gnu: python-pysam, python2-pysam: Move to bioinformatics.scm.
* gnu/packages/python.scm (python-pysam, python2-pysam): Move to... * gnu/packages/bioinformatics.scm (python-pysam, python2-pysam): ...here.
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@ -838,6 +838,44 @@ well as many of the command line options.")
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multiple sequence alignments.")
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multiple sequence alignments.")
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(license license:expat)))
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(license license:expat)))
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(define-public python-pysam
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(package
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(name "python-pysam")
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(version "0.8.1")
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(source
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(origin
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(method url-fetch)
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(uri (string-append "https://pypi.python.org/packages/source/p/pysam/pysam-"
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version ".tar.gz"))
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(sha256
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(base32
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"1fb6i6hbpzxaxb62kyyp5alaidwhj40f7c6gwbhr6njzlqd5l459"))))
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(build-system python-build-system)
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(arguments
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`(#:tests? #f ; tests are excluded in the manifest
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#:phases
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(alist-cons-before
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'build 'set-flags
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(lambda _
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(setenv "LDFLAGS" "-lncurses")
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(setenv "CFLAGS" "-D_CURSES_LIB=1"))
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%standard-phases)))
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(inputs
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`(("python-cython" ,python-cython)
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("python-setuptools" ,python-setuptools)
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("ncurses" ,ncurses)
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("zlib" ,zlib)))
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(home-page "https://github.com/pysam-developers/pysam")
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(synopsis "Python bindings to the SAMtools C API")
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(description
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"Pysam is a Python module for reading and manipulating files in the
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SAM/BAM format. Pysam is a lightweight wrapper of the SAMtools C API. It
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also includes an interface for tabix.")
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(license license:expat)))
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(define-public python2-pysam
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(package-with-python2 python-pysam))
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(define-public clipper
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(define-public clipper
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(package
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(package
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(name "clipper")
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(name "clipper")
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@ -1040,44 +1040,6 @@ get the local timezone information, unless you know the zoneinfo name, and
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under several distributions that's hard or impossible to figure out.")
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under several distributions that's hard or impossible to figure out.")
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(license cc0)))
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(license cc0)))
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(define-public python-pysam
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(package
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(name "python-pysam")
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(version "0.8.1")
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(source
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(origin
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(method url-fetch)
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(uri (string-append "https://pypi.python.org/packages/source/p/pysam/pysam-"
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version ".tar.gz"))
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(sha256
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(base32
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"1fb6i6hbpzxaxb62kyyp5alaidwhj40f7c6gwbhr6njzlqd5l459"))))
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(build-system python-build-system)
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(arguments
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`(#:tests? #f ; tests are excluded in the manifest
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#:phases
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(alist-cons-before
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'build 'set-flags
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(lambda _
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(setenv "LDFLAGS" "-lncurses")
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(setenv "CFLAGS" "-D_CURSES_LIB=1"))
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%standard-phases)))
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(inputs
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`(("python-cython" ,python-cython)
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("python-setuptools" ,python-setuptools)
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("ncurses" ,ncurses)
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("zlib" ,zlib)))
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(home-page "https://github.com/pysam-developers/pysam")
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(synopsis "Python bindings to the SAMtools C API")
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(description
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"Pysam is a Python module for reading and manipulating files in the
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SAM/BAM format. Pysam is a lightweight wrapper of the SAMtools C API. It
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also includes an interface for tabix.")
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(license license:expat)))
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(define-public python2-pysam
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(package-with-python2 python-pysam))
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(define-public python2-pysqlite
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(define-public python2-pysqlite
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(package
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(package
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(name "python2-pysqlite")
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(name "python2-pysqlite")
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