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571c71e6f7
We are migrating packages that meet below requirements:
1. using `callPackage`
2. called path is a directory
3. overriding set is empty (`{ }`)
4. not containing path expressions other than relative path (to
makenixpkgs-vet happy)
5. not referenced by nix files outside of the directory, other
than`pkgs/top-level/all-packages.nix`
6. not referencing nix files outside of the directory
7. not referencing `default.nix` (since it's changed to `package.nix`)
8. `outPath` doesn't change after migration
The tool is here: https://github.com/Aleksanaa/by-name-migrate.
48 lines
1.3 KiB
Nix
48 lines
1.3 KiB
Nix
{ lib, stdenv, fetchFromGitHub, zlib }:
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stdenv.mkDerivation {
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pname = "bwa";
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version = "unstable-2022-09-23";
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src = fetchFromGitHub {
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owner = "lh3";
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repo = "bwa";
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rev = "139f68fc4c3747813783a488aef2adc86626b01b";
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hash = "sha256-8u35lTK6gBKeapYoIkG9MuJ/pyy/HFA2OiPn+Ml2C6c=";
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};
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buildInputs = [ zlib ];
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# Avoid hardcoding gcc to allow environments with a different
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# C compiler to build
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preConfigure = ''
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sed -i '/^CC/d' Makefile
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'';
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makeFlags = lib.optional stdenv.hostPlatform.isStatic "AR=${stdenv.cc.targetPrefix}ar";
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# it's unclear which headers are intended to be part of the public interface
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# so we may find ourselves having to add more here over time
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installPhase = ''
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runHook preInstall
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install -vD -t $out/bin bwa
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install -vD -t $out/lib libbwa.a
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install -vD -t $out/include bntseq.h
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install -vD -t $out/include bwa.h
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install -vD -t $out/include bwamem.h
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install -vD -t $out/include bwt.h
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runHook postInstall
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'';
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meta = with lib; {
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description = "Software package for mapping low-divergent sequences against a large reference genome, such as the human genome";
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mainProgram = "bwa";
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license = licenses.gpl3Plus;
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homepage = "https://bio-bwa.sourceforge.net/";
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maintainers = with maintainers; [ luispedro ];
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platforms = platforms.unix;
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};
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}
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