diff options
Diffstat (limited to 'tools/ascat-app.nix')
| -rw-r--r-- | tools/ascat-app.nix | 19 |
1 files changed, 10 insertions, 9 deletions
diff --git a/tools/ascat-app.nix b/tools/ascat-app.nix index 51aa677..bd6d538 100644 --- a/tools/ascat-app.nix +++ b/tools/ascat-app.nix @@ -1,4 +1,4 @@ -{stdenv, callPackage, buildPerlPackage, fetchurl, fetchFromGitHub, perlPackages, R, bwa, samtools, pkgconfig, zlib, htslib, curl, bzip2, lzma, gnutls, nettle, gmp, p11-kit, libtasn1, perl, psmisc, time, vcftools, rWrapper, rPackages}: +{ stdenv, callPackage, buildPerlPackage, fetchurl, fetchFromGitHub, perlPackages, R, bwa, samtools, pkgconfig, zlib, htslib, curl, bzip2, lzma, gnutls, nettle, gmp, p11-kit, libtasn1, perl, psmisc, time, vcftools, rWrapper, rPackages }: let ascat = fetchurl { @@ -98,7 +98,7 @@ let url = "mirror://cpan/authors/id/C/CD/CDRAUG/${name}.tar.gz"; sha256 = "0yvhgifs8g9rwdcq84zw4b005nq2jml6c75zgjscv6d2pd3lj1ss"; }; - propagatedBuildInputs = with perlPackages; [DBI DataStag Error GD Graph HTTPMessage HTTPMessage IOstringy IOString IPCRun LWP ListMoreUtils SetScalar TestMost TestRequiresInternet URI XMLDOM XMLDOMXPath XMLLibXML XMLLibXML libxml_perl XMLSAX XMLSAXBase XMLSAXWriter XMLTwig XMLWriter YAML DBFile ]; + propagatedBuildInputs = with perlPackages; [ DBI DataStag Error GD Graph HTTPMessage HTTPMessage IOstringy IOString IPCRun LWP ListMoreUtils SetScalar TestMost TestRequiresInternet URI XMLDOM XMLDOMXPath XMLLibXML XMLLibXML libxml_perl XMLSAX XMLSAXBase XMLSAXWriter XMLTwig XMLWriter YAML DBFile ]; nativeBuildInputs = with perlPackages; [ TestException TestWarn TestDifferences TestDeep ]; }; @@ -108,7 +108,7 @@ let url = "mirror://cpan/authors/id/C/CM/CMUNGALL/${name}.tar.gz"; sha256 = "0ncf4l39ka23nb01jlm6rzxdb5pqbip01x0m38bnvf1gim825caa"; }; - propagatedBuildInputs = with perlPackages; [IOString Graph XMLLibXSLT ]; + propagatedBuildInputs = with perlPackages; [ IOString Graph XMLLibXSLT ]; }; XMLDOMXPath = buildPerlPackage rec { @@ -117,7 +117,7 @@ let url = "mirror://cpan/authors/id/M/MI/MIROD/${name}.tar.gz"; sha256 = "1si9m1pqih3ibbd6jnw69fh98dd4krxpx90p65x9j4aja55afwq1"; }; - propagatedBuildInputs= with perlPackages; [XMLDOM XMLXPathEngine]; + propagatedBuildInputs = with perlPackages; [ XMLDOM XMLXPathEngine ]; doCheck = false; }; @@ -215,10 +215,10 @@ let name = "alleleCount.pl-${version}"; version = "4.0.1"; src = fetchFromGitHub { - owner = "cancerit"; - repo = "alleleCount"; - rev = "v${version}"; - sha256 = "0nkwnjqglgshzhlmz1r0khdjai9mfz4ih8bzrzg0g18d1725k6gp"; + owner = "cancerit"; + repo = "alleleCount"; + rev = "v${version}"; + sha256 = "0nkwnjqglgshzhlmz1r0khdjai9mfz4ih8bzrzg0g18d1725k6gp"; }; preConfigure = '' cd perl @@ -266,4 +266,5 @@ let ]; }; -in ascatNGS +in +ascatNGS |