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Merge pull request #58358 from bzizou/itsx

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itsx: init at 1.1.1
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Maximilian Bosch 2019-03-27 02:44:45 +01:00 committed by GitHub
commit 607c07d8ae
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2 changed files with 36 additions and 0 deletions
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34
pkgs/applications/science/biology/itsx/default.nix Normal file
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@ -0,0 +1,34 @@
{ stdenv, fetchurl, hmmer, perl }:
stdenv.mkDerivation rec {
version = "1.1.1";
name = "itsx-${version}";
src = fetchurl {
url = "http://microbiology.se/sw/ITSx_${version}.tar.gz";
sha256 = "0lrmy2n3ax7f208k0k8l3yz0j5cpz05hv4hx1nnxzn0c51z1pc31";
};
buildInputs = [ hmmer perl ];
buildPhase = ''
sed -e "s,profileDB = .*,profileDB = \"$out/share/ITSx_db/HMMs\";," -i ITSx
sed "3 a \$ENV{\'PATH\'}='${hmmer}/bin:'.\"\$ENV{\'PATH\'}\";" -i ITSx
mkdir bin
mv ITSx bin
'';
installPhase = ''
mkdir -p $out/share/doc && cp -a bin $out/
cp *pdf $out/share/doc
cp -r ITSx_db $out/share
'';
meta = with stdenv.lib; {
description = "Improved software detection and extraction of ITS1 and ITS2 from ribosomal ITS sequences of fungi and other eukaryotes for use in environmental sequencing";
homepage = http://microbiology.se/software/itsx/;
license = licenses.gpl3;
maintainers = [ maintainers.bzizou ];
platforms = [ "x86_64-linux" "i686-linux" ];
};
}

2
pkgs/top-level/all-packages.nix
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@ -21654,6 +21654,8 @@ in
igv = callPackage ../applications/science/biology/igv { };
inormalize = callPackage ../applications/science/biology/inormalize { };
itsx = callPackage ../applications/science/biology/itsx { };
iv = callPackage ../applications/science/biology/iv {
neuron-version = neuron.version;