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Numpy Override for Lumpy

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This commit is contained in:
David Crompton
2023-05-25 12:37:48 -04:00
parent 1e1d2a3800
commit 5e775250ed
2 changed files with 21 additions and 5 deletions
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2
pkgs/all-packages.nix
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@@ -11,7 +11,7 @@ final: prev: with prev; {
gsort = callPackage ./gsort { }; gsort = callPackage ./gsort { };
lumpy = callPackage ./lumpy.nix { python=prev.python2; }; lumpy = callPackage ./lumpy.nix { };
#meraculous = callPackage ./meraculous.nix { let stdenv49 = overrideCC stdenv gcc49; in stdenv = stdenv49; boost = boost159.override { stdenv = stdenv49 }; }; #meraculous = callPackage ./meraculous.nix { let stdenv49 = overrideCC stdenv gcc49; in stdenv = stdenv49; boost = boost159.override { stdenv = stdenv49 }; };

24
pkgs/lumpy.nix
View File

@@ -1,8 +1,19 @@
{ stdenv, lib, fetchFromGitHub, which, autoconf, automake { stdenv, lib, fetchFromGitHub, which, autoconf, automake
, zlib, curl , zlib, curl
, python, python2Packages, hexdump, sambamba, samblaster, samtools }: , python2, hexdump, sambamba, samblaster, samtools }: let
python = python2.override {
stdenv.mkDerivation rec { packageOverrides = final: prev: {
numpy = prev.numpy.overridePythonAttrs(old: rec {
version = "1.16.6";
src = fetchPypi {
inherit pname version;
extension = "zip";
sha256 = "e5cf3fdf13401885e8eea8170624ec96225e2174eb0c611c6f26dd33b489e3ff";
};
});
};
};
in stdenv.mkDerivation rec {
version = "0.3.0"; version = "0.3.0";
name = "lumpy-${version}"; name = "lumpy-${version}";
@@ -39,7 +50,12 @@ stdenv.mkDerivation rec {
automake automake
zlib zlib
curl curl
(python.withPackages (packages: with packages; [ numpy pysam ])) (python.withPackages (packages: with packages;
[
numpy
pysam
]
))
hexdump hexdump
sambamba sambamba
samblaster samblaster