Message ID | 20230918033947.4556-1-madalinionel.patrascu@mdc-berlin.de |
---|---|
State | New |
Headers | show |
Series | [bug#66064] gnu: python-plastid: Patch it for python 3.10. | expand |
Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> writes: > * gnu/packages/bioinformatics.scm (python-plastid)[arguments]: Add > new phase patch-for-python-3.10. Applied, thanks!
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index c78f017a24..d7a9697c6e 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -3787,6 +3787,13 @@ (define-public python-plastid "-xf" (assoc-ref inputs "test-data")) ;; This one requires bowtie-build (delete-file "plastid/test/functional/test_crossmap.py"))) + (add-after 'unpack 'patch-for-python-3.10 + (lambda _ + ;; Some classes were moved from collections to collections.abc + ;; in Python 3.10. + (substitute* "plastid/readers/bigbed.pyx" + ((", Iterable") + "\nfrom collections.abc import Iterable")))) (add-before 'check 'build-extensions (lambda _ ;; Cython extensions have to be built before running the tests.