The Mac build does not seem to have the 'amg' preconditioner from PETSc. Can this be fixed? Is --download-hypre missing for a reason?
-- Anders Wed Dec 17 2014 at 12:05:03 AM skrev Jan Blechta <[email protected] >: > On Tue, 16 Dec 2014 22:07:28 +0000 > Ted Kord <[email protected]> wrote: > > > Hear aere the final lines of the file. The whole file is also > > attached. > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] 'SWIG_LIB': > > u'/Users/tedkord/.hashdist/bld/swig/biszbonsd5jn/share/swig/3.0.2'} > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] Traceback (most recent > > call last): > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] File "setup.py", line > > 3, in <module> > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] import os, sys, > > platform, re, subprocess, string, numpy, tempfile, shutil > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] File > > "/Users/tedkord/.hashdist/bld/numpy/tiaemsl577pf/lib/ > python2.7/site-packages/numpy/__init__.py", > > line 153, in <module> > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] from . import > > add_newdocs > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] File > > "/Users/tedkord/.hashdist/bld/numpy/tiaemsl577pf/lib/ > python2.7/site-packages/numpy/add_newdocs.py", > > line 13, in <module> > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] from numpy.lib > > import add_newdoc > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] File > > "/Users/tedkord/.hashdist/bld/numpy/tiaemsl577pf/lib/ > python2.7/site-packages/numpy/lib/__init__.py", > > line 18, in <module> > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] from .polynomial > > import * > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] File > > "/Users/tedkord/.hashdist/bld/numpy/tiaemsl577pf/lib/ > python2.7/site-packages/numpy/lib/polynomial.py", > > line 19, in <module> > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] from numpy.linalg > > import eigvals, lstsq, inv > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] File > > "/Users/tedkord/.hashdist/bld/numpy/tiaemsl577pf/lib/ > python2.7/site-packages/numpy/linalg/__init__.py", > > line 50, in <module> > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] from .linalg import > > * > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] File > > "/Users/tedkord/.hashdist/bld/numpy/tiaemsl577pf/lib/ > python2.7/site-packages/numpy/linalg/linalg.py", > > line 29, in <module> > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] from numpy.linalg > > import lapack_lite, _umath_linalg > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] ImportError: > > dlopen(/Users/tedkord/.hashdist/bld/numpy/tiaemsl577pf/lib/python2.7/ > site-packages/numpy/linalg/lapack_lite.so, > > 2): Symbol not found: __gfortran_compare_string > > "Symbol not found: __gfortran_compare_string" seems to be > well-googlable string. It suggests > > 1. either some bad interaction with ATLAS > https://trac.macports.org/ticket/41445 > 2. or missing gfortran > http://stackoverflow.com/questions/22080154/ > > What do you think, Johannes? > > Jan > > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] Referenced from: > > /Users/tedkord/.hashdist/bld/numpy/tiaemsl577pf/lib/ > python2.7/site-packages/numpy/linalg/lapack_lite.so > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] Expected in: flat > > namespace > > > > 2014/12/16 19:54:45 - INFO: [package:run_job] in > > /Users/tedkord/.hashdist/bld/numpy/tiaemsl577pf/lib/ > python2.7/site-packages/numpy/linalg/lapack_lite.so > > > > 2014/12/16 19:54:45 - ERROR: [package:run_job] Command '[u'/bin/bash', > > '_hashdist/build.sh']' returned non-zero exit status 1 > > > > 2014/12/16 19:54:45 - ERROR: [package:run_job] command failed > > (code=1); raising > > > > On 16 December 2014 at 21:45, Jan Blechta <[email protected]> > > wrote: > > > > > > On Tue, 16 Dec 2014 19:56:01 +0000 > > > Ted Kord <[email protected]> wrote: > > > > > > > Now it gives the System numpy. > > > > > > > > <module 'numpy' from > > > > > > > '/System/Library/Frameworks/Python.framework/Versions/2.7/ > Extras/lib/python/numpy/__init__.pyc'> > > > > > > > > But even after I put > > > > > > > > export PATH=$PWD/default/bin:$PATH > > > > export PYTHONPATH=$PWD/default/lib/python2.7/site-packages > > > > > > > > in my .bash_profile, the error still occurs. > > > > > > > > [*ffc*] Building ffc/hai4csumhzor, follow log with: > > > > > > > > [*ffc*] tail > > > > -f /Users/tedkord/.hashdist/tmp/ffc-hai4csumhzor/build.log > > > > > > Please, post (relevant) contents of this file. > > > > > > Jan > > > > > > > > > > > [ffc|ERROR] Command '[u'/bin/bash', '_hashdist/build.sh']' > > > > returned non-zero exit status 1 > > > > > > > > [ffc|ERROR] command failed (code=1); raising > > > > > > > > > > > > > > > > On 16 December 2014 at 11:45, Johannes Ring <[email protected]> > > > > wrote: > > > > > > > > > > On Mon, Dec 15, 2014 at 9:36 PM, Ted Kord <[email protected]> > > > > > wrote: > > > > > > Hi Johannes > > > > > > > > > > > > <module 'numpy' from > > > > > > > > > > > > > > '/opt/local/Library/Frameworks/Python.framework/ > Versions/2.7/lib/python2.7/site-packages/numpy/__init__.pyc'> > > > > > > > > > > This is not good. It is using numpy from MacPorts. > > > > > > > > > > > is the result of PATH=$PWD/default/bin:$PATH > > > > > > > > > > > > PYTHONPATH=$PWD/default/lib/python2.7/site-packages python -c > > > > > > "import numpy;print numpy" > > > > > > > > > > That command was supposed to be on one line. Can you please try > > > > > this instead: > > > > > > > > > > export PATH=$PWD/default/bin:$PATH > > > > > export PYTHONPATH=$PWD/default/lib/python2.7/site-packages > > > > > python -c "import numpy;print numpy" > > > > > > > > > > Does it still give you numpy from MacPorts? > > > > > > > > > > Thanks, > > > > > > > > > > Johannes > > > > > > > > > > > > > > > > > > > > > > > _______________________________________________ > fenics mailing list > [email protected] > http://fenicsproject.org/mailman/listinfo/fenics >
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