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I checked the configure command line used.
<div class="">While debugging this issue, I suggest you to remove</div>
<div class="">"--with-mpi --enable-large-single-req" from the configure command.</div>
<div class=""><br class="">
</div>
<div class="">Option --with-mpi was designed to let users to provide the</div>
<div class="">path of MPI installation, e.g. --with-mpi=/usr/local</div>
<div class=""><br class="">
</div>
<div class="">Use option --enable-large-single-req is when the underlying</div>
<div class="">MPI-IO supports reading and writing more than 2GiB in a</div>
<div class="">single call (i.e. MPI_File_read and MPI_File_write call.)</div>
<div class=""><br class="">
<div class="">Wei-keng </div>
<div><br class="">
<blockquote type="cite" class="">
<div class="">On Oct 24, 2021, at 4:07 PM, Carl Ponder <<a href="mailto:cponder@nvidia.com" class="">cponder@nvidia.com</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class=""><br style="caret-color: rgb(0, 0, 0); font-family: Monaco; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class="">
<span style="caret-color: rgb(0, 0, 0); font-family: Monaco; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;" class="">I
attached the<span class="Apple-converted-space"> </span></span><font face="monospace" style="caret-color: rgb(0, 0, 0); font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class="">config.log</font><span style="caret-color: rgb(0, 0, 0); font-family: Monaco; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;" class=""><span class="Apple-converted-space"> </span>here,
but it doesn't show the steps used in the<span class="Apple-converted-space"> </span></span><font face="monospace" style="caret-color: rgb(0, 0, 0); font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class="">mpicc</font><span style="caret-color: rgb(0, 0, 0); font-family: Monaco; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;" class="">checking:</span><br style="caret-color: rgb(0, 0, 0); font-family: Monaco; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class="">
<blockquote style="caret-color: rgb(0, 0, 0); font-family: Monaco; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class="">
<font face="monospace" class="">configure:4284: result: /usr/bin/sed -i''</font><br class="">
<b class=""><font face="monospace" class="">configure:4682: checking mpicc under yes</font></b><br class="">
<font face="monospace" class="">configure:4689: result: no</font><br class="">
<font face="monospace" class="">configure:4772: error:<span class="Apple-converted-space"> </span></font><br class="">
<font face="monospace" class=""> -----------------------------------------------------------------------</font><br class="">
<font face="monospace" class=""> Specified MPI C compiler "mpicc" cannot be found under yes</font><br class="">
<font face="monospace" class=""> PnetCDF requires a working MPI C compiler. Please specify the location</font><br class="">
<font face="monospace" class=""> of an MPI C compiler, either in the MPICC environment variable</font><br class="">
<font face="monospace" class=""> (not CC variable) or through --with-mpi configure flag. Abort.</font><br class="">
<font face="monospace" class=""> -----------------------------------------------------------------------</font><br class="">
</blockquote>
<span style="caret-color: rgb(0, 0, 0); font-family: Monaco; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;" class="">The
command-line I used was</span><br style="caret-color: rgb(0, 0, 0); font-family: Monaco; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class="">
<blockquote style="caret-color: rgb(0, 0, 0); font-family: Monaco; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class="">
<font face="monospace" class="">./configure --prefix=/usr/local --enable-shared --with-mpi --enable-large-single-req<span class="Apple-converted-space"> </span></font><br class="">
</blockquote>
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<th valign="BASELINE" nowrap="nowrap" align="RIGHT" class="">Subject:</th>
<td class="">Re: Path oddity in PNetCDF build/configure</td>
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<th valign="BASELINE" nowrap="nowrap" align="RIGHT" class="">Date:<span class="Apple-converted-space"> </span></th>
<td class="">Sun, 24 Oct 2021 19:22:06 +0000</td>
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<th valign="BASELINE" nowrap="nowrap" align="RIGHT" class="">From:<span class="Apple-converted-space"> </span></th>
<td class="">Wei-Keng Liao<span class="Apple-converted-space"> </span><a class="moz-txt-link-rfc2396E" href="mailto:wkliao@northwestern.edu"><wkliao@northwestern.edu></a></td>
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<th valign="BASELINE" nowrap="nowrap" align="RIGHT" class="">To:<span class="Apple-converted-space"> </span></th>
<td class="">Carl Ponder<span class="Apple-converted-space"> </span><a class="moz-txt-link-rfc2396E" href="mailto:cponder@nvidia.com"><cponder@nvidia.com></a></td>
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<th valign="BASELINE" nowrap="nowrap" align="RIGHT" class="">CC:<span class="Apple-converted-space"> </span></th>
<td class="">Bruno Pagani<span class="Apple-converted-space"> </span><a class="moz-txt-link-rfc2396E" href="mailto:bruno.pagani@astrophysics.eu"><bruno.pagani@astrophysics.eu></a>,<span class="Apple-converted-space"> </span><a class="moz-txt-link-abbreviated" href="mailto:parallel-netcdf@lists.mcs.anl.gov">parallel-netcdf@lists.mcs.anl.gov</a><span class="Apple-converted-space"> </span><a class="moz-txt-link-rfc2396E" href="mailto:parallel-netcdf@lists.mcs.anl.gov"><parallel-netcdf@lists.mcs.anl.gov></a></td>
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<td class=""><font size="1" face="verdana" class=""><b class="">External email: Use caution opening links or attachments</b><span class="Apple-converted-space"> </span>
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<br class="">
<div class="">Please let me know the configure command used.
