gnu: rseqc: Update to 3.0.1.
* gnu/packages/bioinformatics.scm (rseqc): Update to 3.0.1. [source]: Remove snippet. [arguments]: Remove to build with Python 3. [inputs]: Replace python2-cython, python2-pysam, and python2-numpy with python-cython, python-pysam, and python-numpy, respectively; add python-bx-python and python-pybigwig. [native-inputs]: Replace python2-nose with python-nose.
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@ -5306,7 +5306,7 @@ (define-public rsem
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(define-public rseqc
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(package
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(name "rseqc")
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(version "2.6.1")
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(version "3.0.1")
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(source
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(origin
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(method url-fetch)
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@ -5314,28 +5314,18 @@ (define-public rseqc
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(string-append "mirror://sourceforge/rseqc/"
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"RSeQC-" version ".tar.gz"))
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(sha256
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(base32 "15ly0254yi032qzkdplg00q144qfdsd986gh62829rl5bkxhj330"))
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(modules '((guix build utils)))
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(snippet
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'(begin
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;; remove bundled copy of pysam
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(delete-file-recursively "lib/pysam")
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(substitute* "setup.py"
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;; remove dependency on outdated "distribute" module
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(("^from distribute_setup import use_setuptools") "")
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(("^use_setuptools\\(\\)") "")
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;; do not use bundled copy of pysam
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(("^have_pysam = False") "have_pysam = True"))
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#t))))
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(base32
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"0gbb9iyb7swiv5455fm5rg98r7l6qn27v564yllqjd574hncpx6m"))))
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(build-system python-build-system)
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(arguments `(#:python ,python-2))
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(inputs
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`(("python-cython" ,python2-cython)
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("python-pysam" ,python2-pysam)
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("python-numpy" ,python2-numpy)
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`(("python-cython" ,python-cython)
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("python-bx-python" ,python-bx-python)
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("python-pybigwig" ,python-pybigwig)
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("python-pysam" ,python-pysam)
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("python-numpy" ,python-numpy)
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("zlib" ,zlib)))
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(native-inputs
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`(("python-nose" ,python2-nose)))
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`(("python-nose" ,python-nose)))
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(home-page "http://rseqc.sourceforge.net/")
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(synopsis "RNA-seq quality control package")
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(description
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