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<p>Dear Matthew,<br>
</p>
<p><br>
</p>
<p>Thanks. It went further, but now I get:<br>
</p>
<div>TESTING: configureMPIEXEC from config.packages.MPI(/zhome/academic/HLRS/pri/iprguvaz/ReFRESCO/Dev/trunk/Libs/build/petsc-3.7.5/config/BuildSystem/config/packages/MPI.py:143)</div>
<div>*******************************************************************************</div>
<div> UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log for details):</div>
<div>-------------------------------------------------------------------------------</div>
<div>Must give a default value for known-mpi-shared-libraries since executables cannot be run</div>
<div>*******************************************************************************<br>
</div>
<div><br>
</div>
<div>Last lines from the log:<br>
</div>
<div>
<div> File "./config/configure.py", line 405, in petsc_configure</div>
<div> framework.configure(out = sys.stdout)</div>
<div> File "/zhome/academic/HLRS/pri/iprguvaz/ReFRESCO/Dev/trunk/Libs/build/petsc-3.7.5/config/BuildSystem/config/framework.py", line 1090, in configure</div>
<div> self.processChildren()</div>
<div> File "/zhome/academic/HLRS/pri/iprguvaz/ReFRESCO/Dev/trunk/Libs/build/petsc-3.7.5/config/BuildSystem/config/framework.py", line 1079, in processChildren</div>
<div> self.serialEvaluation(self.childGraph)</div>
<div> File "/zhome/academic/HLRS/pri/iprguvaz/ReFRESCO/Dev/trunk/Libs/build/petsc-3.7.5/config/BuildSystem/config/framework.py", line 1060, in serialEvaluation</div>
<div> child.configure()</div>
<div> File "/zhome/academic/HLRS/pri/iprguvaz/ReFRESCO/Dev/trunk/Libs/build/petsc-3.7.5/config/BuildSystem/config/package.py", line 791, in configure</div>
<div> self.executeTest(self.checkSharedLibrary)</div>
<div> File "/zhome/academic/HLRS/pri/iprguvaz/ReFRESCO/Dev/trunk/Libs/build/petsc-3.7.5/config/BuildSystem/config/base.py", line 126, in executeTest</div>
<div> ret = test(*args,**kargs)</div>
<div> File "/zhome/academic/HLRS/pri/iprguvaz/ReFRESCO/Dev/trunk/Libs/build/petsc-3.7.5/config/BuildSystem/config/packages/MPI.py", line 135, in checkSharedLibrary</div>
<div> self.shared = self.libraries.checkShared('#include <mpi.h>\n','MPI_Init','MPI_Initialized','MPI_Finalize',checkLink = self.checkPackageLink,libraries = self.lib, defaultArg = 'known-mpi-shared-libraries', ex</div>
<div>ecutor = self.mpiexec)</div>
<div> File "/zhome/academic/HLRS/pri/iprguvaz/ReFRESCO/Dev/trunk/Libs/build/petsc-3.7.5/config/BuildSystem/config/libraries.py", line 471, in checkShared</div>
<div> if self.checkRun(defaultIncludes, body, defaultArg = defaultArg, executor = executor):</div>
<div> File "/zhome/academic/HLRS/pri/iprguvaz/ReFRESCO/Dev/trunk/Libs/build/petsc-3.7.5/config/BuildSystem/config/base.py", line 628, in checkRun</div>
<div> (output, returnCode) = self.outputRun(includes, body, cleanup, defaultArg, executor)</div>
<div> File "/zhome/academic/HLRS/pri/iprguvaz/ReFRESCO/Dev/trunk/Libs/build/petsc-3.7.5/config/BuildSystem/config/base.py", line 598, in outputRun</div>
<div> raise ConfigureSetupError('Must give a default value for '+defaultOutputArg+' since executables cannot be run')</div>
<div><br>
<span style="font-size: 12pt;">Any ideas? Something related with </span>
<div>
<div> --with-shared-libraries=0 \ </div>
<div> --with-batch=1 \</div>
<div>The first I set because it was in the cray example, and the second because aprun (the mpiexec of Cray) is not available in the frontend. <br>
</div>
</div>
<div><br>
</div>
</div>
</div>
<div>Thanks,<br>
</div>
<div><br>
</div>
<div>Guilherme V.<br>
</div>
<div style="color: rgb(33, 33, 33);"></div>
<br>
<font style="font-family:Verdana;font-size:8pt;color:#7D7D7D;font-weight:bold;">dr. ir.</font><font style="font-family:Verdana;font-size:8pt;color:#7D7D7D;font-weight:bold;">
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<div style="color: rgb(33, 33, 33);">
