<html><body><div style="color:#000; background-color:#fff; font-family:HelveticaNeue, Helvetica Neue, Helvetica, Arial, Lucida Grande, sans-serif;font-size:12pt"><div><span>I tried what you suggested and got the following error (configure .log attached):</span></div><div><span>**************</span></div><div><span>sh: <br>ERROR while running executable: Could not execute "/tmp/petsc-cd5uJs/config.setCompilers/conftest":<br>/tmp/petsc-cd5uJs/config.setCompilers/conftest: error while loading shared libraries: /apps/compilers/intel_2013/impi/4.1.0.024/intel64/lib/libmpi.so.4: requires glibc 2.5 or later dynamic linker<br>******************</span></div><div><span></span> </div><div><span>What can I do about this?</span></div><div><span></span> </div><div><span>Thanks,</span></div><div><span>Qin</span></div><div><br></div> <div style="font-family: HelveticaNeue, Helvetica Neue, Helvetica, Arial, Lucida Grande, sans-serif; font-size: 12pt;"> <div
style="font-family: HelveticaNeue, Helvetica Neue, Helvetica, Arial, Lucida Grande, sans-serif; font-size: 12pt;"> <div dir="ltr"> <div style="margin: 5px 0px; padding: 0px; border: 1px solid rgb(204, 204, 204); height: 0px; line-height: 0; font-size: 0px;" class="hr" contentEditable="false" readonly="true"></div> <font size="2" face="Arial"> <b><span style="font-weight: bold;">From:</span></b> Barry Smith <bsmith@mcs.anl.gov><br> <b><span style="font-weight: bold;">To:</span></b> Qin Lu <lu_qin_2000@yahoo.com> <br><b><span style="font-weight: bold;">Cc:</span></b> petsc-users <petsc-users@mcs.anl.gov> <br> <b><span style="font-weight: bold;">Sent:</span></b> Saturday, March 22, 2014 11:46 AM<br> <b><span style="font-weight: bold;">Subject:</span></b> Re: [petsc-users] Building PETSc with Intel mpi<br> </font> </div> <div class="y_msg_container"><br><br clear="none">On Mar 22, 2014, at 10:15 AM, Qin Lu <<a
href="mailto:lu_qin_2000@yahoo.com" shape="rect" ymailto="mailto:lu_qin_2000@yahoo.com">lu_qin_2000@yahoo.com</a>> wrote:<br clear="none"><br clear="none">> The Intel mpi's wrappers to Intel compilers are mpiicc and mpiifort (not mpicc and mpif90), can PETSc's configure automatically pick them? Or I have to specify them explicitly (--with-cc=mpiicc --with-fc=mpiifort --with-mpi-compilers=0)?<br clear="none"> <br clear="none"> List <br clear="none"><br clear="none"> --with-cc=mpiicc --with-fc=mpiifort <br clear="none"><br clear="none"> do not list --with-mpi-compilers=0 or —with-mpi-dir or —with-mpi-libs<br clear="none"><br clear="none"> Barry<div id="yqtfd41762" class="yqt8383760387"><br clear="none"><br clear="none"><br clear="none"><br clear="none">> <br clear="none">> Thanks,<br clear="none">> Qin<br clear="none">> <br clear="none">> From: Satish Balay <<a href="mailto:balay@mcs.anl.gov"
shape="rect" ymailto="mailto:balay@mcs.anl.gov">balay@mcs.anl.gov</a>><br clear="none">> To: Qin Lu <<a href="mailto:lu_qin_2000@yahoo.com" shape="rect" ymailto="mailto:lu_qin_2000@yahoo.com">lu_qin_2000@yahoo.com</a>> <br clear="none">> Cc: Barry Smith <<a href="mailto:bsmith@mcs.anl.gov" shape="rect" ymailto="mailto:bsmith@mcs.anl.gov">bsmith@mcs.anl.gov</a>>; petsc-users <<a href="mailto:petsc-users@mcs.anl.gov" shape="rect" ymailto="mailto:petsc-users@mcs.anl.gov">petsc-users@mcs.anl.gov</a>> <br clear="none">> Sent: Saturday, March 22, 2014 12:09 AM<br clear="none">> Subject: Re: [petsc-users] Building PETSc with Intel mpi<br clear="none">> <br clear="none">> > --with-mpi-dir=/apps/compilers/intel_2013/impi/4.1.0.024/intel64 --with-mpi-compilers=0<br clear="none">> <br clear="none">> Does this mpi not come with mpicc/mpif90 wrappers? If they do - its best to use them.<br clear="none">> <br
