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| author | Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> | 2023-09-18 05:39:20 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2023-09-18 10:25:26 +0200 |
| commit | 1c8e159335c3723194cd0e5357c89abb8d4edf13 (patch) | |
| tree | fae97ce27d5272e316d53656b51dcd2fe0008eb4 | |
| parent | 30e5484f35cfb0f6b00ca317c1fc360002ffb8c3 (diff) | |
gnu: python-plastid: Patch it for python 3.10.
* gnu/packages/bioinformatics.scm (python-plastid)[arguments]: Add new phase
'patch-for-python-3.10.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 7 |
1 files changed, 7 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index c78f017a24..b909cd5ee0 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -3787,6 +3787,13 @@ UCSC genome browser.") "-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. |