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<div style="direction: ltr;font-family: Tahoma;color: #000000;font-size: 10pt;">so moab is configured without parallel hdf5<br>
<br>
either hdf5 is not built with parallel option, or some other error. <br>
<br>
we test a similar configuration here, overnight<br>
<br>
http://gnep.mcs.anl.gov:8010/builders/moab-download-gnu/builds/57<br>
<br>
your config.log would show more info<br>
<br>
<br>
<div style="font-family: Times New Roman; color: #000000; font-size: 16px">
<hr tabindex="-1">
<div style="direction: ltr;" id="divRpF863874"><font face="Tahoma" size="2" color="#000000"><b>From:</b> Jie Wu [jie.voo@gmail.com]<br>
<b>Sent:</b> Friday, May 13, 2016 11:27 AM<br>
<b>To:</b> Vijay S. Mahadevan<br>
<b>Cc:</b> Grindeanu, Iulian R.; moab-dev@mcs.anl.gov<br>
<b>Subject:</b> Re: [MOAB-dev] Error message when compiling the mbcoupler_test.cpp<br>
</font><br>
</div>
<div></div>
<div>
<div class="" style="word-wrap:break-word">Hi Vijay,
<div class=""><br class="">
</div>
<div class="">Thank you for your reply. The new configuration do works. Here shows the command I inputed and the message while I input: make check.</div>
<div class=""><br class="">
</div>
<div class="">
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">dyn-160-39-10-173:moab jiewu$ ./configure --with-mpi=/usr/local CC=/usr/local/bin/mpicc CXX=/usr/local/bin/mpic++ FC=/usr/local/bin/mpif90 F77=/usr/local/bin/mpif77 --download-metis --download-hdf5 --download-netcdf --enable-docs --with-doxygen=/Applications/Doxygen.app/Contents/Resources/</span></div>
<div class=""><br class="">
</div>
The results are</div>
<div class=""><br class="">
</div>
<div class="">
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">configure: WARNING:</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">*************************************************************************</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">* MOAB has been configured with parallel and HDF5 support</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">* but the configured HDF5 library does not support parallel IO.</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">* Some parallel IO capabilities will be disabled.</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">*************************************************************************</span></div>
</div>
<div class=""><span class="" style=""><br class="">
</span></div>
<div class=""><span class="" style="">After that, I inputted the command, make -j4, and then command make check. Here are the results it shows</span></div>
<div class=""><span class="" style=""><br class="">
</span></div>
<div class=""><span class="" style="">
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">/Applications/Xcode.app/Contents/Developer/usr/bin/make check-TESTS</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="color:#34bd26">PASS</span><span class="" style="">: elem_util_test</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="color:#34bd26">PASS</span><span class="" style="">: element_test</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="color:#c33720">FAIL</span><span class="" style="">: datacoupler_test</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="color:#c33720">FAIL</span><span class="" style="">: mbcoupler_test</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="color:#c33720">FAIL</span><span class="" style="">: parcoupler_test</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(195,55,32); background-color:rgb(0,0,0)">
<span class="" style="">============================================================================</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(195,55,32); background-color:rgb(0,0,0)">
<span class="" style="">Testsuite summary for MOAB 4.9.2pre</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(195,55,32); background-color:rgb(0,0,0)">
<span class="" style="">============================================================================</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(0,249,0); background-color:rgb(0,0,0)">
<span class="" style=""># TOTAL: 5</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(52,189,38); background-color:rgb(0,0,0)">
<span class="" style=""># PASS: 2</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style=""># SKIP: 0</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style=""># XFAIL: 0</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(195,55,32); background-color:rgb(0,0,0)">
<span class="" style=""># FAIL: 3</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style=""># XPASS: 0</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style=""># ERROR: 0</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(195,55,32); background-color:rgb(0,0,0)">
<span class="" style="">============================================================================</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(195,55,32); background-color:rgb(0,0,0)">
