bedops: init 2.4.39
This commit is contained in:
parent
632ae0892e
commit
76bd953162
51
pkgs/applications/science/biology/bedops/default.nix
Normal file
51
pkgs/applications/science/biology/bedops/default.nix
Normal file
@ -0,0 +1,51 @@
|
|||||||
|
{ lib, stdenv, fetchFromGitHub, zlib, bzip2, jansson, makeWrapper }:
|
||||||
|
|
||||||
|
stdenv.mkDerivation rec {
|
||||||
|
pname = "bedops";
|
||||||
|
version = "2.4.39";
|
||||||
|
|
||||||
|
src = fetchFromGitHub {
|
||||||
|
owner = "bedops";
|
||||||
|
repo = "bedops";
|
||||||
|
rev = "v${version}";
|
||||||
|
sha256 = "sha256-vPrut3uhZK1Eg9vPcyxVNWW4zKeypdsb28oM1xbbpJo=";
|
||||||
|
};
|
||||||
|
|
||||||
|
buildInputs = [ zlib bzip2 jansson ];
|
||||||
|
nativeBuildInputs = [ makeWrapper ];
|
||||||
|
|
||||||
|
preConfigure = ''
|
||||||
|
# We use nixpkgs versions of these libraries
|
||||||
|
rm -r third-party
|
||||||
|
sed -i '/^LIBS/d' system.mk/*
|
||||||
|
sed -i 's|^LIBRARIES.*$|LIBRARIES = -lbz2 -lz -ljansson|' */*/*/*/Makefile
|
||||||
|
substituteInPlace applications/bed/starch/src/Makefile --replace '$(LIBRARIES)' ""
|
||||||
|
|
||||||
|
# Function name is different in nixpkgs provided libraries
|
||||||
|
for f in interfaces/src/data/starch/starchFileHelpers.c applications/bed/starch/src/starchcat.c ; do
|
||||||
|
substituteInPlace $f --replace deflateInit2cpp deflateInit2
|
||||||
|
done
|
||||||
|
|
||||||
|
# Don't force static
|
||||||
|
for f in */*/*/*/Makefile ; do
|
||||||
|
substituteInPlace $f --replace '-static' ""
|
||||||
|
done
|
||||||
|
'';
|
||||||
|
|
||||||
|
makeFlags = [ "BINDIR=$(out)/bin" ];
|
||||||
|
|
||||||
|
postFixup = ''
|
||||||
|
for f in $out/bin/* ; do
|
||||||
|
wrapProgram $f --prefix PATH : "$out/bin"
|
||||||
|
done
|
||||||
|
'';
|
||||||
|
|
||||||
|
meta = with lib; {
|
||||||
|
description = "Suite of tools for addressing questions arising in genomics studies";
|
||||||
|
homepage = "https://github.com/bedops/bedops";
|
||||||
|
license = licenses.gpl2Only;
|
||||||
|
maintainers = with maintainers; [ jbedo ];
|
||||||
|
platforms = platforms.x86_64;
|
||||||
|
broken = stdenv.isDarwin;
|
||||||
|
};
|
||||||
|
}
|
@ -28140,6 +28140,8 @@ in
|
|||||||
|
|
||||||
bayescan = callPackage ../applications/science/biology/bayescan { };
|
bayescan = callPackage ../applications/science/biology/bayescan { };
|
||||||
|
|
||||||
|
bedops = callPackage ../applications/science/biology/bedops { };
|
||||||
|
|
||||||
bedtools = callPackage ../applications/science/biology/bedtools { };
|
bedtools = callPackage ../applications/science/biology/bedtools { };
|
||||||
|
|
||||||
bcftools = callPackage ../applications/science/biology/bcftools { };
|
bcftools = callPackage ../applications/science/biology/bcftools { };
|
||||||
|
Loading…
Reference in New Issue
Block a user