Bug 2279858
| Summary: | python-hdmf fails to build with pytest 8: TypeError: Can't instantiate abstract class BuildGroupExtAttrsMixin without an implementation for abstract method 'setUpBarHolderSpec' | ||
|---|---|---|---|
| Product: | [Fedora] Fedora | Reporter: | Tomáš Hrnčiar <thrnciar> |
| Component: | python-hdmf | Assignee: | Sandro <gui1ty> |
| Status: | CLOSED ERRATA | QA Contact: | Fedora Extras Quality Assurance <extras-qa> |
| Severity: | unspecified | Docs Contact: | |
| Priority: | unspecified | ||
| Version: | rawhide | CC: | bazanluis20, gui1ty, mhroncok, neuro-sig, thrnciar |
| Target Milestone: | --- | ||
| Target Release: | --- | ||
| Hardware: | Unspecified | ||
| OS: | Unspecified | ||
| Whiteboard: | |||
| Fixed In Version: | python-hdmf-3.14.0-2.fc41 | Doc Type: | If docs needed, set a value |
| Doc Text: | Story Points: | --- | |
| Clone Of: | Environment: | ||
| Last Closed: | 2024-05-29 19:56:28 UTC | Type: | Bug |
| Regression: | --- | Mount Type: | --- |
| Documentation: | --- | CRM: | |
| Verified Versions: | Category: | --- | |
| oVirt Team: | --- | RHEL 7.3 requirements from Atomic Host: | |
| Cloudforms Team: | --- | Target Upstream Version: | |
| Embargoed: | |||
| Bug Depends On: | |||
| Bug Blocks: | 2256331 | ||
This seems to be another issue with test collection in pytest 8.x. I tried what I tried before, using an empty directory, but it didn't make a difference this time around. For now, the issue has been reported upstream. It's a regression introduced in pytest 8.2.0. Upstream already merged a fix. But that is not going to be backported to 8.2.x. It will be in 8.3.0, though. FEDORA-2024-609ddc68a8 (python-hdmf-3.14.0-2.fc41) has been submitted as an update to Fedora 41. https://bodhi.fedoraproject.org/updates/FEDORA-2024-609ddc68a8 FEDORA-2024-609ddc68a8 (python-hdmf-3.14.0-2.fc41) has been pushed to the Fedora 41 stable repository. If problem still persists, please make note of it in this bug report. |
python-hdmf fails to build with pytest 8. ==================================== ERRORS ==================================== ______ ERROR collecting tests/unit/build_tests/mapper_tests/test_build.py ______ /usr/lib/python3.12/site-packages/_pytest/runner.py:341: in from_call result: Optional[TResult] = func() /usr/lib/python3.12/site-packages/_pytest/runner.py:389: in collect return list(collector.collect()) /usr/lib/python3.12/site-packages/_pytest/unittest.py:90: in collect self.session._fixturemanager.parsefactories(self.newinstance(), self.nodeid) /usr/lib/python3.12/site-packages/_pytest/unittest.py:75: in newinstance return self.obj("runTest") E TypeError: Can't instantiate abstract class BuildGroupExtAttrsMixin without an implementation for abstract method 'setUpBarHolderSpec' ______ ERROR collecting tests/unit/build_tests/mapper_tests/test_build.py ______ /usr/lib/python3.12/site-packages/_pytest/runner.py:341: in from_call result: Optional[TResult] = func() /usr/lib/python3.12/site-packages/_pytest/runner.py:389: in collect return list(collector.collect()) /usr/lib/python3.12/site-packages/_pytest/unittest.py:90: in collect self.session._fixturemanager.parsefactories(self.newinstance(), self.nodeid) /usr/lib/python3.12/site-packages/_pytest/unittest.py:75: in newinstance return self.obj("runTest") E TypeError: Can't instantiate abstract class BuildDatasetExtAttrsMixin without an implementation for abstract method 'get_refined_bar_data_spec' _________ ERROR collecting tests/unit/validator_tests/test_validate.py _________ /usr/lib/python3.12/site-packages/_pytest/runner.py:341: in from_call result: Optional[TResult] = func() /usr/lib/python3.12/site-packages/_pytest/runner.py:389: in collect return list(collector.collect()) /usr/lib/python3.12/site-packages/_pytest/unittest.py:90: in collect self.session._fixturemanager.parsefactories(self.newinstance(), self.nodeid) /usr/lib/python3.12/site-packages/_pytest/unittest.py:75: in newinstance return self.obj("runTest") E TypeError: Can't instantiate abstract class ValidatorTestBase without an implementation for abstract method 'getSpecs' =========================== short test summary info ============================ ERROR tests/unit/build_tests/mapper_tests/test_build.py::BuildGroupExtAttrsMixin ERROR tests/unit/build_tests/mapper_tests/test_build.py::BuildDatasetExtAttrsMixin ERROR tests/unit/validator_tests/test_validate.py::ValidatorTestBase - TypeEr... !!!!!!!!!!!!!!!!!!! Interrupted: 3 errors during collection !!!!!!!!!!!!!!!!!!!! ============================== 3 errors in 1.60s =============================== https://docs.pytest.org/en/stable/changelog.html For the build logs, see: https://copr-be.cloud.fedoraproject.org/results/thrnciar/pytest/fedora-rawhide-x86_64/07388981-python-hdmf/ For all our attempts to build python-hdmf with pytest 8, see: https://copr.fedorainfracloud.org/coprs/thrnciar/pytest/package/python-hdmf/ Let us know here if you have any questions. Pytest 8 is planned to be included in Fedora 41. And this bugzilla is a heads up before we merge new pytest into rawhide. For more info see a Fedora Change proposal https://fedoraproject.org/wiki/Changes/Pytest_8 We'd appreciate help from the people who know this package best, but if you don't want to work on this now, let us know so we can try to work around it on our side.