<span class="" style="">See tools/mbcoupler/test-suite.log</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(195,55,32); background-color:rgb(0,0,0)">
<span class="" style="">Please report to <a href="mailto:moab-dev@mcs.anl.gov" class="" target="_blank">
moab-dev@mcs.anl.gov</a></span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(195,55,32); background-color:rgb(0,0,0)">
<span class="" style="">============================================================================</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">make[4]: *** [test-suite.log] Error 1</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">make[3]: *** [check-TESTS] Error 2</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">make[2]: *** [check-am] Error 2</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">make[1]: *** [check-recursive] Error 1</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">make: *** [check-recursive] Error 1</span></div>
</span></div>
<div class=""><span class="" style=""><br class="">
</span></div>
<div class=""><span class="" style="">Then I was trying to run the mbcouple_test with command</span></div>
<div class=""><span class="" style="">
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">dyn-160-39-10-173:mbcoupler jiewu$ mpiexec -np 2 mbcoupler_test -meshes /Users/wujie/SourceCode/moab/MeshFiles/unittest/64bricks_1khex.h5m /Users/wujie/SourceCode/moab/MeshFiles/unittest/64bricks_12ktet.h5m -itag vertex_field -outfile
dum.h5m</span></div>
</span></div>
<div class="">Now the results look like,</div>
<div class=""><br class="">
</div>
<div class="">
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: --------------------- Error Message ------------------------------------</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: MOAB not configured with parallel HDF5 support!</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: set_up_read() line 355 in src/io/ReadHDF5.cpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: --------------------- Error Message ------------------------------------</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: NULL file handle.!</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: is_error() line 133 in src/io/ReadHDF5.hpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: --------------------- Error Message ------------------------------------</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: MOAB not configured with parallel HDF5 support!</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: set_up_read() line 355 in src/io/ReadHDF5.cpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: --------------------- Error Message ------------------------------------</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: NULL file handle.!</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: is_error() line 133 in src/io/ReadHDF5.hpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: --------------------- Error Message ------------------------------------</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: Failed to load file after trying all possible readers!</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: serial_load_file() line 635 in src/Core.cpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: --------------------- Error Message ------------------------------------</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: Failed in step PARALLEL READ PART!</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: load_file() line 553 in src/parallel/ReadParallel.cpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: load_file() line 252 in src/parallel/ReadParallel.cpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: load_file() line 515 in src/Core.cpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: --------------------- Error Message ------------------------------------</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: Failed to load file after trying all possible readers!</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: serial_load_file() line 635 in src/Core.cpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: --------------------- Error Message ------------------------------------</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: Failed in step PARALLEL READ PART!</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: load_file() line 553 in src/parallel/ReadParallel.cpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[0]MOAB ERROR: main() line 172 in mbcoupler_test.cpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: load_file() line 252 in src/parallel/ReadParallel.cpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: load_file() line 515 in src/Core.cpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[1]MOAB ERROR: main() line 172 in mbcoupler_test.cpp</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">--------------------------------------------------------------------------</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">MPI_ABORT was invoked on rank 0 in communicator MPI_COMM_WORLD </span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">with errorcode 16.</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0); min-height:16px">
