On Sun, Oct 7, 2012 at 12:48 PM, Satish Balay <span dir="ltr"><<a href="mailto:petsc-maint@mcs.anl.gov" target="_blank">petsc-maint@mcs.anl.gov</a>></span> wrote:<br><div class="gmail_quote"><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
My test ran fine again.<br>
<br>
Perhaps you can run the example manually in a debugger to get a better<br>
trace.</blockquote><div><br></div><div>Yes, I can't reproduce this either.</div><div><br></div><div> Matt</div><div> </div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<span class="HOEnZb"><font color="#888888"><br>
Satish<br>
</font></span><div class="HOEnZb"><div class="h5"><br>
On Sun, 7 Oct 2012, Satish Balay wrote:<br>
<br>
> ok - then the issue is unrelated to fortran. I'll redo the 10.6 build<br>
> and see if its reproduceable.<br>
><br>
> and secondly there is some wierd bug where fortran interface is not<br>
> getting built [you could try 'make all-legacy' and see if it gets<br>
> built correctly]<br>
><br>
> Also gfortran-4.2* is buggy [wrt some of the f90 interface<br>
> functionality]. gfortran >= 4.3 is prefered for that. [but if not<br>
> using f90 interfaces - it doesn't matter]<br>
><br>
> Satish<br>
><br>
> On Sun, 7 Oct 2012, Aron Ahmadia wrote:<br>
><br>
> > reproduced with fortran enabled, additionally:<br>
> ><br>
> > /Users/aron/sandbox/petsc/arch-darwin-c-debug/bin/mpif90 -c -Wall<br>
> > -Wno-unused-variable -g -I/Users/aron/sandbox/petsc/include<br>
> > -I/Users/aron/sandbox/petsc/arch-darwin-c-debug/include -o ex5f.o ex5f.F<br>
> > Warning: Nonconforming tab character in column 1 of line 2757<br>
> > Warning: Nonconforming tab character in column 1 of line 4937<br>
> > Warning: Nonconforming tab character in column 1 of line 6914<br>
> > Warning: Nonconforming tab character in column 1 of line 8887<br>
> > Warning: Nonconforming tab character in column 1 of line 10901<br>
> > /Users/aron/sandbox/petsc/arch-darwin-c-debug/bin/mpif90<br>
> > -Wl,-multiply_defined,suppress -Wl,-multiply_defined -Wl,suppress<br>
> > -Wl,-commons,use_dylibs -Wl,-search_paths_first<br>
> > -Wl,-multiply_defined,suppress -Wl,-multiply_defined -Wl,suppress<br>
> > -Wl,-commons,use_dylibs -Wl,-search_paths_first -Wall<br>
> > -Wno-unused-variable -g -o ex5f ex5f.o<br>
> > -L/Users/aron/sandbox/petsc/arch-darwin-c-debug/lib -lpetsc<br>
> > -L/usr/X11R6/lib -lX11 -lpthread -llapack -lblas<br>
> > -L/usr/lib/gcc/i686-apple-darwin10/4.2.1/x86_64<br>
> > -L/usr/lib/i686-apple-darwin10/4.2.1<br>
> > -L/usr/lib/gcc/i686-apple-darwin10/4.2.1 -lmpichf90 -lgfortran<br>
> > -L/usr/local/Cellar/gfortran/4.2.4-5664/lib/gcc/i686-apple-darwin10/4.2.1/x86_64<br>
> > -L/usr/local/Cellar/gfortran/4.2.4-5664/lib/gcc/i686-apple-darwin10/4.2.1<br>
> > -L/usr/local/Cellar/gfortran/4.2.4-5664/lib/gcc<br>
> > -L/usr/local/Cellar/gfortran/4.2.4-5664/lib -ldl -lpmpich -lmpich -lopa<br>
> > -lmpl -lpthread -lSystem -ldl<br>
> > Undefined symbols:<br>
> > "_dmlocaltoglobalbegin_", referenced from:<br>
> > _forminitialguess_ in ex5f.o<br>
> > "_dmgetlocalvector_", referenced from:<br>
> > _forminitialguess_ in ex5f.o<br>
> > "_matassemblybegin_", referenced from:<br>
> > _formjacobianlocal_ in ex5f.o<br>
> > "_dmdestroy_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_snessolve_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_vecrestorearray_", referenced from:<br>
> > _forminitialguess_ in ex5f.o<br>
> > "_vecdestroy_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > _MAIN__ in ex5f.o<br>
> > "_matsetvalueslocal_", referenced from:<br>
> > _formjacobianlocal_ in ex5f.o<br>
> > _formjacobianlocal_ in ex5f.o<br>
> > "_matassemblyend_", referenced from:<br>
> > _formjacobianlocal_ in ex5f.o<br>
> > "_dmdagetcorners_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_dmdasetlocaljacobian_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_petscinitialize_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_dmcreateglobalvector_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_petscfinalize_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_snessetdm_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_snessetfromoptions_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_snescreate_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_snesdestroy_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_dmdacreate2d_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_vecduplicate_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_petsclogflops_", referenced from:<br>
