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What happens if I push all of nixpkgs
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Nix
12345678910111213141516171819202122232425262728293031323334353637383940414243444546474849505152535455565758596061626364{ BioPerl, IOString, buildPerlModule, fetchFromGitHub, fetchurl, kent, lib, libmysqlclient, libpng, openssl,}:
buildPerlModule rec { pname = "Bio-BigFile"; version = "1.07";
src = fetchurl { url = "mirror://cpan/authors/id/L/LD/LDS/Bio-BigFile-${version}.tar.gz"; sha256 = "277b66ce8acbdd52399e2c5a0cf4e3bd5c74c12b94877cd383d0c4c97740d16d"; };
# Only kent 335 works with Bio-BigFile, see # - official documentation: https://www.ensembl.org/info/docs/tools/vep/script/vep_download.html#bigfile # - one of the developer's answer: https://github.com/Ensembl/ensembl-vep/issues/1412 # BioBigfile needs the environment variable KENT_SRC to find kent KENT_SRC = kent.overrideAttrs (old: rec { pname = "kent"; version = "335";
src = fetchFromGitHub { owner = "ucscGenomeBrowser"; repo = "kent"; rev = "v${version}_base"; sha256 = "1455dwzpaq4hyhcqj3fpwgq5a39kp46qarfbr6ms6l2lz583r083"; };
patches = [ # Fix for linking error with zlib. Adding zlib as a dependency is not enough ./kent-utils.patch # Vendoring upstream patch (not merged in uscsGenomeBrowser/kent) ./kent-316e4fd40f53c96850128fd65097a42623d1e736.patch ]; });
buildInputs = [ BioPerl IOString libpng libmysqlclient openssl ];
# Ensure compatibility with GCC-11 (compilation fails if -Wno-format-security) hardeningDisable = [ "format" ];
meta = with lib; { homepage = "https://metacpan.org/dist/Bio-BigFile"; description = "Manipulate Jim Kent's BigWig and BigBed index files for genomic features"; license = licenses.artistic2; maintainers = with maintainers; [ apraga ]; };}