<span class="" style=""></span><br class="">
</div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">NOTE: invoking MPI_ABORT causes Open MPI to kill all MPI processes.</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">You may or may not see output from other processes, depending on</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">exactly when Open MPI kills them.</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">--------------------------------------------------------------------------</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[<a href="http://dyn-160-39-11-172.dyn.columbia.edu" class="" target="_blank">dyn-160-39-11-172.dyn.columbia.edu</a>:26361] 1 more process has sent help message help-mpi-api.txt / mpi-abort</span></div>
<div class="" style="margin:0px; font-size:14px; line-height:normal; font-family:'Andale Mono'; color:rgb(254,253,201); background-color:rgb(0,0,0)">
<span class="" style="">[<a href="http://dyn-160-39-11-172.dyn.columbia.edu" class="" target="_blank">dyn-160-39-11-172.dyn.columbia.edu</a>:26361] Set MCA parameter "orte_base_help_aggregate" to 0 to see all help / error messages</span></div>
</div>
<div class="">The other excitable file in mbcoupler folder, like ./element_test now can run successfully.</div>
<div class=""><br class="">
</div>
<div class="">Any direction for this was deeply appreciated!</div>
<div class=""><br class="">
</div>
<div class="">Best,</div>
<div class="">Jie</div>
<div class=""></div>
</div>
<div class="" style="word-wrap:break-word">
<div class=""></div>
<div class=""><br class="">
<div>
<blockquote type="cite" class="">
<div class="">On May 13, 2016, at 11:54 AM, Vijay S. Mahadevan <<a href="mailto:vijay.m@gmail.com" class="" target="_blank">vijay.m@gmail.com</a>> wrote:</div>
<br class="x_Apple-interchange-newline">
<div class="">
<div class="">I also forgot to mention that you can be more explicit in the<br class="">
specification of compilers during configuration, if you really want.<br class="">
This would avoid headaches since the user specified wrappers will<br class="">
directly be used. For example:<br class="">
<br class="">
./configure --with-mpi=/usr/local CC=/usr/local/bin/mpicc<br class="">
CXX=/usr/local/bin/mpic++ FC=/usr/local/bin/mpif90<br class="">
F77=/usr/local/bin/mpif77 <OTHER_CONFIGURE_OPTIONS><br class="">
<br class="">
Vijay<br class="">
<br class="">
On Fri, May 13, 2016 at 10:52 AM, Vijay S. Mahadevan <<a href="mailto:vijay.m@gmail.com" class="" target="_blank">vijay.m@gmail.com</a>> wrote:<br class="">
<blockquote type="cite" class="">Please use --with-mpi=/usr/local as the configure option. If you have<br class="">
MPI pre-installed, either through PETSc or natively in your system,<br class="">
always try to re-use that to maintain consistency. This will help<br class="">
avoid mix-up of MPI implementations when you try to launch a parallel<br class="">
job later.<br class="">
<br class="">
Let us know if the new configuration works.<br class="">
<br class="">
Vijay<br class="">
<br class="">
On Thu, May 12, 2016 at 6:32 PM, Jie Wu <<a href="mailto:jie.voo@gmail.com" class="" target="_blank">jie.voo@gmail.com</a>> wrote:<br class="">
<blockquote type="cite" class="">Thank you very much for your reply. I search in my src/moab/MOABConfig.h<br class="">
file, and I did not find the MOAB_HAVE_MPI. So I think the MOAB on my laptop<br class="">
cannot run in parallel yet.<br class="">
<br class="">
I have this from my terminal.<br class="">
<br class="">
dyn-160-39-10-173:moab jiewu$ which mpic++<br class="">
/usr/local/bin/mpic++<br class="">
<br class="">
But I cannot get anything by inputing which mpi. So I don’t know where the<br class="">
mpi is in my laptop.<br class="">
<br class="">
dyn-160-39-10-173:moab jiewu$ which mpi<br class="">
<br class="">
I have petsc installed which has mpich, and linking that directory to the<br class="">
MOAB configure option also did not work.<br class="">
<br class="">
Should I install mpi solely? I am afraid it might conflict with the one<br class="">
installed in petsc.<br class="">
<br class="">
Is there any method that the mpi could be installed with MOAB automatically,<br class="">
or maybe other proper manner? Thanks a lot!<br class="">
<br class="">
Best,<br class="">
Jie<br class="">
<br class="">
<br class="">
On May 12, 2016, at 6:11 PM, Vijay S. Mahadevan <<a href="mailto:vijay.m@gmail.com" class="" target="_blank">vijay.m@gmail.com</a>> wrote:<br class="">
<br class="">
Can you send the config.log. Looks like MPI is not getting enabled<br class="">
(possibly), even with --dowload-mpich. Or you can check<br class="">
src/moab/MOABConfig.h in your build directory and grep for<br class="">
MOAB_HAVE_MPI.<br class="">
