From 9fbf8625f19003c2be1addbe0d9f5c4ecbda9a1d Mon Sep 17 00:00:00 2001
From: Bruno Bzeznik <Bruno.Bzeznik@imag.fr>
Date: Thu, 13 Jun 2019 14:35:13 +0200
Subject: [PATCH] cd-hit: init at 4.8.1
---
.../science/biology/cd-hit/default.nix | 34 +++++++++++++++++++
pkgs/top-level/all-packages.nix | 2 ++
2 files changed, 36 insertions(+)
create mode 100644 pkgs/applications/science/biology/cd-hit/default.nix
diff --git a/pkgs/applications/science/biology/cd-hit/default.nix b/pkgs/applications/science/biology/cd-hit/default.nix
new file mode 100644
index 000000000000..1a41a28a19aa
--- /dev/null
+++ b/pkgs/applications/science/biology/cd-hit/default.nix
@@ -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;
+ };
+}
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index 33464ab30a45..1bbec7914fb2 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -21628,6 +21628,8 @@ in
bftools = callPackage ../applications/science/biology/bftools { };
+ cd-hit = callPackage ../applications/science/biology/cd-hit { };
+
cmtk = callPackage ../applications/science/biology/cmtk { };
conglomerate = callPackage ../applications/science/biology/conglomerate { };