move r dependencies to packages.R

brown-ccv · Sep 3, 2024 · 9ac1b42 · 9ac1b42
1 parent 1f30d68
commit 9ac1b42
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Showing 4 changed files with 10 additions and 28 deletions.
diff --git a/requirements/classes/php1560/packages.R b/requirements/classes/php1560/packages.R
@@ -10,3 +10,8 @@
 #                  repos='http://cran.rstudio.com/')
 # BiocManager::install(c("airway", "DESeq2", "vsn", "biomaRt",
 #                        "AnnotationHub", "SummarizedExperiment"))
+
+install.packages(
+    c("HDSinRdata", "GGally", "gt", "gtsummary", "tidyverse", "patchwork", "usmap", "car", "broom", "pROC", "lmtest", "glmnet", "testthat", "microbenchmark"),
+    dependencies=TRUE, 
+    repos='http://cran.rstudio.com/')
diff --git a/requirements/classes/php1560/requirements.txt b/requirements/classes/php1560/requirements.txt
@@ -1,20 +1,7 @@
 # add class-specific packages here:
 r-ggplot2
 r-dplyr
-r-HDSinRdata
-r-GGally
-r-gt
-r-gtsummary
-r-tidyverse
-r-patchwork
-r-usmap
-r-car
-r-broom
-r-pROC
-r-lmtest
-r-glmnet
-r-testthat
-r-microbenchmark
+
 
 # these are the scipy base packages ( YOU PROBABLY DON'T WANT TO REMOVE THESE )
 dask 

diff --git a/requirements/classes/php2560/packages.R b/requirements/classes/php2560/packages.R
@@ -10,3 +10,7 @@
 #                  repos='http://cran.rstudio.com/')
 # BiocManager::install(c("airway", "DESeq2", "vsn", "biomaRt",
 #                        "AnnotationHub", "SummarizedExperiment"))
+install.packages(
+    c("HDSinRdata", "GGally", "gt", "gtsummary", "tidyverse", "patchwork", "usmap", "car", "broom", "pROC", "lmtest", "glmnet", "testthat", "microbenchmark"),
+    dependencies=TRUE, 
+    repos='http://cran.rstudio.com/')
diff --git a/requirements/classes/php2560/requirements.txt b/requirements/classes/php2560/requirements.txt
@@ -1,20 +1,6 @@
 # add class-specific packages here:
 r-ggplot2
 r-dplyr
-r-HDSinRdata
-r-GGally
-r-gt
-r-gtsummary
-r-tidyverse
-r-patchwork
-r-usmap
-r-car
-r-broom
-r-pROC
-r-lmtest
-r-glmnet
-r-testthat
-r-microbenchmark
 
 # these are the scipy base packages ( YOU PROBABLY DON'T WANT TO REMOVE THESE )
 dask