[med-svn] [Git][med-team/python-biom-format][master] 3 commits: in1d was replaced by isin in numpy 2.4 Closes: #1131071

[Andreas Tille (@tille)]

Andreas Tille pushed to branch master at Debian Med / python-biom-format


Commits:
84e2f33d by Andreas Tille at 2026-05-20T11:37:02+02:00
in1d was replaced by isin in numpy 2.4 Closes: #1131071

- - - - -
b4fed268 by Andreas Tille at 2026-05-20T11:37:11+02:00
Upload to unstable

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0e432ab3 by Andreas Tille at 2026-05-20T11:37:11+02:00
Forwarded patch

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4 changed files:

- debian/changelog
- + debian/patches/numpy-2.4.patch
- debian/patches/series
- debian/rules


Changes:

=====================================
debian/changelog
=====================================
@@ -1,6 +1,9 @@
 python-biom-format (2.1.17-2) UNRELEASED; urgency=medium
 
   * cme fix dpkg-control
+  * in1d was replaced by isin in numpy 2.4
+    Closes: #1131071
+  * Remove useless dist-info dir from python3.14 space
 
  -- Andreas Tille <tille at debian.org>  Mon, 18 May 2026 18:14:44 +0200
 


=====================================
debian/patches/numpy-2.4.patch
=====================================
@@ -0,0 +1,17 @@
+Author: Andreas Tille <tille at debian.org>
+Last-Update: 2018-05-18
+Bug-Debian: https://bugs.debian.org/1131071
+Description: in1d was replaced by isin in numpy 2.4
+Forwarded: https://github.com/biocore/biom-format/issues/1003
+
+--- a/biom/table.py
++++ b/biom/table.py
+@@ -4234,7 +4234,7 @@ html
+                 else:
+                     desired_ids = np.asarray(desired_ids)
+                     # Get the index of the source ids to include
+-                    idx = np.in1d(source_ids, desired_ids)
++                    idx = np.isin(source_ids, desired_ids)
+                     # Retrieve only the ids that we are interested on
+                     ids = source_ids[idx]
+                     # Check that all desired ids have been found on source ids


=====================================
debian/patches/series
=====================================
@@ -3,3 +3,4 @@ no-web-adds.patch
 fix_future_import.patch
 sphinx_1.6.patch
 posix_shell.patch
+numpy-2.4.patch


=====================================
debian/rules
=====================================
@@ -42,3 +42,8 @@ execute_after_dh_installexamples:
 
 execute_after_dh_auto_install:
 	find $(PYBUILD_DESTDIR) -name .coverage -delete
+
+execute_after_dh_python3:
+	rm -rf debian/*/usr/lib/python3.14/dist-packages/biom_format-2.1.17.dist-info
+	rmdir debian/*/usr/lib/python3.14/dist-packages
+	rmdir debian/*/usr/lib/python3.14



View it on GitLab: https://salsa.debian.org/med-team/python-biom-format/-/compare/8bfb7b944e01d2594eddde70014a6f7d7ea12ec4...0e432ab3228aaeb11681b9bf4e1e34d0c3a97395

-- 
View it on GitLab: https://salsa.debian.org/med-team/python-biom-format/-/compare/8bfb7b944e01d2594eddde70014a6f7d7ea12ec4...0e432ab3228aaeb11681b9bf4e1e34d0c3a97395
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