mirror of
https://github.com/NixOS/nixpkgs.git
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61 lines
1.3 KiB
Nix
61 lines
1.3 KiB
Nix
{ lib
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, stdenvNoCC
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, fetchFromGitHub
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, jdk8
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, makeWrapper
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, jre8
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, zip
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}:
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let
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jdk = jdk8;
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jre = jre8;
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in
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stdenvNoCC.mkDerivation rec {
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pname = "astral";
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version = "5.7.1";
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src = fetchFromGitHub {
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owner = "smirarab";
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repo = "ASTRAL";
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rev = "v${version}";
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sha256 = "043w2z6gbrisqirdid022f4b8jps1pp5syi344krv2bis1gjq5sn";
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};
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nativeBuildInputs = [ jdk makeWrapper jre zip ];
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buildPhase = ''
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patchShebangs ./make.sh
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./make.sh
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'';
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doCheck = true;
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checkPhase = ''
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runHook preCheck
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java -jar astral.${version}.jar -i main/test_data/song_primates.424.gene.tre
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runHook postCheck
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'';
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installPhase = ''
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mkdir -p $out/share/lib
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mkdir -p $out/bin
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mv astral.${version}.jar $out/share/
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mv lib/*.jar $out/share/lib
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mv Astral.${version}.zip $out/share/
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cp -a main/test_data $out/share/
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makeWrapper ${jre}/bin/java $out/bin/astral \
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--add-flags "-jar $out/share/astral.${version}.jar"
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'';
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meta = with lib; {
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homepage = "https://github.com/smirarab/ASTRAL";
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description = "Tool for estimating an unrooted species tree given a set of unrooted gene trees";
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sourceProvenance = with sourceTypes; [
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fromSource
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binaryBytecode # source bundles dependencies as jars
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];
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license = licenses.asl20;
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maintainers = with maintainers; [ bzizou ];
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};
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}
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