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| author | Efraim Flashner <efraim@flashner.co.il> | 2020-03-11 16:31:33 +0200 |
|---|---|---|
| committer | Efraim Flashner <efraim@flashner.co.il> | 2020-03-11 16:31:33 +0200 |
| commit | d9a2a255f9918c07f89dbe9ae62ba063fa70ffef (patch) | |
| tree | c8943622e71faac74f625b545846a8e08375ec59 /gnu/packages/bioinformatics.scm | |
| parent | afb877847bd01edbbe0b0d7b5c4e765fc8068040 (diff) | |
| download | patches-d9a2a255f9918c07f89dbe9ae62ba063fa70ffef.tar patches-d9a2a255f9918c07f89dbe9ae62ba063fa70ffef.tar.gz | |
gnu: python-pybedtools: Update to 0.8.1.
* gnu/packages/bioinformatics.scm (python-pybedtools): Update to 0.8.1.
[arguments]: Add another test to the 'disable-broken-tests phase.
(python2-pybedtools)[native-inputs]: Add python2-pathlib.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 15 |
1 files changed, 12 insertions, 3 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 830fd7433a..d95b58b0bb 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -785,13 +785,13 @@ intended to behave exactly the same as the original BWK awk.") (define-public python-pybedtools (package (name "python-pybedtools") - (version "0.8.0") + (version "0.8.1") (source (origin (method url-fetch) (uri (pypi-uri "pybedtools" version)) (sha256 (base32 - "1xl454ijvd4dzfvqgfahad49b49j7qy710fq9xh1rvk42z6x5ssf")))) + "14w5i40gi25clrr7h4wa2pcpnyipya8hrqi7nq77553zc5wf0df0")))) (build-system python-build-system) (arguments `(#:modules ((ice-9 ftw) @@ -818,6 +818,10 @@ intended to behave exactly the same as the original BWK awk.") ;; (see: https://github.com/daler/pybedtools/issues/192). (("def test_getting_example_beds") "def _do_not_test_getting_example_beds")) + ;; This issue still occurs on python2 + (substitute* "pybedtools/test/test_issues.py" + (("def test_issue_303") + "def _test_issue_303")) #t)) ;; TODO: Remove phase after it's part of PYTHON-BUILD-SYSTEM. ;; build system. @@ -886,7 +890,12 @@ Python.") (license license:gpl2+))) (define-public python2-pybedtools - (package-with-python2 python-pybedtools)) + (let ((pybedtools (package-with-python2 python-pybedtools))) + (package + (inherit pybedtools) + (native-inputs + `(("python2-pathlib" ,python2-pathlib) + ,@(package-native-inputs pybedtools)))))) (define-public python-biom-format (package |