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| author | Ricardo Wurmus <rekado@elephly.net> | 2020-02-26 12:51:57 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2020-02-26 12:53:23 +0100 |
| commit | 640d910427f3e7128be3702a261a1bb40264040b (patch) | |
| tree | ad0182862a7a4bc6efa6d4b9c904dfd661d4345c /gnu/packages | |
| parent | 0e9fc3d61f41d83775b74c6f81789cd840f68fc5 (diff) | |
| download | patches-640d910427f3e7128be3702a261a1bb40264040b.tar patches-640d910427f3e7128be3702a261a1bb40264040b.tar.gz | |
gnu: macs: Update to 2.2.6.
* gnu/packages/bioinformatics.scm (macs): Update to 2.2.6.
[source]: Fetch from git.
[arguments]: Enable tests, build with default Python.
[inputs]: Replace python2-numpy with python-numpy.
[native-inputs]: Add python-pytest.
Diffstat (limited to 'gnu/packages')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 25 |
1 files changed, 18 insertions, 7 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 97d766b053..7f2a852fb0 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -4274,19 +4274,30 @@ experiments.") (define-public macs (package (name "macs") - (version "2.1.1.20160309") + (version "2.2.6") (source (origin - (method url-fetch) - (uri (pypi-uri "MACS2" version)) + ;; The PyPi tarball does not contain tests. + (method git-fetch) + (uri (git-reference + (url "https://github.com/taoliu/MACS.git") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) (sha256 (base32 - "09ixspd1vcqmz1c81ih70xs4m7qml2iy5vyx1y74zww3iy1vl210")))) + "1c5gxr0mk6hkd4vclf0k00wvyvzw2vrmk52c85338p7aqjwg6n15")))) (build-system python-build-system) (arguments - `(#:python ,python-2 ; only compatible with Python 2.7 - #:tests? #f)) ; no test target + `(#:phases + (modify-phases %standard-phases + (delete 'check) + (add-after 'install 'check + (lambda* (#:key inputs outputs #:allow-other-keys) + (add-installed-pythonpath inputs outputs) + (invoke "pytest" "-v")))))) (inputs - `(("python-numpy" ,python2-numpy))) + `(("python-numpy" ,python-numpy))) + (native-inputs + `(("python-pytest" ,python-pytest))) (home-page "https://github.com/taoliu/MACS/") (synopsis "Model based analysis for ChIP-Seq data") (description |