On Tuesday, August 14, 2018 at 4:39:52 PM UTC+2, Jörg-Volker wrote: > > > > On Tuesday, August 14, 2018 at 1:49:11 PM UTC+2, Erik Bray wrote: >> >> On Tue, Aug 14, 2018 at 12:48 PM Jörg-Volker <jvp...@gmail.com> wrote: >> > >> > On Tuesday, August 14, 2018 at 11:44:17 AM UTC+2, Dima Pasechnik wrote: >> >> >> >> I don't recall any reports on using gcc 8 to build Sage, so you are >> probably on your own here. >> >> The error message suggests that in fact building numpy failed. >> >> Could you post the corresponding log? >> > >> > >> > Thanks for looking into this. I append the numpy build log. To me it >> seems o.k. >> >> I suspect something went wrong even earlier, such as in the openblas >> build. It seems like it's trying to use the system's libblas: >> >> Original error was: /usr/lib/x86_64-linux-gnu/libblas.so.3: >> undefined symbol: sgemv_thread_n >> >> which it shouldn't be doing. >> > The build of openblas went fine. > Looking at the resulting .so files of the numpy build I see > >> ldd local/lib/python2.7/site-packages/numpy/linalg/lapack_lite.so >> linux-vdso.so.1 (0x00007ffe77cfd000) >> libopenblas.so.0 => /tmp/sage/sage.git-8.3/local/lib/libopenblas.so.0 >> (0x00007f8ee9a54000) >> liblapack.so.3 => /usr/lib/x86_64-linux-gnu/liblapack.so.3 >> (0x00007f8ee93a9000) >> libblas.so.3 => /usr/lib/x86_64-linux-gnu/libblas.so.3 >> (0x00007f8ee934d000) >> libpython2.7.so.1.0 => >> /tmp/sage/sage.git-8.3/local/lib/libpython2.7.so.1.0 (0x00007f8ee9147000) >> libpthread.so.0 => /lib/x86_64-linux-gnu/libpthread.so.0 >> (0x00007f8ee9126000) >> libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007f8ee8f69000) >> libm.so.6 => /lib/x86_64-linux-gnu/libm.so.6 (0x00007f8ee8dd3000) >> libgfortran.so.5 => /usr/lib/x86_64-linux-gnu/libgfortran.so.5 >> (0x00007f8ee8b65000) >> libdl.so.2 => /lib/x86_64-linux-gnu/libdl.so.2 (0x00007f8ee8b60000) >> libutil.so.1 => /lib/x86_64-linux-gnu/libutil.so.1 >> (0x00007f8ee8b5b000) >> /lib64/ld-linux-x86-64.so.2 (0x00007f8eea65a000) >> libquadmath.so.0 => /usr/lib/x86_64-linux-gnu/libquadmath.so.0 >> (0x00007f8ee8b1a000) >> libz.so.1 => /lib/x86_64-linux-gnu/libz.so.1 (0x00007f8ee88fa000) >> libgcc_s.so.1 => /lib/x86_64-linux-gnu/libgcc_s.so.1 >> (0x00007f8ee88e0000) >> > This library is linked against the system libraries libblas.so and > liblapack.so, but also against > /tmp/sage/sage.git-8.3/local/lib/libopenblas.so.0 which does not match the > version of the system library /usr/lib/x86_64-linux-gnu/libblas.so.3 > The system libraries all belong to the system openblas package > (libopenblas-base for debian). The lapack library is missing in > $SAGE_ROOT/local/lib/. > > In my previous sage 8.2 installation the numpy so-file > linalg/lapack_lite.so is not linked against liblapack.so nor against > libblas.so, only against the local libopenblas.so.0 of sage 8.2. > > Any idea? > Regards, > Jörg. > > By the way, the same mismatch has happened with the R library lapack.so:
> ldd ./local/lib/R/modules/lapack.so > linux-vdso.so.1 (0x00007ffe99dc0000) > libR.so => /usr/lib/libR.so (0x00007faf528ed000) > libopenblas.so.0 => /tmp/sage/sage.git-8.3/local/lib/libopenblas.so.0 > (0x00007faf51cef000) > libgfortran.so.5 => /usr/lib/x86_64-linux-gnu/libgfortran.so.5 > (0x00007faf51a81000) > libm.so.6 => /lib/x86_64-linux-gnu/libm.so.6 (0x00007faf518ed000) > libquadmath.so.0 => /usr/lib/x86_64-linux-gnu/libquadmath.so.0 > (0x00007faf518ac000) > libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007faf516ef000) > libblas.so.3 => /usr/lib/x86_64-linux-gnu/libblas.so.3 > (0x00007faf51691000) > ... > This is the same in my previous sage installation version 8.2. But I didn't notice since I have not used R within sage. Regards, Jörg. -- You received this message because you are subscribed to the Google Groups "sage-devel" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at https://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
