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<p>Wei-keng</p>
<p><br>
</p>
<p>I looked at some of the netcdf output files from my test run of the ocean model and the results are comparable to the output files sent to me by the model master, other than some minor differences which are no doubt due to running on different machines,
os, and compilers.</p>
<p><br>
</p>
<p>Best regards,</p>
<p>Steve<br>
</p>
<p><br>
</p>
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<div style="font-family:Tahoma; font-size:13px">Steve Brenner, Professor<br>
Department of Geography and Environment<br>
Bar Ilan University<br>
Ramat Gan, Israel<br>
<br>
Phone: +972 3 5318973<br>
Secretary: +972 3 531 8340<br>
Fax: +972 3 7384033<br>
<br>
E-mail: steve.brenner@biu.ac.il<br>
Web site: geoenv.biu.ac.il/en/Steve_Brenner<br>
<br>
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<div id="x_divRplyFwdMsg" dir="ltr"><font style="font-size:11pt" color="#000000" face="Calibri, sans-serif"><b>From:</b> Wei-keng Liao <wkliao@eecs.northwestern.edu><br>
<b>Sent:</b> Thursday, June 8, 2017 18:59<br>
<b>To:</b> Steve Brenner<br>
<b>Cc:</b> sbrenner@mail.biu.ac.il; parallel-netcdf@mcs.anl.gov<br>
<b>Subject:</b> Re: [pnetcdf-devel] [parallel-netcdf] #31: Problem installing pnetcdf on 64 bit Ubuntu machine with intel compilers</font>
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<div class="PlainText">Hi, Steve<br>
<br>
The error you encountered is actually a bug in Makefile.in.<br>
The file pnetcdf_pc should be in DIST_GARBAGE, not GARBAGE.<br>
I have committed a fix to the PnetCDF repo. Below is a patch.<br>
Thanks for your testing. Please let me know if the patch works<br>
for you and if you have further questions.<br>
<br>
--- Makefile.in (revision 2963)<br>
+++ Makefile.in (working copy)<br>
@@ -28,13 +28,14 @@<br>
benchmarks \<br>
examples<br>
<br>
-GARBAGE = pnetcdf_pc<br>
+GARBAGE =<br>
<br>
DIST_GARBAGE = config.cache \<br>
config.status \<br>
config.log \<br>
macros.make \<br>
stamp-h \<br>
+ pnetcdf_pc \<br>
pnetcdf.pc \<br>
pnetcdf-config \<br>
check_install<br>
<br>
Wei-keng<br>
<br>
On Jun 8, 2017, at 4:09 AM, Steve Brenner wrote:<br>
<br>
> Wei-keng<br>
> <br>
> I have done a bit more digging and tried building it again but this time instead of using CC=icc CXX=icpc FC=ifort I now used CC=mpicc CXX=mpicxx MPIF90=mpifort which it picks up from /usr/local/bin. It now completes the build and the two tests (make check
and make ptest). When I ran make install it appears to run except for the last few steps where it says<br>
> <br>
> rm -f pnetcdf.pc<br>
> sed -e "s%INSTALL_PREFIX%/usr/local%g" pnetcdf_pc > pnetcdf.pc<br>
> sed: can't read pnetcdf_pc: No such file or directory<br>
> Makefile:147: recipe for target 'install_PKGCONFIG' failed<br>
> make: *** [install_PKGCONFIG] Error 2<br>
> <br>
> When I look in /usr/local/include and /usr/local/lib the pnetcdf file are there. I will try running a test code tomorrow.<br>
> <br>
> Best regards<br>
> <br>
> Steve Brenner, Professor<br>
> Department of Geography and Environment<br>
> Bar Ilan University<br>
> Ramat Gan, Israel<br>
> <br>
> Phone: +972 3 5318973<br>
> Secretary: +972 3 531 8340<br>
> Fax: +972 3 7384033<br>
> <br>
> E-mail: steve.brenner@biu.ac.il<br>
> Web site: geoenv.biu.ac.il/en/Steve_Brenner<br>
> <br>
> <br>
> <br>
