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Merge pull request #58362 from bzizou/cd-hit

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cd-hit: init at 4.8.1
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Aaron Andersen 2019-06-13 20:39:54 -04:00 committed by GitHub
commit 4cb64dba39
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34
pkgs/applications/science/biology/cd-hit/default.nix Normal file
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@ -0,0 +1,34 @@
{ stdenv, fetchFromGitHub, makeWrapper, zlib, perl, perlPackages }:
stdenv.mkDerivation rec {
version = "4.8.1";
pname = "cd-hit";
src = fetchFromGitHub {
owner = "weizhongli";
repo = "cdhit";
rev = "V${version}";
sha256 = "032nva6iiwmw59gjipm1mv0xlcckhxsf45mc2qbnv19lbis0q22i";
};
propagatedBuildInputs = [ perl perlPackages.TextNSP perlPackages.PerlMagick perlPackages.Storable ];
nativeBuildInputs = [ zlib makeWrapper ];
makeFlags = [ "PREFIX=$(out)/bin" ];
preInstall = "mkdir -p $out/bin";
postFixup = ''
wrapProgram $out/bin/FET.pl --prefix PERL5LIB : $PERL5LIB
wrapProgram $out/bin/plot_2d.pl --prefix PERL5LIB : $PERL5LIB
wrapProgram $out/bin/clstr_list_sort.pl --prefix PERL5LIB : $PERL5LIB
'';
meta = with stdenv.lib; {
description = "Clustering and comparing protein or nucleotide sequences";
homepage = http://weizhongli-lab.org/cd-hit/;
license = licenses.gpl2;
maintainers = [ maintainers.bzizou ];
platforms = platforms.unix;
};
}

2
pkgs/top-level/all-packages.nix
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@ -22302,6 +22302,8 @@ in
bftools = callPackage ../applications/science/biology/bftools { };
cd-hit = callPackage ../applications/science/biology/cd-hit { };
cmtk = callPackage ../applications/science/biology/cmtk { };
clustal-omega = callPackage ../applications/science/biology/clustal-omega { };

13
pkgs/top-level/perl-packages.nix
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@ -16818,6 +16818,19 @@ let
};
};
TextNSP = buildPerlPackage rec {
name = "Text-NSP-1.31";
src = fetchurl {
url = "mirror://cpan/authors/id/T/TP/TPEDERSE/${name}.tar.gz";
sha256 = "a01201beb29636b3e41ecda2a6cf6522fd265416bd6d994fad02f59fb49cf595";
};
meta = {
description = "Extract collocations and Ngrams from text";
license = stdenv.lib.licenses.free;
maintainers = [ maintainers.bzizou ];
};
};
TextvFileasData = buildPerlPackage rec {
name = "Text-vFile-asData-0.08";
src = fetchurl {