Bug 2232463
| Summary: | h5py: FTBFS in Fedora 39 | ||
|---|---|---|---|
| Product: | [Fedora] Fedora | Reporter: | Orion Poplawski <orion> |
| Component: | h5py | Assignee: | Terje Røsten <terje.rosten> |
| Status: | CLOSED ERRATA | QA Contact: | Fedora Extras Quality Assurance <extras-qa> |
| Severity: | medium | Docs Contact: | |
| Priority: | unspecified | ||
| Version: | 39 | CC: | orion, steve.traylen, terje.rosten |
| Target Milestone: | --- | ||
| Target Release: | --- | ||
| Hardware: | Unspecified | ||
| OS: | Linux | ||
| URL: | https://koschei.fedoraproject.org/package/h5py | ||
| Whiteboard: | |||
| Fixed In Version: | h5py-3.10.0-1.fc39 | Doc Type: | --- |
| Doc Text: | Story Points: | --- | |
| Clone Of: | Environment: | ||
| Last Closed: | 2023-11-07 01:39:10 UTC | Type: | --- |
| Regression: | --- | Mount Type: | --- |
| Documentation: | --- | CRM: | |
| Verified Versions: | Category: | --- | |
| oVirt Team: | --- | RHEL 7.3 requirements from Atomic Host: | |
| Cloudforms Team: | --- | Target Upstream Version: | |
| Embargoed: | |||
FEDORA-2023-d5a7283d1c has been submitted as an update to Fedora 39. https://bodhi.fedoraproject.org/updates/FEDORA-2023-d5a7283d1c FEDORA-2023-d5a7283d1c has been pushed to the Fedora 39 testing repository. Soon you'll be able to install the update with the following command: `sudo dnf upgrade --enablerepo=updates-testing --refresh --advisory=FEDORA-2023-d5a7283d1c` You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2023-d5a7283d1c See also https://fedoraproject.org/wiki/QA:Updates_Testing for more information on how to test updates. FEDORA-2023-d5a7283d1c has been pushed to the Fedora 39 stable repository. If problem still persists, please make note of it in this bug report. |
Error compiling Cython file: ------------------------------------------------------------ ... # First, extract the major & minor error codes from the top of the # stack, along with the top-level error description err.n = -1 if H5Ewalk(<hid_t>H5E_DEFAULT, H5E_WALK_UPWARD, walk_cb, &err) < 0: ^ ------------------------------------------------------------ h5py/_errors.pyx:123:52: Cannot assign type 'herr_t (unsigned int, const H5E_error_t *, void *) except? -1 nogil' to 'H5E_walk_t' Error compiling Cython file: ------------------------------------------------------------ ... # Second, retrieve the bottom-most error description for additional info err.n = -1 if H5Ewalk(<hid_t>H5E_DEFAULT, H5E_WALK_DOWNWARD, walk_cb, &err) < 0: ^ ------------------------------------------------------------ h5py/_errors.pyx:140:54: Cannot assign type 'herr_t (unsigned int, const H5E_error_t *, void *) except? -1 nogil' to 'H5E_walk_t' Loading library to get build settings and version: libhdf5.so ******************************************************************************** Summary of the h5py configuration HDF5 include dirs: [] HDF5 library dirs: [] HDF5 Version: (1, 12, 1) MPI Enabled: False ROS3 VFD Enabled: False DIRECT VFD Enabled: False Rebuild Required: True MS-MPI Enabled: False MS-MPI include dirs: [] MS-MPI library dirs: [] ******************************************************************************** Updated /builddir/build/BUILD/h5py-3.8.0/serial/h5py/config.pxi Executing cythonize() [ 1/24] Cythonizing /builddir/build/BUILD/h5py-3.8.0/serial/h5py/_conv.pyx [ 2/24] Cythonizing /builddir/build/BUILD/h5py-3.8.0/serial/h5py/_errors.pyx Traceback (most recent call last): File "/builddir/build/BUILD/h5py-3.8.0/serial/setup.py", line 68, in <module> setup( File "/usr/lib/python3.12/site-packages/setuptools/__init__.py", line 107, in setup return distutils.core.setup(**attrs) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/lib/python3.12/site-packages/setuptools/_distutils/core.py", line 185, in setup return run_commands(dist) ^^^^^^^^^^^^^^^^^^ File "/usr/lib/python3.12/site-packages/setuptools/_distutils/core.py", line 201, in run_commands dist.run_commands() File "/usr/lib/python3.12/site-packages/setuptools/_distutils/dist.py", line 969, in run_commands self.run_command(cmd) File "/usr/lib/python3.12/site-packages/setuptools/dist.py", line 1244, in run_command super().run_command(command) File "/usr/lib/python3.12/site-packages/setuptools/_distutils/dist.py", line 988, in run_command cmd_obj.run() File "/usr/lib/python3.12/site-packages/setuptools/_distutils/command/build.py", line 131, in run self.run_command(cmd_name) File "/usr/lib/python3.12/site-packages/setuptools/_distutils/cmd.py", line 318, in run_command self.distribution.run_command(command) File "/usr/lib/python3.12/site-packages/setuptools/dist.py", line 1244, in run_command super().run_command(command) File "/usr/lib/python3.12/site-packages/setuptools/_distutils/dist.py", line 988, in run_command cmd_obj.run() File "/builddir/build/BUILD/h5py-3.8.0/serial/setup_build.py", line 171, in run self.extensions = cythonize(self._make_extensions(config), ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/lib64/python3.12/site-packages/Cython/Build/Dependencies.py", line 1134, in cythonize cythonize_one(*args) File "/usr/lib64/python3.12/site-packages/Cython/Build/Dependencies.py", line 1301, in cythonize_one raise CompileError(None, pyx_file) Cython.Compiler.Errors.CompileError: /builddir/build/BUILD/h5py-3.8.0/serial/h5py/_errors.pyx Reproducible: Always