diff options
| author | Ben Woodcroft <donttrustben@gmail.com> | 2018-07-29 22:44:37 +1000 |
|---|---|---|
| committer | Ben Woodcroft <donttrustben@gmail.com> | 2018-07-29 22:53:10 +1000 |
| commit | 9e0c135c39b5f1fa2c5c9cd4a1e50ccee75cc31e (patch) | |
| tree | 5fa0a3d6f41d8354d017cbec60d00d1836c1a70c /gnu/packages/bioinformatics.scm | |
| parent | 19601e895b816afc033a155a9309037ec21fd3ed (diff) | |
gnu: python-dendropy: Update to 4.4.0.
* gnu/packages/bioinformatics.scm (python-dendropy, python2-dendropy):
Update to 4.4.0.
[source]: Use GitHub URI. Remove patch.
[properties]: Remove field.
(python2-dendropy)[arguments]: Run tests with setup.py.
[native-inputs]: Remove 'python2-nose.
* gnu/packages/patches/python-dendropy-fix-tests.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Delete it.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 28 |
1 files changed, 9 insertions, 19 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 4d84b90f1e..7509f07d4a 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -1971,15 +1971,18 @@ accessing bigWig files.") (define-public python-dendropy (package (name "python-dendropy") - (version "4.2.0") + (version "4.4.0") (source (origin (method url-fetch) - (uri (pypi-uri "DendroPy" version)) + ;; Source from GitHub so that tests are included. + (uri + (string-append "https://github.com/jeetsukumaran/DendroPy/archive/v" + version ".tar.gz")) + (file-name (string-append name "-" version ".tar.gz")) (sha256 (base32 - "15c7s3d5gf19ljsxvq5advaa752wfi7pwrdjyhzmg85hccyvp47p")) - (patches (search-patches "python-dendropy-fix-tests.patch")))) + "0v2fccny5xjaah546bsch1mw4kh61qq5frz2ibllxs9mp6ih9bsn")))) (build-system python-build-system) (home-page "http://packages.python.org/DendroPy/") (synopsis "Library for phylogenetics and phylogenetic computing") @@ -1987,23 +1990,10 @@ accessing bigWig files.") "DendroPy is a library for phylogenetics and phylogenetic computing: reading, writing, simulation, processing and manipulation of phylogenetic trees (phylogenies) and characters.") - (license license:bsd-3) - (properties `((python2-variant . ,(delay python2-dendropy)))))) + (license license:bsd-3))) (define-public python2-dendropy - (let ((base (package-with-python2 (strip-python2-variant python-dendropy)))) - (package - (inherit base) - (arguments - `(#:python ,python-2 - #:phases - (modify-phases %standard-phases - (replace 'check - ;; There is currently a test failure that only happens on some - ;; systems, and only using "setup.py test" - (lambda _ (zero? (system* "nosetests"))))))) - (native-inputs `(("python2-nose" ,python2-nose) - ,@(package-native-inputs base)))))) + (package-with-python2 python-dendropy)) (define-public python-py2bit (package |