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Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 40 |
1 files changed, 40 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 883eb19f6a..651018e0f5 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -970,3 +970,43 @@ chimeric (fusion) transcripts, and is also capable of mapping full-length RNA sequences.") ;; STAR is licensed under GPLv3 or later; htslib is MIT-licensed. (license license:gpl3+))) + +(define-public vcftools + (package + (name "vcftools") + (version "0.1.12b") + (source (origin + (method url-fetch) + (uri (string-append + "mirror://sourceforge/vcftools/vcftools_" + version ".tar.gz")) + (sha256 + (base32 + "148al9h7f8g8my2qdnpax51kdd2yjrivlx6frvakf4lz5r8j88wx")))) + (build-system gnu-build-system) + (arguments + `(#:tests? #f ; no "check" target + #:make-flags (list + (string-append "PREFIX=" (assoc-ref %outputs "out")) + (string-append "MANDIR=" (assoc-ref %outputs "out") + "/share/man/man1")) + #:phases + (alist-cons-after + 'unpack 'patch-manpage-install + (lambda _ + (substitute* "Makefile" + (("cp \\$\\{PREFIX\\}/cpp/vcftools.1") "cp ./cpp/vcftools.1"))) + (alist-delete 'configure %standard-phases)))) + (inputs + `(("perl" ,perl) + ("zlib" ,zlib))) + (home-page "http://vcftools.sourceforge.net/") + (synopsis "Tools for working with VCF files") + (description + "VCFtools is a program package designed for working with VCF files, such +as those generated by the 1000 Genomes Project. The aim of VCFtools is to +provide easily accessible methods for working with complex genetic variation +data in the form of VCF files.") + ;; The license is declared as LGPLv3 in the README and + ;; at http://vcftools.sourceforge.net/license.html + (license license:lgpl3))) |