diff --git a/pkgs/applications/science/biology/igv/default.nix b/pkgs/applications/science/biology/igv/default.nix new file mode 100644 index 00000000000000..3d0f7154e0e0e1 --- /dev/null +++ b/pkgs/applications/science/biology/igv/default.nix @@ -0,0 +1,33 @@ +{ stdenv, fetchurl, unzip, jre }: + +stdenv.mkDerivation rec { + name = "igv-${version}"; + version = "2.3.77"; + + src = fetchurl { + url = "http://data.broadinstitute.org/igv/projects/downloads/IGV_${version}.zip"; + sha256 = "9d8c622649f9f02026e92fa44006bb57e897baad4359c8708ca9cdbb71f94bb5"; + }; + + buildInputs = [ unzip jre ]; + + installPhase = '' + mkdir -pv $out/{share,bin} + cp -Rv * $out/share/ + + sed -i "s#prefix=.*#prefix=$out/share#g" $out/share/igv.sh + sed -i 's#java#${jre}/bin/java#g' $out/share/igv.sh + + ln -s $out/share/igv.sh $out/bin/igv + + chmod +x $out/bin/igv + ''; + + meta = with stdenv.lib; { + homepage = "https://www.broadinstitute.org/igv/"; + description = "A visualization tool for interactive exploration of genomic datasets"; + license = licenses.lgpl21; + platforms = platforms.unix; + maintainers = [ maintainers.mimadrid ]; + }; +} diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix index 41d5c0c8e9f600..51cbecd4759ae6 100644 --- a/pkgs/top-level/all-packages.nix +++ b/pkgs/top-level/all-packages.nix @@ -16035,6 +16035,8 @@ in htslib = callPackage ../development/libraries/science/biology/htslib { }; + igv = callPackage ../applications/science/biology/igv { }; + neuron = callPackage ../applications/science/biology/neuron { }; neuron-mpi = appendToName "mpi" (neuron.override {