* [PATCH] Add python2-pbcore.
@ 2015-03-20 11:40 Ricardo Wurmus
2015-03-24 9:17 ` Ludovic Courtès
0 siblings, 1 reply; 2+ messages in thread
From: Ricardo Wurmus @ 2015-03-20 11:40 UTC (permalink / raw)
To: guix-devel
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From bd84fbfa95fc06c8580e033ac0986157efcd8c49 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>
Date: Fri, 20 Mar 2015 12:39:50 +0100
Subject: [PATCH] gnu: Add python2-pbcore.
* gnu/packages/bioinformatics.scm (python2-pbcore): New variable.
---
gnu/packages/bioinformatics.scm | 29 +++++++++++++++++++++++++++++
1 file changed, 29 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 1bf6ad5..4ab6054 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -709,6 +709,35 @@ RNA-Seq, the MISO model uses Bayesian inference to compute the probability
that a read originated from a particular isoform.")
(license license:gpl2)))
+(define-public python2-pbcore
+ (package
+ (name "python2-pbcore")
+ (version "0.9.3")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append
+ "https://github.com/PacificBiosciences/pbcore/archive/"
+ version ".tar.gz"))
+ (file-name (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "1z46rwjac93jm87cbj2zgjg6qvsgs65140wkbbxsvxps7ai4pm09"))))
+ (build-system python-build-system)
+ (arguments `(#:python ,python-2))
+ (inputs
+ `(("python-cython" ,python2-cython)
+ ("python-numpy" ,python2-numpy)
+ ("python-pysam" ,python2-pysam)
+ ("python-h5py" ,python2-h5py)))
+ (native-inputs
+ `(("python-setuptools" ,python2-setuptools)))
+ (home-page "http://pacificbiosciences.github.io/pbcore/")
+ (synopsis "Library for reading and writing PacBio data files")
+ (description
+ "The pbcore package provides Python APIs for interacting with PacBio data
+files and writing bioinformatics applications.")
+ (license license:bsd-3)))
+
(define-public rseqc
(package
(name "rseqc")
--
2.1.0
^ permalink raw reply related [flat|nested] 2+ messages in thread
* Re: [PATCH] Add python2-pbcore.
2015-03-20 11:40 [PATCH] Add python2-pbcore Ricardo Wurmus
@ 2015-03-24 9:17 ` Ludovic Courtès
0 siblings, 0 replies; 2+ messages in thread
From: Ludovic Courtès @ 2015-03-24 9:17 UTC (permalink / raw)
To: Ricardo Wurmus; +Cc: guix-devel
Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de> skribis:
> From bd84fbfa95fc06c8580e033ac0986157efcd8c49 Mon Sep 17 00:00:00 2001
> From: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de>
> Date: Fri, 20 Mar 2015 12:39:50 +0100
> Subject: [PATCH] gnu: Add python2-pbcore.
>
> * gnu/packages/bioinformatics.scm (python2-pbcore): New variable.
OK! I assume it’s Python2-only, might be worth adding a comment.
Ludo’.
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2015-03-20 11:40 [PATCH] Add python2-pbcore Ricardo Wurmus
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