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| author | Ricardo Wurmus <rekado@elephly.net> | 2018-10-20 21:31:56 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2018-10-20 23:37:33 +0200 |
| commit | 8b4102b9038f394749463d002572a730a44b78ef (patch) | |
| tree | 9cd635305faede60f7ff081a343cb9ff46dcbaf3 | |
| parent | 895cf8278abab83032b1efb9e050134639491624 (diff) | |
| download | patches-8b4102b9038f394749463d002572a730a44b78ef.tar patches-8b4102b9038f394749463d002572a730a44b78ef.tar.gz | |
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.
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 30 |
1 files changed, 18 insertions, 12 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index bb9bf00499..3f50ce0737 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) |