<html><head><meta http-equiv="Content-Type" content="text/html; charset=us-ascii"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div class=""><br class=""></div> Please send the error message that is printed to the screen. <div class=""><br class=""></div><div class=""> Also please send the exact PETSc version you are using. If possible also a code that reproduces the problem. </div><div class=""><br class=""></div><div class=""> Can you view other simpler things with HDF5? Like say just a vector? </div><div class=""><br class=""></div><div class=""> Barry</div><div class=""><br class=""></div><div class=""><br class=""><div class=""><div><br class=""><blockquote type="cite" class=""><div class="">On Jul 5, 2021, at 11:50 AM, Thibault Bridel-Bertomeu <<a href="mailto:thibault.bridelbertomeu@gmail.com" class="">thibault.bridelbertomeu@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class="">Dear all,<div class=""><br class=""></div><div class="">I keep having this error on one of the supercomputers I have access to :</div><div class=""><br class=""></div><div class=""><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">[1]PETSC ERROR: The EXACT line numbers in the error traceback are not available.</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">[1]PETSC ERROR: instead the line number of the start of the function is given.</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">[1]PETSC ERROR: #1 H5Dcreate2() at /ccc/work/cont001/ocre/bridelbert/05-PETSC/src/vec/vec/impls/mpi/pdvec.c:690</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">[1]PETSC ERROR: #2 VecView_MPI_HDF5() at /ccc/work/cont001/ocre/bridelbert/05-PETSC/src/vec/vec/impls/mpi/pdvec.c:594</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">[1]PETSC ERROR: #3 VecView_MPI() at /ccc/work/cont001/ocre/bridelbert/05-PETSC/src/vec/vec/impls/mpi/pdvec.c:787</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">[1]PETSC ERROR: #4 VecView() at /ccc/work/cont001/ocre/bridelbert/05-PETSC/src/vec/vec/interface/vector.c:576</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">[1]PETSC ERROR: #5 DMPlexCoordinatesView_HDF5_Internal() at /ccc/work/cont001/ocre/bridelbert/05-PETSC/src/dm/impls/plex/plexhdf5.c:560</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">[1]PETSC ERROR: #6 DMPlexView_HDF5_Internal() at /ccc/work/cont001/ocre/bridelbert/05-PETSC/src/dm/impls/plex/plexhdf5.c:802</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">[1]PETSC ERROR: #7 DMView_Plex() at /ccc/work/cont001/ocre/bridelbert/05-PETSC/src/dm/impls/plex/plex.c:1366</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">[1]PETSC ERROR: #8 DMView() at /ccc/work/cont001/ocre/bridelbert/05-PETSC/src/dm/interface/dm.c:954</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">[1]PETSC ERROR: --------------------- Error Message --------------------------------------------------------------</span></div></div><div class=""><br class=""></div><div class="">The configure options are as follow :</div><div class=""><br class=""></div><div class=""><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">[1]PETSC ERROR: Configure options --with-clean=1 --prefix=/ccc/work/cont001/ocre/bridelbert/05-PETSC/build_uns3D_inti --with-make-np=8 --with-windows-graphics=0 --with-debugging=1 --download-mpich-shared=0 --with-x=0 --with-pthread=0 --with-valgrind=0 --PETSC_ARCH=INTI_UNS3D --with-fc=/ccc/products/openmpi-4.0.3/gcc--8.3.0/default/bin/mpifort --with-cc=/ccc/products/openmpi-4.0.3/gcc--8.3.0/default/bin/mpicc --with-cxx=/ccc/products/openmpi-4.0.3/gcc--8.3.0/default/bin/mpicxx --with-openmp=0 --download-sowing=/ccc/work/cont001/ocre/bridelbert/v1.1.26-p2.tar.gz --download-metis=/ccc/work/cont001/ocre/bridelbert/git.metis.tar.gz --download-parmetis=/ccc/work/cont001/ocre/bridelbert/git.parmetis.tar.gz --download-fblaslapack=/ccc/work/cont001/ocre/bridelbert/git.fblaslapack.tar.gz --with-cmake-dir=/ccc/products/cmake-3.13.3/system/default --download-hdf5=/ccc/work/cont001/ocre/bridelbert/hdf5-1.12.0.tar.bz2 --download-netcdf=/ccc/work/cont001/ocre/bridelbert/netcdf-4.5.0.tar.gz --download-pnetcdf=/ccc/work/cont001/ocre/bridelbert/pnetcdf-1.12.1.tar.gz --download-exodusii=/ccc/work/cont001/ocre/bridelbert/v2021-01-20.tar.gz --download-zlib=/ccc/work/cont001/ocre/bridelbert/zlib-1.2.11.tar.gz</span></div></div><div class=""><br class=""></div><div class="">The piece of code that is responsible is that one :</div><div class=""><br class=""></div><div class=""><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="gmail-Apple-converted-space"> </span>call PetscViewerHDF5Open(PETSC_COMM_WORLD, "debug_initmesh.h5", FILE_MODE_WRITE, hdf5Viewer, ierr); CHKERRA(ierr)</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="gmail-Apple-converted-space"> </span>call PetscViewerPushFormat(hdf5Viewer, PETSC_VIEWER_HDF5_XDMF, ierr); CHKERRA(ierr)</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="gmail-Apple-converted-space"> </span>call DMView(dm, hdf5Viewer, ierr); CHKERRA(ierr)</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="gmail-Apple-converted-space"> </span>call PetscViewerPopFormat(hdf5Viewer, ierr); CHKERRA(ierr)</span></div><div style="margin: 0px; font-variant-numeric: normal; font-variant-east-asian: normal; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(252, 238, 207);" class=""><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"><span class="gmail-Apple-converted-space"> </span>call PetscViewerDestroy(hdf5Viewer, ierr); CHKERRA(ierr)</span></div></div><div class=""><br class=""></div><div class="">I tried with gcc, intel compiler, openmpi 2.x.x or openmpi 4.x.x ... same problems ... can anyone please advise ? It's starting to make me quite crazy ... x(</div><div class=""><br class=""></div><div class="">Thank you !!!</div><div class=""><br clear="all" class=""><div class=""><div dir="ltr" class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div dir="ltr" class=""><div class=""><div class=""><div class=""><div class=""><div class="">Thibault</div></div></div></div></div></div></div></div></div></div></div></div></div>
</div></blockquote></div><br class=""></div></div></body></html>