> From: Wei-keng Liao <wkliao@eecs.northwestern.edu><br>
> Sent: Thursday, June 8, 2017 10:09<br>
> To: sbrenner@mail.biu.ac.il<br>
> Cc: parallel-netcdf@mcs.anl.gov<br>
> Subject: Re: [pnetcdf-devel] [parallel-netcdf] #31: Problem installing pnetcdf on 64 bit Ubuntu machine with intel compilers<br>
> <br>
> I do not have access to the exactly same environment, but just now built<br>
> PnetCDF 1.8.1 on an x86_64 with Ubuntu 14.04, using mpich 3.2. built with<br>
> icc/ifort 16.0.3 and 17.0.2. The build was successful.<br>
> <br>
> If the build hung at the compile time, then I would guess it most likely<br>
> is an issue of the compiler. Can check your MPI fortran compiler to<br>
> make sure it compiles other F90 programs without problems.<br>
> <br>
> Wei-keng<br>
> <br>
> On Jun 8, 2017, at 12:48 AM, parallel-netcdf wrote:<br>
> <br>
> > #31: Problem installing pnetcdf on 64 bit Ubuntu machine with intel compilers<br>
> > -------------------------------------+--------------------------------------<br>
> > Reporter: sbrenner@… | Owner: robl <br>
> > Type: defect/bug | Status: new <br>
> > Priority: major | Milestone: <br>
> > Component: parallel-netcdf | Version: 1.8.1<br>
> > Keywords: | <br>
> > -------------------------------------+--------------------------------------<br>
> > I am trying to install pnetcdf on a i7 machine running Ubuntu linux 16.04<br>
> > with the intel 2017 c, c++ and fortran compliers. It configues ok but in<br>
> > the make step it hangs when trying to compile pnetcdf.f90 (no error is<br>
> > returned, it simple is stuck in the compilation step). I have tried both<br>
> > versions 1.8.1 and 1.7.0. Any suggestions?<br>
> > <br>
> > -- <br>
> > Ticket URL: <<a href="http://trac.mcs.anl.gov/projects/parallel-netcdf/ticket/31" id="LPlnk377860" previewremoved="true">http://trac.mcs.anl.gov/projects/parallel-netcdf/ticket/31</a>><br>
> > parallel-netcdf <<a href="https://trac.mcs.anl.gov/projects/parallel-netcdf" id="LPlnk558474" previewremoved="true">https://trac.mcs.anl.gov/projects/parallel-netcdf</a>>
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<a id="LPUrlAnchor_14969541399180.2798018459932825" style="text-decoration: none;" href="https://trac.mcs.anl.gov/projects/parallel-netcdf" target="_blank">Parallel netCDF: A Parallel I/O Library for NetCDF File Access</a></div>
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trac.mcs.anl.gov</div>
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Parallel netCDF: A Parallel I/O Library for NetCDF File Access. Parallel netCDF (PnetCDF) is jointly developed by Northwestern University and Argonne National Laboratory.</div>
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> Parallel netCDF: A Parallel I/O Library for NetCDF File Access<br>
> trac.mcs.anl.gov<br>
> Parallel netCDF: A Parallel I/O Library for NetCDF File Access. Parallel netCDF (PnetCDF) is jointly developed by Northwestern University and Argonne National Laboratory.<br>
> <br>
> > <br>
> > _______________________________________________<br>
> > pnetcdf-devel mailing list<br>
> > pnetcdf-devel@lists.mcs.anl.gov<br>
> > <a href="https://lists.mcs.anl.gov/mailman/listinfo/pnetcdf-devel" id="LPlnk969276" previewremoved="true">
https://lists.mcs.anl.gov/mailman/listinfo/pnetcdf-devel</a><br>
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