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gnu: clipper: Update to 1.2.1.

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* gnu/packages/bioinformatics.scm (clipper): Update to 1.2.1.
[source]: Fetch from git.
[arguments]: Add fix-typo phase.
This commit is contained in:
Ricardo Wurmus 2018-10-20 21:31:56 +02:00
parent 895cf8278a
commit 8b4102b903
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GPG key ID: 197A5888235FACAC
1 changed files with 18 additions and 12 deletions
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gnu/packages/bioinformatics.scm
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@ -1707,29 +1707,35 @@ databases.")
(define-public clipper (define-public clipper
(package (package
(name "clipper") (name "clipper")
(version "1.1") (version "1.2.1")
(source (origin (source (origin
(method url-fetch) (method git-fetch)
(uri (string-append (uri (git-reference
"https://github.com/YeoLab/clipper/archive/" (url "https://github.com/YeoLab/clipper.git")
version ".tar.gz")) (commit version)))
(file-name (string-append name "-" version ".tar.gz")) (file-name (git-file-name name version))
(sha256 (sha256
(base32 (base32
"0pflmsvhbf8izbgwhbhj1i7349sw1f55qpqj8ljmapp16hb0p0qi")) "0fja1rj84wp9vpj8rxpj3n8zqzcqq454m904yp9as1w4phccirjb"))
(modules '((guix build utils))) (modules '((guix build utils)))
(snippet (snippet
'(begin '(begin
;; remove unnecessary setup dependency ;; remove unnecessary setup dependency
(substitute* "setup.py" (substitute* "setup.py"
(("setup_requires = .*") "")) (("setup_requires = .*") ""))
(for-each delete-file
'("clipper/src/peaks.so"
"clipper/src/readsToWiggle.so"))
(delete-file-recursively "dist/")
#t)))) #t))))
(build-system python-build-system) (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 (inputs
`(("htseq" ,python2-htseq) `(("htseq" ,python2-htseq)
("python-pybedtools" ,python2-pybedtools) ("python-pybedtools" ,python2-pybedtools)