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authorRicardo Wurmus <ricardo.wurmus@mdc-berlin.de>2015-02-25 16:38:17 +0100
committerRicardo Wurmus <ricardo.wurmus@mdc-berlin.de>2015-03-02 14:11:54 +0100
commit810cff855774f982b503e4a89b2426d210fbad6e (patch)
treeca83bf0e7215e2495e4a52a41a26cdbb51f20073
parent240ca4aae7cb109cc03f14066be3e2293fd65ec8 (diff)
gnu: Add CLIPper.
* gnu/packages/bioinformatics.scm (clipper): New variable.
-rw-r--r--gnu/packages/bioinformatics.scm38
1 files changed, 38 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 2d6251ac92..de25f8c7b5 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -234,6 +234,44 @@ gapped, local, and paired-end alignment modes.")
(supported-systems '("x86_64-linux"))
(license license:gpl3+)))
+(define-public clipper
+ (package
+ (name "clipper")
+ (version "0.3.0")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append
+ "https://github.com/YeoLab/clipper/archive/"
+ version ".tar.gz"))
+ (sha256
+ (base32
+ "1q7jpimsqln7ic44i8v2rx2haj5wvik8hc1s2syd31zcn0xk1iyq"))
+ (modules '((guix build utils)))
+ (snippet
+ ;; remove unnecessary setup dependency
+ '(substitute* "setup.py"
+ (("setup_requires = .*") "")))))
+ (build-system python-build-system)
+ (arguments `(#:python ,python-2)) ; only Python 2 is supported
+ (inputs
+ `(("htseq" ,htseq)
+ ("python-pybedtools" ,python2-pybedtools)
+ ("python-cython" ,python2-cython)
+ ("python-scikit-learn" ,python2-scikit-learn)
+ ("python-matplotlib" ,python2-matplotlib)
+ ("python-pysam" ,python2-pysam)
+ ("python-numpy" ,python2-numpy)
+ ("python-scipy" ,python2-scipy)))
+ (native-inputs
+ `(("python-mock" ,python2-mock) ; for tests
+ ("python-pytz" ,python2-pytz) ; for tests
+ ("python-setuptools" ,python2-setuptools)))
+ (home-page "https://github.com/YeoLab/clipper")
+ (synopsis "CLIP peak enrichment recognition")
+ (description
+ "CLIPper is a tool to define peaks in CLIP-seq datasets.")
+ (license license:gpl2)))
+
(define-public flexbar
(package
(name "flexbar")