diff options
Diffstat (limited to 'infra/libkookie/nixpkgs/pkgs/applications/science/biology/varscan/default.nix')
-rw-r--r-- | infra/libkookie/nixpkgs/pkgs/applications/science/biology/varscan/default.nix | 36 |
1 files changed, 36 insertions, 0 deletions
diff --git a/infra/libkookie/nixpkgs/pkgs/applications/science/biology/varscan/default.nix b/infra/libkookie/nixpkgs/pkgs/applications/science/biology/varscan/default.nix new file mode 100644 index 000000000000..e97c8f14451f --- /dev/null +++ b/infra/libkookie/nixpkgs/pkgs/applications/science/biology/varscan/default.nix @@ -0,0 +1,36 @@ +{stdenv, fetchurl, jre, makeWrapper}: + +stdenv.mkDerivation rec { + pname = "varscan"; + 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; + }; + +} |