<div class=""><br class="">
<div class="">Wei-keng<span class="Apple-converted-space"> </span></div>
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<th valign="BASELINE" nowrap="nowrap" align="RIGHT" class="">Subject:</th>
<td class="">Re: Path oddity in PNetCDF build/configure</td>
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<th valign="BASELINE" nowrap="nowrap" align="RIGHT" class="">Date:</th>
<td class="">Sun, 24 Oct 2021 17:06:01 +0000</td>
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<th valign="BASELINE" nowrap="nowrap" align="RIGHT" class="">From:</th>
<td class="">Wei-Keng Liao<span class="Apple-converted-space"> </span><a class="moz-txt-link-rfc2396E" href="mailto:wkliao@northwestern.edu"><wkliao@northwestern.edu></a></td>
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<th valign="BASELINE" nowrap="nowrap" align="RIGHT" class="">To:</th>
<td class="">Carl Ponder<span class="Apple-converted-space"> </span><a class="moz-txt-link-rfc2396E" href="mailto:cponder@nvidia.com"><cponder@nvidia.com></a></td>
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<th valign="BASELINE" nowrap="nowrap" align="RIGHT" class="">CC:</th>
<td class=""><a class="moz-txt-link-abbreviated" href="mailto:parallel-netcdf@lists.mcs.anl.gov">parallel-netcdf@lists.mcs.anl.gov</a><span class="Apple-converted-space"> </span><a class="moz-txt-link-rfc2396E" href="mailto:parallel-netcdf@lists.mcs.anl.gov"><parallel-netcdf@lists.mcs.anl.gov></a></td>
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<td class=""><font size="1" face="verdana" class=""><b class="">External email: Use caution opening links or attachments</b><span class="Apple-converted-space"> </span>
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<div class="">Hi, Carl
<div class=""><br class="">
</div>
<div class="">Please send me the file config.log.</div>
<div class=""><br class="">
<div class="">Wei-keng<span class="Apple-converted-space"> </span></div>
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<blockquote type="cite" class="">
<div class="">On Oct 24, 2021, at 1:29 PM, Carl Ponder <<a href="mailto:cponder@nvidia.com" class="" moz-do-not-send="true">cponder@nvidia.com</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
<div class=""><br class="">
<div class="moz-forward-container">This is in a Dockerfile rather than my usual bash scripting.<br class="">
Here's the<span class="Apple-converted-space"> </span><font class="" face="monospace">PATH</font><span class="Apple-converted-space"> </span>being printed during the build<br class="">
<blockquote class=""><font class="" face="monospace">Step 95/156 : RUN echo ${PATH}</font><br class="">
<font class="" face="monospace"> ---> Running in 8586a4aef68a</font><br class="">
<font class="" face="monospace">/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/bin:/usr/local/cuda/bin:/usr/local/pgi/Linux_x86_64/21.9/com</font><font class="" face="monospace">pilers/bin</font><br class="">
</blockquote>
And the<span class="Apple-converted-space"> </span><font class="" face="monospace">mpicc</font><span class="Apple-converted-space"> </span>location tests correctly:<br class="">
<blockquote class=""><font class="" face="monospace">Step 95/155 : RUN which mpicc</font><br class="">
<font class="" face="monospace"> ---> Running in e2161d554278</font><br class="">
<b class=""><font class="" face="monospace">/usr/local/bin/mpicc</font></b><br class="">
</blockquote>
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<th class="" valign="BASELINE" nowrap="nowrap" align="RIGHT">Subject:<span class="Apple-converted-space"> </span></th>
<td class="">Re: Path oddity in PNetCDF build/configure</td>
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<th class="" valign="BASELINE" nowrap="nowrap" align="RIGHT">Date:<span class="Apple-converted-space"> </span></th>
<td class="">Sun, 24 Oct 2021 16:32:42 +0400</td>
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<th class="" valign="BASELINE" nowrap="nowrap" align="RIGHT">From:<span class="Apple-converted-space"> </span></th>
<td class="">Bruno Pagani<span class="Apple-converted-space"> </span><a class="moz-txt-link-rfc2396E" href="mailto:bruno.pagani@astrophysics.eu" moz-do-not-send="true"><bruno.pagani@astrophysics.eu></a></td>
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<th class="" valign="BASELINE" nowrap="nowrap" align="RIGHT">To:<span class="Apple-converted-space"> </span></th>
