Bug 1337966
| Summary: | mmseq FTBFS in F24 and rawhide | ||||||
|---|---|---|---|---|---|---|---|
| Product: | [Fedora] Fedora | Reporter: | Jonathan Wakely <jwakely> | ||||
| Component: | mmseq | Assignee: | Adam Huffman <bloch> | ||||
| Status: | CLOSED ERRATA | QA Contact: | Fedora Extras Quality Assurance <extras-qa> | ||||
| Severity: | unspecified | Docs Contact: | |||||
| Priority: | unspecified | ||||||
| Version: | 24 | CC: | bloch | ||||
| Target Milestone: | --- | ||||||
| Target Release: | --- | ||||||
| Hardware: | Unspecified | ||||||
| OS: | Unspecified | ||||||
| Whiteboard: | |||||||
| Fixed In Version: | mmseq-1.0.8a-15.fc24 | Doc Type: | If docs needed, set a value | ||||
| Doc Text: | Story Points: | --- | |||||
| Clone Of: | Environment: | ||||||
| Last Closed: | 2016-07-27 18:56:23 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: | |||||||
| Attachments: |
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I've added that new BuildRequires but there are still problems with the new Boost. I'll report them upstream. It builds OK for me in rawhide with that BuildRequires. The build failure in F24 looks like Bug 1331983, not an upstream problem. That should be solved by the Boost update that's currently in updates-testing, boost-1.60.0-5.fc24 https://bodhi.fedoraproject.org/updates/FEDORA-2016-ce03854337 There's an active buildroot override for that: https://bodhi.fedoraproject.org/overrides/boost-1.60.0-5.fc24 So if you're seeing failures in a local mock build you need to use a custom mock config to get that override, or just build in koji which uses the override. It builds fine if I do that. Or just use --enablerepo=updates-testing This works for me: mock -r fedora-24-x86_64 --enablerepo=updates-testing --rebuild mmseq-1.0.8a-13.fc24.src.rpm The boost update is being pushed to stable so should land soon anyway. mmseq-1.0.8a-13.fc24 has been submitted as an update to Fedora 24. https://bodhi.fedoraproject.org/updates/FEDORA-2016-f5e2583330 mmseq-1.0.8a-13.fc24 has been pushed to the Fedora 24 testing repository. If problems still persist, please make note of it in this bug report. See https://fedoraproject.org/wiki/QA:Updates_Testing for instructions on how to install test updates. You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2016-f5e2583330 mlpack-2.0.1-2.fc24 gdal-2.0.2-6.fc24 mmseq-1.0.8a-15.fc24 armadillo-7.200.2-1.fc24 has been submitted as an update to Fedora 24. https://bodhi.fedoraproject.org/updates/FEDORA-2016-edc4a7a6d1 armadillo-7.200.2-1.fc24, gdal-2.0.2-6.fc24, mlpack-2.0.1-2.fc24, mmseq-1.0.8a-15.fc24 has been pushed to the Fedora 24 testing repository. If problems still persist, please make note of it in this bug report. See https://fedoraproject.org/wiki/QA:Updates_Testing for instructions on how to install test updates. You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2016-edc4a7a6d1 armadillo-7.200.2-4.fc24 gdal-2.0.2-6.fc24 mlpack-2.0.1-2.fc24 mmseq-1.0.8a-15.fc24 has been submitted as an update to Fedora 24. https://bodhi.fedoraproject.org/updates/FEDORA-2016-edc4a7a6d1 armadillo-7.300.0-1.fc24, gdal-2.0.2-6.fc24, mlpack-2.0.1-2.fc24, mmseq-1.0.8a-15.fc24 has been pushed to the Fedora 24 testing repository. If problems still persist, please make note of it in this bug report. See https://fedoraproject.org/wiki/QA:Updates_Testing for instructions on how to install test updates. You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2016-edc4a7a6d1 armadillo-7.300.0-1.fc24, gdal-2.0.2-6.fc24, mlpack-2.0.1-2.fc24, mmseq-1.0.8a-15.fc24 has been pushed to the Fedora 24 stable repository. If problems still persist, please make note of it in this bug report. |
Created attachment 1159978 [details] build.log of F24 scratch build of mmseq mmseq doesn't build, maybe since armadillo was updated from 5.600 to 6.500 g++ -DVERSION=1.0.8 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -mtune=generic -fopenmp -O2 bms.cpp bms.hpp -c bms.cpp In file included from /usr/include/armadillo:84:0, from bms.hpp:34, from bms.cpp:21: /usr/include/armadillo_bits/include_superlu.hpp:91:53: fatal error: /usr/include/SuperLU43/supermatrix.h: No such file or directory #include ARMA_INCFILE_WRAP(ARMA_SLU_SUPERMATRIX_H) ^ compilation terminated. It seems to be missing: BuildRequires: SuperLU43-devel