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author | Justin Bedo <cu@cua0.org> | 2017-03-07 16:24:06 +1100 |
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committer | Robert Helgesson <robert@rycee.net> | 2017-03-08 22:43:49 +0100 |
commit | 076e513b94a4bd42c635394c393fb583f9dbadc3 (patch) | |
tree | fa8b32977d3d41ac294487b675203ea04cda19d2 /pkgs/applications/science/biology | |
parent | 4bb50fd08cb63aefbb4b7d38092310048e62dc20 (diff) | |
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varscan: init at 2.4.2
Diffstat (limited to 'pkgs/applications/science/biology')
-rw-r--r-- | pkgs/applications/science/biology/varscan/default.nix | 36 |
1 files changed, 36 insertions, 0 deletions
diff --git a/pkgs/applications/science/biology/varscan/default.nix b/pkgs/applications/science/biology/varscan/default.nix new file mode 100644 index 00000000000..f685031e87e --- /dev/null +++ b/pkgs/applications/science/biology/varscan/default.nix @@ -0,0 +1,36 @@ +{stdenv, fetchurl, jre, makeWrapper}: + +stdenv.mkDerivation rec { + name = "varscan-${version}"; + version = "2.4.2"; + + src = fetchurl { + url = "https://github.com/dkoboldt/varscan/releases/download/${version}/VarScan.v${version}.jar"; + sha256 = "0cfhshinyqgwc6i7zf8lhbfybyly2x5anrz824zyvdhzz5i69zrl"; + }; + + buildInputs = [ jre makeWrapper ]; + + phases = [ "installPhase" ]; + + installPhase = '' + mkdir -p $out/libexec/varscan + cp $src $out/libexec/varscan/varscan.jar + mkdir -p $out/bin + makeWrapper ${jre}/bin/java $out/bin/varscan --add-flags "-jar $out/libexec/varscan/varscan.jar" + ''; + + meta = with stdenv.lib; { + description = "Variant calling and somatic mutation/CNV detection for next-generation sequencing data"; + # VarScan 2 is free for non-commercial use by academic, + # government, and non-profit/not-for-profit institutions. A + # commercial version of the software is available, and licensed + # through the Office of Technology Management at Washington + # University School of Medicine. + license = licenses.unfree; + homepage = https://github.com/dkoboldt/varscan; + maintainers = with maintainers; [ jbedo ]; + platforms = platforms.all; + }; + +} |