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branch master updated: gnu: python-pypairix: Update to 0.3.7 and build p
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branch master updated: gnu: python-pypairix: Update to 0.3.7 and build programs. |
Date: |
Thu, 04 Jun 2020 05:56:39 -0400 |
This is an automated email from the git hooks/post-receive script.
rekado pushed a commit to branch master
in repository guix.
The following commit(s) were added to refs/heads/master by this push:
new 0266094 gnu: python-pypairix: Update to 0.3.7 and build programs.
0266094 is described below
commit 026609453176f67d2f28871af114d3d6a9544c2a
Author: Ricardo Wurmus <rekado@elephly.net>
AuthorDate: Thu Jun 4 11:54:38 2020 +0200
gnu: python-pypairix: Update to 0.3.7 and build programs.
* gnu/packages/bioinformatics.scm (python-pypairix): Update to 0.3.7.
[source]: Fetch from github.
[arguments]: Add phases "build-programs" and "install-programs".
---
gnu/packages/bioinformatics.scm | 27 ++++++++++++++++++++-------
1 file changed, 20 insertions(+), 7 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 8d1adaf..54cdb35 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -13788,18 +13788,31 @@ bound.")
(define-public python-pypairix
(package
(name "python-pypairix")
- (version "0.3.6")
+ (version "0.3.7")
+ ;; The tarball on pypi does not include the makefile to build the
+ ;; programs.
(source
(origin
- (method url-fetch)
- (uri (pypi-uri "pypairix" version))
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/4dn-dcic/pairix.git")
+ (commit version)))
+ (file-name (git-file-name name version))
(sha256
(base32
- "0zs92b74s5v4xy2h16s15f3z6l4nnbw8x8zyif7xx5xpafjn0xss"))))
+ "1snr3lrmsld8sy77ng6ba6wcmd33xjccf1l2f3m6pi29xis9nd6p"))))
(build-system python-build-system)
- ;; FIXME: the tests fail because test.support cannot be loaded:
- ;; ImportError: cannot import name 'support'
- (arguments '(#:tests? #f))
+ (arguments
+ `(#:phases
+ (modify-phases %standard-phases
+ (add-before 'build 'build-programs
+ (lambda _ (invoke "make")))
+ (add-after 'install 'install-programs
+ (lambda* (#:key outputs #:allow-other-keys)
+ (copy-recursively "bin" (string-append
+ (assoc-ref outputs "out")
+ "/bin"))
+ #t)))))
(inputs
`(("zlib" ,zlib)))
(home-page "https://github.com/4dn-dcic/pairix")
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