~ruther/guix-local

9b36e256076a4c28051d0e0735e0f990c2dc0834 — Roel Janssen 10 years ago 17130e3 
gnu: vcftools: Update to 0.1.14.

* gnu/packages/bioinformatics.scm (vcftools): Update to 0.1.14.
[arguments]: Do not modify phases as it is not needed anymore.
[native-inputs]: Add 'pkg-config'.
[home-page]: Update to new location.

Signed-off-by: Alex Kost <alezost@gmail.com>
patch browse .tar.gz .zip 
1 files changed, 9 insertions(+), 14 deletions(-)

M gnu/packages/bioinformatics.scm

M gnu/packages/bioinformatics.scm => gnu/packages/bioinformatics.scm +9 -14
@@ 3692,15 3692,15 @@ Cuffdiff or Ballgown programs.")
(define-public vcftools
  (package
    (name "vcftools")
    (version "0.1.12b")
    (version "0.1.14")
    (source (origin
              (method url-fetch)
              (uri (string-append
                    "mirror://sourceforge/vcftools/vcftools_"
                     version ".tar.gz"))
                    "https://github.com/vcftools/vcftools/releases/download/v"
                    version "/vcftools-" version ".tar.gz"))
              (sha256
               (base32
                "148al9h7f8g8my2qdnpax51kdd2yjrivlx6frvakf4lz5r8j88wx"))))
                "10l5c07z9p4i9pr4gl54b2c9h6ndhqlbq1rashg2zcgwkbfrkmvn"))))
    (build-system gnu-build-system)
    (arguments
     `(#:tests? #f ; no "check" target


@@ 3708,18 3708,13 @@ Cuffdiff or Ballgown programs.")
                     "CFLAGS=-O2" ; override "-m64" flag
                     (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))))
                                    "/share/man/man1"))))
    (native-inputs
     `(("pkg-config" ,pkg-config)))
    (inputs
     `(("perl" ,perl)
       ("zlib" ,zlib)))
    (home-page "http://vcftools.sourceforge.net/")
    (home-page "https://vcftools.github.io/")
    (synopsis "Tools for working with VCF files")
    (description
     "VCFtools is a program package designed for working with VCF files, such


@@ 3727,7 3722,7 @@ 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
    ;; at https://vcftools.github.io/license.html
    (license license:lgpl3)))

(define-public vsearch