| Summary: | sci-libs/silo-4.10.2 will not build with USE hdf5: ../../src/.libs/libsiloh5.so: undefined reference to `H5Pset_fapl_mpiposix' | ||
|---|---|---|---|
| Product: | Gentoo Linux | Reporter: | deference |
| Component: | Current packages | Assignee: | Gentoo Cluster Team <cluster> |
| Status: | RESOLVED OBSOLETE | ||
| Severity: | normal | CC: | cluster, deference, ionen, jstein |
| Priority: | Normal | ||
| Version: | unspecified | ||
| Hardware: | AMD64 | ||
| OS: | Linux | ||
| Whiteboard: | |||
| Package list: | Runtime testing required: | --- | |
| Attachments: |
build.log
emerge --info |
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Created attachment 486190 [details]
build.log
Created attachment 486192 [details]
emerge --info
Which version of sci-libs/hdf5 you have installed? I don't know if I upgraded between the bug reports creation and currently. I currently have version 1.8.18 installed. This is caused by sci-libs/hdf5 built with mpi use flag. Silo uses old function name, which is deprecated and removed since hdf5-1.8.13. https://support.hdfgroup.org/HDF5/doc/RM/RM_H5P.html#Property-SetFaplMpiPosix I've attached a patch, please verify. It builds fine for me, but I'm not sure about further working. I unmasked mpi on hdf5 and gave this a try, builds fine as far as I can tell. Likely got fixed by something in the last few years, but haven't looked deeper. |
libtool: link: x86_64-pc-linux-gnu-g++ -pipe -O2 -Wl,-O1 -Wl,--as-needed -o .libs/silock silock.o -L/usr/lib ../../src/.libs/libsiloh5.so -L/usr/lib64 /usr/lib64/libhdf5.so /usr/lib64/libsz.so -ldl -lz -lm ../../src/.libs/libsiloh5.so: undefined reference to `H5Pset_fapl_mpiposix' collect2: error: ld returned 1 exit status [ebuild R ] sci-libs/silo-4.10.2 USE="hdf5* qt4 silex static-libs {-test}"