Bug 2183289
| Summary: | hdf5: h5pfc Fortran compiler launchers use incorrect module search path | ||
|---|---|---|---|
| Product: | [Fedora] Fedora | Reporter: | Brad King <brad.king> |
| Component: | hdf5 | Assignee: | Orion Poplawski <orion> |
| Status: | CLOSED ERRATA | QA Contact: | Fedora Extras Quality Assurance <extras-qa> |
| Severity: | unspecified | Docs Contact: | |
| Priority: | unspecified | ||
| Version: | rawhide | CC: | igor.raits, orion, scitech-bugs, trpost |
| Target Milestone: | --- | Keywords: | Reopened |
| Target Release: | --- | ||
| Hardware: | x86_64 | ||
| OS: | Linux | ||
| Whiteboard: | |||
| Fixed In Version: | hdf5-1.14.5-9.fc43 hdf5-1.14.5-9.fc42 | Doc Type: | If docs needed, set a value |
| Doc Text: | Story Points: | --- | |
| Clone Of: | Environment: | ||
| Last Closed: | 2025-02-08 08:07:38 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: | |||
This bug appears to have been reported against 'rawhide' during the Fedora Linux 39 development cycle. Changing version to 39. This message is a reminder that Fedora Linux 39 is nearing its end of life. Fedora will stop maintaining and issuing updates for Fedora Linux 39 on 2024-11-26. It is Fedora's policy to close all bug reports from releases that are no longer maintained. At that time this bug will be closed as EOL if it remains open with a 'version' of '39'. Package Maintainer: If you wish for this bug to remain open because you plan to fix it in a currently maintained version, change the 'version' to a later Fedora Linux version. Note that the version field may be hidden. Click the "Show advanced fields" button if you do not see it. Thank you for reporting this issue and we are sorry that we were not able to fix it before Fedora Linux 39 is end of life. If you would still like to see this bug fixed and are able to reproduce it against a later version of Fedora Linux, you are encouraged to change the 'version' to a later version prior to this bug being closed. Fedora Linux 39 entered end-of-life (EOL) status on 2024-11-26. Fedora Linux 39 is no longer maintained, which means that it will not receive any further security or bug fix updates. As a result we are closing this bug. If you can reproduce this bug against a currently maintained version of Fedora Linux please feel free to reopen this bug against that version. Note that the version field may be hidden. Click the "Show advanced fields" button if you do not see the version field. If you are unable to reopen this bug, please file a new report against an active release. Thank you for reporting this bug and we are sorry it could not be fixed. This still occurs on current 'rawhide' with 'hdf5' packages versioned '1.14.5-1.fc42'. FEDORA-2025-ec172e1c3b (hdf5-1.14.5-9.fc43) has been submitted as an update to Fedora 43. https://bodhi.fedoraproject.org/updates/FEDORA-2025-ec172e1c3b FEDORA-2025-a2818fa465 (hdf5-1.14.5-9.fc42) has been submitted as an update to Fedora 42. https://bodhi.fedoraproject.org/updates/FEDORA-2025-a2818fa465 FEDORA-2025-ec172e1c3b (hdf5-1.14.5-9.fc43) has been pushed to the Fedora 43 stable repository. If problem still persists, please make note of it in this bug report. FEDORA-2025-a2818fa465 (hdf5-1.14.5-9.fc42) has been pushed to the Fedora 42 stable repository. If problem still persists, please make note of it in this bug report. |
In a `fedora:rawhide` container started today: ``` $ dnf install hdf5-openmpi-devel hdf5-mpich-devel hdf5-devel ... hdf5 x86_64 1.12.1-11.fc38 hdf5-mpich x86_64 1.12.1-11.fc38 hdf5-openmpi x86_64 1.12.1-11.fc38 ... $ cat test.f90 program test use hdf5 end ``` ----------------------------------------------------------------------- With OpenMPI under `module load mpi/openmpi-x86_64`: ``` $ h5pfc -c test.f90 f951: Warning: Nonexistent include directory '/usr/lib64/gfortran/modules/openmpi/openmpi-x86_64' [-Wmissing-include-dirs] test.f90:2:7: 2 | use hdf5 | 1 Fatal Error: Cannot open module file 'hdf5.mod' for reading at (1): No such file or directory compilation terminated. ``` The module exists here: ``` $ ls $MPI_FORTRAN_MOD_DIR/hdf5.mod /usr/lib64/gfortran/modules/openmpi/hdf5.mod ``` One can hack h5pfc to fix it like this: ``` $ sed -i '/^includedir=/ s|/openmpi-x86_64||' /usr/lib64/openmpi/bin/h5pfc $ h5pfc -c test.f90 # (succeeds) ``` ----------------------------------------------------------------------- With MPICH under `module load mpi/mpich-x86_64`: ``` $ h5pfc -c test.f90 f951: Warning: Nonexistent include directory '/usr/lib64/gfortran/modules/mpich/mpich-x86_64' [-Wmissing-include-dirs] ``` The module exists here: ``` $ ls $MPI_FORTRAN_MOD_DIR/hdf5.mod /usr/lib64/gfortran/modules/mpich/hdf5.mod ``` One can hack h5pfc to fix it like this: ``` $ sed -i '/^includedir=/ s|/mpich-x86_64||' /usr/lib64/mpich/bin/h5pfc $ h5pfc -c test.f90 # (succeeds without warning) ```