clear="none">> If not - its best to look at the docs for this compiler - and specify it with the appropriate<br clear="none">> <br clear="none">> --with-mpi-include --with-mpi-lib options, [instead of the above]<br clear="none">> <br clear="none">> Satish<br clear="none">> <br clear="none">> On Fri, 21 Mar 2014, Qin Lu wrote:<br clear="none">> <br clear="none">> > Sourcing the .csh files of the compiler fixed the problem. Thanks! However, later it got another error (see the attached configure.log for details):<br clear="none">> > <br clear="none">> > *******************************************************************************<br clear="none">> > UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log for details):<br clear="none">> > -------------------------------------------------------------------------------<br clear="none">> >
Fortran error! mpi_init() could not be located!<br clear="none">> > *******************************************************************************<br clear="none">> > <br clear="none">> > It seems the configure did not link the Intel MPI libs. I used --with-mpi-dir to specify the MPI directory, can configure get the correct Intel MPI lib names? If I have to specify the lib names (using --with-mpi-lib?), which libs should I specify? I saw a lot of libs under the directory, such as libmpi.a, libmpi_ipl64.a, libmpi_mt.a, etc. <br clear="none">> > <br clear="none">> > Thanks a lot,<br clear="none">> > Qin<br clear="none">> > <br clear="none">> > <br clear="none">> > ________________________________<br clear="none">> > From: Barry Smith <<a href="mailto:bsmith@mcs.anl.gov" shape="rect" ymailto="mailto:bsmith@mcs.anl.gov">bsmith@mcs.anl.gov</a>><br clear="none">> > To:
Qin Lu <<a href="mailto:lu_qin_2000@yahoo.com" shape="rect" ymailto="mailto:lu_qin_2000@yahoo.com">lu_qin_2000@yahoo.com</a>> <br clear="none">> > Cc: petsc-users <<a href="mailto:petsc-users@mcs.anl.gov" shape="rect" ymailto="mailto:petsc-users@mcs.anl.gov">petsc-users@mcs.anl.gov</a>> <br clear="none">> > Sent: Friday, March 21, 2014 10:11 AM<br clear="none">> > Subject: Re: [petsc-users] Building PETSc with Intel mpi<br clear="none">> > <br clear="none">> > <br clear="none">> > <br clear="none">> > Did you follow the directions here: <a href="http://www.mcs.anl.gov/petsc/documentation/faq.html#libimf" shape="rect" target="_blank">http://www.mcs.anl.gov/petsc/documentation/faq.html#libimf</a><br clear="none">> > <br clear="none">> > Did it make any difference?<br clear="none">> > <br clear="none">> > <br clear="none">> > On Mar 21, 2014, at 9:45 AM,
Qin Lu <<a href="mailto:lu_qin_2000@yahoo.com" shape="rect" ymailto="mailto:lu_qin_2000@yahoo.com">lu_qin_2000@yahoo.com</a>> wrote:<br clear="none">> > <br clear="none">> > > Hello,<br clear="none">> > > <br clear="none">> > > I was trying to build PETSc-3.4.2 with Intel MPI using Intel-2013 compilers in Linux, but got the error below. The configure.log is attached.<br clear="none">> > > <br clear="none">> > > *******************************************************************************<br clear="none">> > > UNABLE to EXECUTE BINARIES for ./configure <br clear="none">> > > -------------------------------------------------------------------------------<br clear="none">> > > Cannot run executables created with FC. If this machine uses a batch system <br clear="none">> > > to
submit jobs you will need to configure using ./configure with the additional option --with-batch.<br clear="none">> > > Otherwise there is problem with the compilers. Can you compile and run code with your C/C++ (and maybe Fortran) compilers?<br clear="none">> > > See <a href="http://www.mcs.anl.gov/petsc/documentation/faq.html#libimf" shape="rect" target="_blank">http://www.mcs.anl.gov/petsc/documentation/faq.html#libimf</a><br clear="none">> > > *******************************************************************************<br clear="none">> > > <br clear="none">> > > Thanks a lot for any suggestions abut the problem,<br clear="none">> > > <br clear="none">> > > Regards,<br clear="none">> > > Qin<br clear="none">> > <br clear="none">> > > <br clear="none">> > > <configure.log><br clear="none">> > <br
clear="none">> <br clear="none">> <br clear="none"></div><br><br></div> </div> </div> </div></body></html>