mirror of
https://github.com/NixOS/nixpkgs.git
synced 2024-11-24 16:03:23 +00:00
46420bbaa3
treewide replacement of
stdenv.mkDerivation rec {
name = "*-${version}";
version = "*";
to pname
37 lines
1.2 KiB
Nix
37 lines
1.2 KiB
Nix
{stdenv, fetchurl, jre, makeWrapper}:
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stdenv.mkDerivation rec {
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pname = "varscan";
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version = "2.4.2";
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src = fetchurl {
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url = "https://github.com/dkoboldt/varscan/releases/download/${version}/VarScan.v${version}.jar";
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sha256 = "0cfhshinyqgwc6i7zf8lhbfybyly2x5anrz824zyvdhzz5i69zrl";
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};
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buildInputs = [ jre makeWrapper ];
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phases = [ "installPhase" ];
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installPhase = ''
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mkdir -p $out/libexec/varscan
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cp $src $out/libexec/varscan/varscan.jar
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mkdir -p $out/bin
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makeWrapper ${jre}/bin/java $out/bin/varscan --add-flags "-jar $out/libexec/varscan/varscan.jar"
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'';
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meta = with stdenv.lib; {
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description = "Variant calling and somatic mutation/CNV detection for next-generation sequencing data";
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# VarScan 2 is free for non-commercial use by academic,
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# government, and non-profit/not-for-profit institutions. A
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# commercial version of the software is available, and licensed
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# through the Office of Technology Management at Washington
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# University School of Medicine.
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license = licenses.unfree;
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homepage = https://github.com/dkoboldt/varscan;
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maintainers = with maintainers; [ jbedo ];
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platforms = platforms.all;
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};
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}
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