines","4.0.2"
"SQUAREM","2020.5"
"StanHeaders","2.21.0-6"
"statmod","1.4.34"
"stats","4.0.2"
"stats4","4.0.2"
"stringi","1.4.6"
"stringr","1.4.0"
"survMisc","0.5.5"
"survey","4.1-1"
"survival","3.2-3"
"survminer","0.4.8"
"survMisc","0.5.5"
"svglite","1.2.3.2"
"sys","3.4"
"systemfonts","0.3.2"
"tables","0.9.6"
"tcltk","4.0.2"
"testthat","2.3.2"
"TH.data","1.1-0"
"threejs","0.3.3"
"tibble","3.0.3"
"tictoc","1.0"
Expand All @@ -367,36 +374,29 @@
"timeDate","3043.102"
"timereg","2.0.1"
"tinytex","0.25"
"tools","4.0.2"
"tsModel","0.6"
"units","0.6-7"
"UpSetR","1.4.0"
"usethis","2.0.1"
"utf8","1.1.4"
"utils","4.0.2"
"V8","3.2.0"
"vcd","1.4-9"
"vctrs","0.3.4"
"VGAM","1.1-6"
"viridis","0.5.1"
"viridisLite","0.3.0"
"visdat","0.5.3"
"webshot","0.5.2"
"WeightIt","0.13.1"
"whisker","0.4"
"withr","2.4.1"
"xfun","0.16"
"xml2","1.3.2"
"XML","3.99-0.6"
"xtable","1.8-4"
"xts","0.12-0"
"yaml","2.2.1"
"zip","2.1.1"
"zoo","1.8-8"
"base","4.0.2"
"compiler","4.0.2"
"datasets","4.0.2"
"grDevices","4.0.2"
"graphics","4.0.2"
"grid","4.0.2"
"methods","4.0.2"
"parallel","4.0.2"
"splines","4.0.2"
"stats","4.0.2"
"stats4","4.0.2"
"tcltk","4.0.2"
"tools","4.0.2"
"utils","4.0.2"

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