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<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" color="#000000" style="font-size:11pt"><b>From:</b> Matthew Knepley <knepley@gmail.com><br>
<b>Sent:</b> Tuesday, June 13, 2017 2:34 PM<br>
<b>To:</b> Vaz, Guilherme<br>
<b>Cc:</b> PETSc<br>
<b>Subject:</b> Re: [petsc-users] PETSC on Cray Hazelhen</font>
<div> </div>
</div>
<div>
<div dir="ltr">
<div class="gmail_extra">
<div class="gmail_quote">On Tue, Jun 13, 2017 at 3:48 AM, Vaz, Guilherme <span dir="ltr">
<<a href="mailto:G.Vaz@marin.nl" target="_blank">G.Vaz@marin.nl</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex; border-left:1px #ccc solid; padding-left:1ex">
<div dir="ltr" style="font-size:12pt; color:#000000; background-color:#ffffff; font-family:Calibri,Arial,Helvetica,sans-serif">
<p></p>
<p>Dear all,<br>
</p>
<p><span style="font-size:12pt">I am trying to install PETSC on a Cray XC40 system (Hazelhen) with the usual Cray wrappers for Intel compilers, with some chosen external packages and MKL libraries.</span><br>
</p>
<p>I read some threads in the mailing list about this, and I tried the petsc-3.7.5/config/examples/<wbr>arch-cray-xt6-pkgs-opt.py <wbr>configuration options. After trying this (please abstract from my own env vars),<br>
</p>
<div>CONFOPTS="--prefix=$PETSC_<wbr>INSTALL_DIR \</div>
<div> --with-cc=cc \</div>
<div> --with-cxx=CC \</div>
<div> --with-fc=ftn \</div>
<div> --with-clib-autodetect=0 \</div>
<div> --with-cxxlib-autodetect=0 \</div>
<div> --with-fortranlib-autodetect=0 \</div>
<div> --COPTFLAGS=-fast -mp \</div>
<div> --CXXOPTFLAGS=-fast -mp \</div>
<div> --FOPTFLAGS=-fast -mp \<br>
</div>
<div> --with-shared-libraries=0 \ </div>
<div> --with-batch=1 \</div>
<div> --with-x=0 \</div>
<div> --with-mpe=0 \</div>
<div> --with-debugging=0 \</div>
<div> --download-superlu_dist=$<wbr>SOURCE_DIR/$SUPERLU_SOURCE_<wbr>FILE \</div>
<div> --with-blas-lapack-dir=$<wbr>BLASDIR \</div>
<div> --download-parmetis=$SOURCE_<wbr>DIR/$PARMETIS_SOURCE_FILE \</div>
<div> --download-metis=$SOURCE_DIR/$<wbr>METIS_SOURCE_FILE \</div>
<div> --with-external-packages-dir=$<wbr>INSTALL_DIR \</div>
<div> --with-ssl=0 <span style="font-size:12pt">"</span></div>
<p><br>
</p>
<p>I get the following error:<br>
</p>
<p><br>
</p>
<div>TESTING: checkFortranLinkingCxx from config.compilers(/zhome/<wbr>academic/HLRS/pri/iprguvaz/<wbr>ReFRESCO/Dev/trunk/Libs/build/<wbr>petsc-3.7.5/config/<wbr>BuildSystem/config/compilers.<wbr>py:1097)</div>
<div>******************************<wbr>******************************<wbr>*******************</div>
<div> UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log for details):</div>
<div>------------------------------<wbr>------------------------------<wbr>-------------------</div>
<div>Fortran could not successfully link C++ objects</div>
<div>******************************<wbr>******************************<wbr>*******************</div>
<div><br>
Does it ring a bell? Any tips?</div>
</div>
</blockquote>
<div><br>
</div>
<div>You turned off autodetection, so it will not find libstdc++. That either has to be put in LIBS, or I would recommend</div>
<div><br>
</div>
<div> --with-cxx=0</div>
<div><br>
</div>
<div>since nothing you have there requires C++.</div>
<div><br>
</div>
<div> Thanks,</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">
<div dir="ltr" style="font-size:12pt; color:#000000; background-color:#ffffff; font-family:Calibri,Arial,Helvetica,sans-serif">
<div>Thanks,<br>
</div>
<div>Guilherme V.<br>
</div>
<br>
<font style="font-family:Verdana; font-size:8pt; color:#7d7d7d; font-weight:bold">dr. ir.</font><font style="font-family:Verdana; font-size:8pt; color:#7d7d7d; font-weight:bold">
</font><font style="font-family:Verdana; font-size:8pt; color:#7d7d7d; font-weight:bold">Guilherme</font><font style="font-family:Verdana; font-size:8pt; color:#7d7d7d; font-weight:bold">
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<p><u></u></p>
<u></u><u></u><u></u></div>
</blockquote>
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