> > _formfunctionlocal_ in ex5f.o<br>
> > "_dmdagetghostcorners_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_dmrestorelocalvector_", referenced from:<br>
> > _forminitialguess_ in ex5f.o<br>
> > "_snesgetiterationnumber_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_dmlocaltoglobalend_", referenced from:<br>
> > _forminitialguess_ in ex5f.o<br>
> > "_dmdasetlocalfunction_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_dmdagetinfo_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_petscoptionsgetreal_", referenced from:<br>
> > _MAIN__ in ex5f.o<br>
> > "_vecgetarray_", referenced from:<br>
> > _forminitialguess_ in ex5f.o<br>
> > ld: symbol(s) not found<br>
> > collect2: ld returned 1 exit status<br>
> > make[3]: [ex5f] Error 1 (ignored)<br>
> ><br>
> > On Sun, Oct 7, 2012 at 7:29 PM, Satish Balay <<a href="mailto:petsc-maint@mcs.anl.gov">petsc-maint@mcs.anl.gov</a>>wrote:<br>
> ><br>
> > > Hm - nightlybuilds use --download-mpich=1 - but I don't see this error<br>
> > > on OSX build.<br>
> > ><br>
> > > wrt binsection - the following worked - the last time I tried.<br>
> > ><br>
> > > <a href="http://www.mcs.anl.gov/petsc/documentation/faq.html#bisect" target="_blank">http://www.mcs.anl.gov/petsc/documentation/faq.html#bisect</a><br>
> > ><br>
> > > Satish<br>
> > ><br>
> > > On Sun, 7 Oct 2012, Aron Ahmadia wrote:<br>
> > ><br>
> > > > reproduced with --download-mpich=1<br>
> > > ><br>
> > > > how the heck do you guys bisect with two independent repos?<br>
> > > ><br>
> > > > A<br>
> > > ><br>
> > > > On Sun, Oct 7, 2012 at 6:28 PM, Aron Ahmadia <<a href="mailto:aron@ahmadia.net">aron@ahmadia.net</a>> wrote:<br>
> > > ><br>
> > > > > I'm able to reproduce with shared libraries enabled and disabled. Your<br>
> > > > > nightly logs aren't indicating failures as far as I can tell.<br>
> > > > ><br>
> > > > > changeset: 24541:729963bc657c<br>
> > > > > tag: tip<br>
> > > > > user: Stefano Zampini <<a href="mailto:stefano.zampini@gmail.com">stefano.zampini@gmail.com</a>><br>
> > > > > date: Sat Oct 06 13:39:31 2012 +0200<br>
> > > > > summary: Rearranged some deallocations when building FETIDP mat.<br>
> > > > > (same failure with 2 processes), I'm looking into whether any of the<br>
> > > > > specific configure options (python/shared libraries) triggers the<br>
> > > failure.<br>
> > > > ><br>
> > > > > ~/s/petsc ❯❯❯ make PETSC_DIR=/Users/aron/sandbox/petsc<br>
> > > > > PETSC_ARCH=arch-darwin-c-debug test<br>
> > > > > Running test examples to verify correct installation<br>
> > > > > Using PETSC_DIR=/Users/aron/sandbox/petsc and<br>
> > > > > PETSC_ARCH=arch-darwin-c-debug<br>
> > > > > Possible error running C/C++ src/snes/examples/tutorials/ex19 with 1<br>
> > > MPI<br>
> > > > > process<br>
> > > > > See <a href="http://www.mcs.anl.gov/petsc/documentation/faq.html" target="_blank">http://www.mcs.anl.gov/petsc/documentation/faq.html</a><br>
> > > > > [peregrine:31992] *** Process received signal ***<br>
> > > > > [peregrine:31992] Signal: Segmentation fault (11)<br>
> > > > > [peregrine:31992] Signal code: Address not mapped (1)<br>
> > > > > [peregrine:31992] Failing at address: 0x440000b0<br>
> > > > > [peregrine:31992] [ 0] 2 libSystem.B.dylib<br>
> > > > > 0x00007fff846391ba _sigtramp + 26<br>
> > > > > [peregrine:31992] [ 1] 3 ???<br>
> > > > > 0x0000000101434fd0 0x0 + 4316155856<br>
> > > > > [peregrine:31992] [ 2] 4 libpetsc.dylib<br>
> > > > > 0x0000000100118456 PetscInitialize + 1424<br>
> > > > > [peregrine:31992] [ 3] 5 ex19<br>
> > > > > 0x000000010000110f main + 43<br>
> > > > > [peregrine:31992] [ 4] 6 ex19<br>
> > > > > 0x00000001000010dc start + 52<br>
> > > > > [peregrine:31992] [ 5] 7 ???<br>
> > > > > 0x0000000000000007 0x0 + 7<br>
> > > > > [peregrine:31992] *** End of error message ***<br>
> > > > > mpiexec noticed that job rank 0 with PID 31992 on node peregrine.local<br>
> > > > > exited on signal 11 (Segmentation fault).<br>
> > > > ><br>
> > > ><br>
> > > ><br>
> > ><br>
> ><br>
> ><br>
><br>
><br>
<br>
</div></div></blockquote></div><br><br clear="all"><div><br></div>-- <br>What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead.<br>
-- Norbert Wiener<br>