[med-svn] [Git][med-team/q2-diversity-lib][master] 3 commits: Only build for Python 3.11 until upstream catches up with Python 3.12.

[Michael R. Crusoe (@crusoe)]

Michael R. Crusoe pushed to branch master at Debian Med / q2-diversity-lib


Commits:
24c518a2 by Michael R. Crusoe at 2024-06-26T01:10:01+02:00
Only build for Python 3.11 until upstream catches up with Python 3.12.

- - - - -
2639f551 by Michael R. Crusoe at 2024-06-26T11:30:58+02:00
d/control: require newer python3-skbio version

to fix "AttributeError: module 'skbio.diversity.alpha' has no attribute 'sobs'"

- - - - -
9852ba15 by Michael R. Crusoe at 2024-06-26T11:35:20+02:00
copy fixes to d/control.in

- - - - -


5 changed files:

- debian/changelog
- debian/control
- debian/control.in
- debian/rules
- debian/tests/run-unit-test


Changes:

=====================================
debian/changelog
=====================================
@@ -4,6 +4,10 @@ q2-diversity-lib (2024.5.0-1) UNRELEASED; urgency=medium
   * New upstream version
   * Regenerate debian/control from debian/control.in (routine-update)
   * d/patches/configparser.patch: copy from qiime packaging
+  * Only build for Python 3.11 until upstream catches up with Python
+    3.12.
+  * d/control: require newer python3-skbio version to fix
+     "AttributeError: module 'skbio.diversity.alpha' has no attribute 'sobs'"
 
  -- Michael R. Crusoe <crusoe at debian.org>  Tue, 25 Jun 2024 03:35:06 +0200
 


=====================================
debian/control
=====================================
@@ -6,7 +6,7 @@ Section: science
 Priority: optional
 Build-Depends: debhelper-compat (= 13),
                dh-sequence-python3,
-               python3,
+               python3-all,
                python3-setuptools,
                python3-pytest <!nocheck>,
                python3-statsmodels <!nocheck>,
@@ -32,7 +32,8 @@ Depends: ${shlibs:Depends},
          r-cran-vegan,
          python3-statsmodels,
          python3-unifrac,
-         unifrac-tools
+         unifrac-tools,
+         python3-skbio (>= 0.6)
 Description: QIIME2 plugin to expose diversity metrics/measures as actions
  QIIME 2 is a powerful, extensible, and decentralized microbiome analysis
  package with a focus on data and analysis transparency. QIIME 2 enables


=====================================
debian/control.in
=====================================
@@ -5,7 +5,7 @@ Section: science
 Priority: optional
 Build-Depends: debhelper-compat (= 13),
                dh-sequence-python3,
-               python3,
+               python3-all,
                python3-setuptools,
                python3-pytest <!nocheck>,
                python3-statsmodels <!nocheck>,
@@ -31,7 +31,8 @@ Depends: ${shlibs:Depends},
          r-cran-vegan,
          python3-statsmodels,
          python3-unifrac,
-         unifrac-tools
+         unifrac-tools,
+         python3-skbio (>= 0.6)
 Description: QIIME2 plugin to expose diversity metrics/measures as actions
  QIIME 2 is a powerful, extensible, and decentralized microbiome analysis
  package with a focus on data and analysis transparency. QIIME 2 enables


=====================================
debian/rules
=====================================
@@ -3,6 +3,8 @@
 DH_VERBOSE := 1
 export LC_ALL=C.UTF-8
 
+export PYBUILD_DISABLE=python3.12
+
 # For testing, we need .egg-info so the entry points are available.
 export PYBUILD_BEFORE_TEST=python{version} setup.py develop --install-dir {build_dir}
 # Delete .egg-info and other files that were generated along with .egg-info


=====================================
debian/tests/run-unit-test
=====================================
@@ -18,7 +18,10 @@ if [ ! -e /usr/bin/py.test-3 ] ; then
 fi
 
 # Run build-time tests
-for py in $(py3versions -s 2> /dev/null)
-do
-    ${py} -m pytest -v  --cov=${pkg}
-done
+#for py in $(py3versions -s 2> /dev/null)
+# do
+#     ${py} -m pytest -v  --cov=${pkg}
+# done
+#
+
+python3.11 -m pytest -v  --cov=${pkg}



View it on GitLab: https://salsa.debian.org/med-team/q2-diversity-lib/-/compare/168f4089abeb656040e19e85ab771232f03b076d...9852ba15d5d8569e85d2ecc8ba547a02fcef1d0c

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View it on GitLab: https://salsa.debian.org/med-team/q2-diversity-lib/-/compare/168f4089abeb656040e19e85ab771232f03b076d...9852ba15d5d8569e85d2ecc8ba547a02fcef1d0c
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