From: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>
To: Guix-devel <guix-devel@gnu.org>
Subject: [PATCH] gnu: Add CLIPper.
Date: Thu, 26 Feb 2015 15:13:09 +0100 [thread overview]
Message-ID: <idj8ufkhibu.fsf@bimsb-sys02.mdc-berlin.net> (raw)
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From 894c295fe9437987ed5d447c3122045a73259bc1 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>
Date: Wed, 25 Feb 2015 16:38:17 +0100
Subject: [PATCH] gnu: Add CLIPper.
* gnu/packages/bioinformatics.scm (clipper): New variable.
---
gnu/packages/bioinformatics.scm | 38 ++++++++++++++++++++++++++++++++++++++
1 file changed, 38 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index a425f61..b08e133 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -235,6 +235,44 @@ 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")
--
2.1.0
next reply other threads:[~2015-02-26 14:13 UTC|newest]
Thread overview: 3+ messages / expand[flat|nested] mbox.gz Atom feed top
2015-02-26 14:13 Ricardo Wurmus [this message]
2015-02-28 14:22 ` [PATCH] gnu: Add CLIPper Andreas Enge
2015-03-02 13:56 ` Mark H Weaver
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