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2bfa93e01c
It won't be enough to fix cross in all cases, but it is in at least one: pywayland. I've only made the change in cases I'm confident it's correct, as it would be wrong to change this when python.interpreter is used in wrappers, and possibly when it's used for running tests.
61 lines
1.7 KiB
Nix
61 lines
1.7 KiB
Nix
{ lib, stdenv, fetchurl, python3Packages, zlib, bash }:
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let
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pythonPackages = python3Packages;
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inherit (pythonPackages) python;
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in
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pythonPackages.buildPythonApplication rec {
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pname = "quast";
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version = "5.0.2";
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src = fetchurl {
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url = "https://github.com/ablab/quast/releases/download/${pname}_${version}/${pname}-${version}.tar.gz";
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sha256 = "13ml8qywbb4cc7wf2x7z5mz1rjqg51ab8wkizwcg4f6c40zgif6d";
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};
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pythonPath = with pythonPackages; [ simplejson joblib setuptools matplotlib ];
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buildInputs = [ zlib ] ++ pythonPath;
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dontConfigure = true;
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dontBuild = true;
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installPhase = ''
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substituteInPlace quast_libs/bedtools/Makefile \
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--replace "/bin/bash" "${bash}/bin/bash"
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mkdir -p "$out/${python.sitePackages}"
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export PYTHONPATH="$out/${python.sitePackages}:$PYTHONPATH"
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${python.pythonForBuild.interpreter} setup.py install \
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--install-lib=$out/${python.sitePackages} \
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--prefix="$out"
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'';
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postFixup = ''
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for file in $(find $out -type f -type f -perm /0111); do
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old_rpath=$(patchelf --print-rpath $file) && \
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patchelf --set-rpath $old_rpath:${stdenv.cc.cc.lib}/lib $file || true
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done
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# Link to the master program
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ln -s $out/bin/quast.py $out/bin/quast
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'';
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dontPatchELF = true;
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# Tests need to download data files, so manual run after packaging is needed
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doCheck = false;
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meta = with lib ; {
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description = "Evaluates genome assemblies by computing various metrics";
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homepage = "https://github.com/ablab/quast";
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sourceProvenance = with sourceTypes; [
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fromSource
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binaryNativeCode # source bundles binary dependencies
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];
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license = licenses.gpl2;
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maintainers = [ maintainers.bzizou ];
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platforms = platforms.all;
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};
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}
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