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bioconductor packages: 3.8 -> 3.10, update R packages, other fixes #85522

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timsears wants to merge 1 commit into from
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bioconductor packages: 3.8 -> 3.10, update R packages, other fixes #85522

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2 changes: 1 addition & 1 deletion pkgs/development/libraries/bwidget/default.nix
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Original file line number Diff line number Diff line change
Expand Up @@ -6,7 +6,7 @@ stdenv.mkDerivation rec {

src = fetchurl {
url = "mirror://sourceforge/tcllib/bwidget-${version}.tar.gz";
sha256 = "0knlnpmwam74v0qa1h9gg4f32vzzz7ays2wbslflf51ilg7nw6jk";
sha256 = "0wm6hk3rnqhnn2cyw24drqwbfnysp6jyfi8lc1vih5k704a955lf";
};

dontBuild = true;
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358 changes: 187 additions & 171 deletions pkgs/development/r-modules/bioc-annotation-packages.nix
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744 changes: 386 additions & 358 deletions pkgs/development/r-modules/bioc-experiment-packages.nix
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3,447 changes: 1,810 additions & 1,637 deletions pkgs/development/r-modules/bioc-packages.nix
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36 changes: 36 additions & 0 deletions pkgs/development/r-modules/bioc-workflows-packages.nix
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27 changes: 27 additions & 0 deletions pkgs/development/r-modules/build_packages.sh
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@@ -0,0 +1,27 @@
#!/bin/sh
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@peti peti May 7, 2020

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What is the purpose of this script?

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@timsears timsears May 7, 2020

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It's a test script to build packages. I used it to test all of the packages. Complements the generation of all the packages created by generate-r-packages.R. Intended for use by someone updating all the R packages, not a user trying to install some.

# args: names pkgs start end
pkgs=$1
start=1
if [[ $2 -gt 1 ]] ; then
start=$2
fi

end=100000
if [[ $3 -ne 0 ]] ; then
end=$3
echo "building from $start to $end"
fi


i=1
trap "exit" INT
for pkg in $(cat $pkgs)
do
if [[ $i -ge $start && $i -le $end ]] ; then
echo "$i of $start to $end: Building ${pkg}"
nix build -f test-evaluation.nix rPackages.${pkg}
fi
let "i+=1"

done

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