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571c71e6f7
We are migrating packages that meet below requirements:
1. using `callPackage`
2. called path is a directory
3. overriding set is empty (`{ }`)
4. not containing path expressions other than relative path (to
makenixpkgs-vet happy)
5. not referenced by nix files outside of the directory, other
than`pkgs/top-level/all-packages.nix`
6. not referencing nix files outside of the directory
7. not referencing `default.nix` (since it's changed to `package.nix`)
8. `outPath` doesn't change after migration
The tool is here: https://github.com/Aleksanaa/by-name-migrate.
36 lines
1.0 KiB
Nix
36 lines
1.0 KiB
Nix
{lib, stdenv, fetchurl, jre, unzip, makeWrapper}:
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stdenv.mkDerivation rec {
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pname = "snpeff";
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version = "4.3t";
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src = fetchurl {
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url = "mirror://sourceforge/project/snpeff/snpEff_v${builtins.replaceStrings [ "." ] [ "_" ] version}_core.zip";
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sha256 = "0i12mv93bfv8xjwc3rs2x73d6hkvi7kgbbbx3ry984l3ly4p6nnm";
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};
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nativeBuildInputs = [ makeWrapper unzip ];
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buildInputs = [ jre ];
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sourceRoot = "snpEff";
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installPhase = ''
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mkdir -p $out/libexec/snpeff
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cp *.jar *.config $out/libexec/snpeff
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mkdir -p $out/bin
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makeWrapper ${jre}/bin/java $out/bin/snpeff --add-flags "-jar $out/libexec/snpeff/snpEff.jar"
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makeWrapper ${jre}/bin/java $out/bin/snpsift --add-flags "-jar $out/libexec/snpeff/SnpSift.jar"
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'';
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meta = with lib; {
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description = "Genetic variant annotation and effect prediction toolbox";
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license = licenses.lgpl3;
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homepage = "https://snpeff.sourceforge.net/";
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sourceProvenance = with sourceTypes; [ binaryBytecode ];
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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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