[Date Prev][Date Next][Thread Prev][Thread Next][Date Index][Thread Index]
03/09: gnu: clipper: Update to 1.2.1.
From: |
Ricardo Wurmus |
Subject: |
03/09: gnu: clipper: Update to 1.2.1. |
Date: |
Sat, 20 Oct 2018 17:40:10 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit 8b4102b9038f394749463d002572a730a44b78ef
Author: Ricardo Wurmus <address@hidden>
Date: Sat Oct 20 21:31:56 2018 +0200
gnu: clipper: Update to 1.2.1.
* gnu/packages/bioinformatics.scm (clipper): Update to 1.2.1.
[source]: Fetch from git.
[arguments]: Add fix-typo phase.
---
gnu/packages/bioinformatics.scm | 30 ++++++++++++++++++------------
1 file changed, 18 insertions(+), 12 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index bb9bf00..3f50ce0 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -1707,29 +1707,35 @@ databases.")
(define-public clipper
(package
(name "clipper")
- (version "1.1")
+ (version "1.2.1")
(source (origin
- (method url-fetch)
- (uri (string-append
- "https://github.com/YeoLab/clipper/archive/"
- version ".tar.gz"))
- (file-name (string-append name "-" version ".tar.gz"))
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/YeoLab/clipper.git")
+ (commit version)))
+ (file-name (git-file-name name version))
(sha256
(base32
- "0pflmsvhbf8izbgwhbhj1i7349sw1f55qpqj8ljmapp16hb0p0qi"))
+ "0fja1rj84wp9vpj8rxpj3n8zqzcqq454m904yp9as1w4phccirjb"))
(modules '((guix build utils)))
(snippet
'(begin
;; remove unnecessary setup dependency
(substitute* "setup.py"
(("setup_requires = .*") ""))
- (for-each delete-file
- '("clipper/src/peaks.so"
- "clipper/src/readsToWiggle.so"))
- (delete-file-recursively "dist/")
#t))))
(build-system python-build-system)
- (arguments `(#:python ,python-2)) ; only Python 2 is supported
+ (arguments
+ `(#:python ,python-2 ; only Python 2 is supported
+ #:phases
+ (modify-phases %standard-phases
+ ;; This is fixed in upstream commit
+ ;; f6c2990198f906bf97730d95695b4bd5a6d01ddb.
+ (add-after 'unpack 'fix-typo
+ (lambda _
+ (substitute* "clipper/src/readsToWiggle.pyx"
+ (("^sc.*") ""))
+ #t)))))
(inputs
`(("htseq" ,python2-htseq)
("python-pybedtools" ,python2-pybedtools)
- branch master updated (bfa47f1 -> 21c8374), Ricardo Wurmus, 2018/10/20
- 03/09: gnu: clipper: Update to 1.2.1.,
Ricardo Wurmus <=
- 08/09: gnu: blast+: Use INVOKE and return #T unconditionally., Ricardo Wurmus, 2018/10/20
- 09/09: gnu: bowtie: Update to 2.3.4.3., Ricardo Wurmus, 2018/10/20
- 01/09: gnu: Add bedtools-2.26., Ricardo Wurmus, 2018/10/20
- 06/09: gnu: bedops: Use INVOKE., Ricardo Wurmus, 2018/10/20
- 04/09: gnu: aragorn: Use invoke and simplify., Ricardo Wurmus, 2018/10/20
- 02/09: gnu: python-pybedtools: Update to 0.7.10., Ricardo Wurmus, 2018/10/20
- 05/09: gnu: bamm: Fetch from git and use INVOKE., Ricardo Wurmus, 2018/10/20
- 07/09: gnu: bedops: Update to 2.4.35., Ricardo Wurmus, 2018/10/20