<br class="">
Vijay<br class="">
<br class="">
On Thu, May 12, 2016 at 4:46 PM, Jie Wu <<a href="mailto:jie.voo@gmail.com" class="" target="_blank">jie.voo@gmail.com</a>> wrote:<br class="">
<br class="">
Hi Iulian,<br class="">
<br class="">
Thanks for your reply. I think my configure is with mpi. Here is my<br class="">
configure command<br class="">
<br class="">
dyn-160-39-10-173:moab jiewu$ ./configure --download-metis<br class="">
--download-hdf5 --download-netcdf --download-mpich --enable-docs<br class="">
--with-doxygen=/Applications/Doxygen.app/Contents/Resources/<br class="">
<br class="">
Best,<br class="">
Jie<br class="">
<br class="">
On May 12, 2016, at 5:43 PM, Grindeanu, Iulian R. <<a href="mailto:iulian@mcs.anl.gov" class="" target="_blank">iulian@mcs.anl.gov</a>><br class="">
wrote:<br class="">
<br class="">
Hi Jie,<br class="">
Did you configure with mpi? What is your configure command?<br class="">
<br class="">
Iulian<br class="">
________________________________<br class="">
From: <a href="mailto:moab-dev-bounces@mcs.anl.gov" class="" target="_blank">moab-dev-bounces@mcs.anl.gov</a> [<a href="mailto:moab-dev-bounces@mcs.anl.gov" class="" target="_blank">moab-dev-bounces@mcs.anl.gov</a>] on behalf<br class="">
of Jie Wu [<a href="mailto:jie.voo@gmail.com" class="" target="_blank">jie.voo@gmail.com</a>]<br class="">
Sent: Thursday, May 12, 2016 4:23 PM<br class="">
To: <a href="mailto:moab-dev@mcs.anl.gov" class="" target="_blank">moab-dev@mcs.anl.gov</a><br class="">
Subject: [MOAB-dev] Error message when compiling the mbcoupler_test.cpp<br class="">
<br class="">
Hi all,<br class="">
<br class="">
My name is Jie and I am part of computational mechanics group at civil<br class="">
engineering dept. of Columbia university.<br class="">
<br class="">
I am working on large deformation problems which may lead mesh distortions<br class="">
and a re-meshing become necessary.<br class="">
<br class="">
I would like to compile mbcoupler_test.cpp to learn how it transfer the<br class="">
variables from old to the new mesh.<br class="">
<br class="">
Now I can successfully compile the codes in build/examples and they works<br class="">
good! But I cannot compile the codes in folder build/tools/mbcoupler by<br class="">
following the instructions in build/tools/readme.tools, which shows error<br class="">
message like following.<br class="">
<br class="">
Do you have any idea for this problem? Thanks a lot!<br class="">
<br class="">
Best,<br class="">
Jie<br class="">
<br class="">
DataCoupler.cpp:136:25: error: member access into incomplete<br class="">
type 'moab::ParallelComm'<br class="">
if (myPcomm && myPcomm->size() > 1) {<br class="">
^<br class="">
./DataCoupler.hpp:34:7: note: forward declaration of<br class="">
'moab::ParallelComm'<br class="">
class ParallelComm;<br class="">
^<br class="">
DataCoupler.cpp:161:12: error: member access into incomplete<br class="">
type 'moab::ParallelComm'<br class="">
myPcomm->proc_config().crystal_router()->gs_tran...<br class="">
^<br class="">
./DataCoupler.hpp:34:7: note: forward declaration of<br class="">
'moab::ParallelComm'<br class="">
class ParallelComm;<br class="">
^<br class="">
DataCoupler.cpp:187:12: error: member access into incomplete<br class="">
type 'moab::ParallelComm'<br class="">
myPcomm->proc_config().crystal_router()->gs_tran...<br class="">
^<br class="">
./DataCoupler.hpp:34:7: note: forward declaration of<br class="">
'moab::ParallelComm'<br class="">
class ParallelComm;<br class="">
^<br class="">
3 errors generated.<br class="">
make[2]: *** [DataCoupler.lo] Error 1<br class="">
make[2]: *** Waiting for unfinished jobs....<br class="">
Coupler.cpp:344:45: error: no member named 'gs_transfer' in<br class="">
'moab::gs_data::crystal_data'<br class="">
(myPc->proc_config().crystal_router())->gs_trans...<br class="">
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ^<br class="">
Coupler.cpp:388:45: error: no member named 'gs_transfer' in<br class="">
'moab::gs_data::crystal_data'<br class="">
(myPc->proc_config().crystal_router())->gs_trans...<br class="">
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ^<br class="">
Coupler.cpp:611:45: error: no member named 'gs_transfer' in<br class="">
'moab::gs_data::crystal_data'<br class="">
(myPc->proc_config().crystal_router())->gs_trans...<br class="">
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ^<br class="">
Coupler.cpp:638:43: error: no member named 'gs_transfer' in<br class="">
'moab::gs_data::crystal_data'<br class="">
myPc->proc_config().crystal_router()->gs_transfe...<br class="">
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ^<br class="">
4 errors generated.<br class="">
make[2]: *** [Coupler.lo] Error 1<br class="">
make[1]: *** [all-recursive] Error 1<br class="">
make: *** [all-recursive] Error 1<br class="">
<br class="">
<br class="">
<br class="">
<br class="">
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