<td class="">Carl Ponder<span class="Apple-converted-space"> </span><a class="moz-txt-link-rfc2396E" href="mailto:cponder@nvidia.com" moz-do-not-send="true"><cponder@nvidia.com></a>, Wei-keng Liao<span class="Apple-converted-space"> </span><a class="moz-txt-link-rfc2396E" href="mailto:wkliao@eecs.northwestern.edu" moz-do-not-send="true"><wkliao@eecs.northwestern.edu></a></td>
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<th class="" valign="BASELINE" nowrap="nowrap" align="RIGHT">CC:<span class="Apple-converted-space"> </span></th>
<td class=""><a class="moz-txt-link-abbreviated" href="mailto:parallel-netcdf@lists.mcs.anl.gov" moz-do-not-send="true">parallel-netcdf@lists.mcs.anl.gov</a></td>
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<td class=""><font class="" size="1" face="verdana"><b class="">External email: Use caution opening links or attachments</b><span class="Apple-converted-space"> </span>
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<div class="">How do you set PATH? Did you quote it? Seems somehow your path end up being yes, likely due to expansion of its previous value.<br class="">
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<div class="gmail_quote">Le 24 octobre 2021 16:30:03 GMT+04:00, Carl Ponder<span class="Apple-converted-space"> </span><a class="moz-txt-link-rfc2396E" href="mailto:cponder@nvidia.com" moz-do-not-send="true"><cponder@nvidia.com></a><span class="Apple-converted-space"> </span>a
écrit :
<blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left-width: 1px; border-left-style: solid; border-left-color: rgb(204, 204, 204); padding-left: 1ex;">
When I build PNetCDF with<span class="Apple-converted-space"> </span><font class="" face="monospace">MPICC=mpicc</font><span class="Apple-converted-space"> </span>and<span class="Apple-converted-space"> </span><font class="" face="monospace">mpicc</font><span class="Apple-converted-space"> </span>on
my<font class="" face="monospace"><span class="Apple-converted-space"> </span>$PATH</font>, I see this during the<span class="Apple-converted-space"> </span><font class="" face="monospace">configure</font><span class="Apple-converted-space"> </span>phase:<font class="" face="monospace"><br class="">
</font>
<blockquote class=""><font class="" face="monospace">ENV PATH=${PATH}:/usr/local/bin<br class="">
ENV MPICC mpicc<br class="">
...<br class="">
checking for sed handling option -i ... /usr/bin/sed -i''<br class="">
<b class="">checking mpicc under yes... no</b></font><br class="">
<font class="" face="monospace">configure: error:<span class="Apple-converted-space"> </span></font><br class="">
<font class="" face="monospace"> -----------------------------------------------------------------------</font><br class="">
<font class="" face="monospace"> Specified MPI C compiler "mpicc" cannot be found under yes</font><br class="">
<font class="" face="monospace"> PnetCDF requires a working MPI C compiler. Please specify the location</font><br class="">
<font class="" face="monospace"> of an MPI C compiler, either in the MPICC environment variable</font><br class="">
<font class="" face="monospace"> (not CC variable) or through --with-mpi configure flag. Abort.</font><br class="">
<font class="" face="monospace"> -----------------------------------------------------------------------</font><br class="">
</blockquote>
I can work around it by making the path absolute<br class="">
<blockquote class=""><font class="" face="monospace">ENV MPICC /usr/local/bin/mpicc<br class="">
...</font><font class="" face="monospace"><br class="">
</font><font class="" face="monospace">checking for sed handling option -i ... /usr/bin/sed -i''<br class="">
<b class="">checking whether /usr/local/bin/mpicc exists and is executable... yes</b><br class="">
</font></blockquote>
But, based on the first message, I'm thinking there's an incorrect path-search during the<span class="Apple-converted-space"> </span><font class="" face="monospace">configure</font><span class="Apple-converted-space"> </span>phase.<br class="">
This is with PNetCDF 1.12.2.<br class="">
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<span id="cid:277B3596-96B4-43CC-80BD-7B0E5F30D58C"><config.log></span></div>
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