<div dir="ltr">Hi Alessandro,<div><br></div><div>You might be better off contacting the HDF5 group, but since I'm also having an issue doing a local install of HDF5 (for enhanced debugging of FLASH) and I was thinking of posting here since my issue is almost certainly a silly PATH problem, here are some thoughts:</div><div><br></div><div>1. environment variables should have no spaces between the equal sign and the value:<br>NOT :<br> CC = mpicc</div><div>GOOD:<br> CC=mpicc</div><div><br></div><div>2. You'll be better off supplying absolute paths when possible. That is, what does "which mpicc" return? Use that full path. Additionally, make sure just executing "mpicc" returns something, otherwise you have a PATH issue.</div><div><br></div><div>Similarly, specify the full path of configure rather than "./configure"<br>Use $HOME rather than ~/ for the full path (or typing the full path is also fine).</div><div><br></div><div>3. I'd be surprised if you have write access to /usr. You more likely will need to set your prefix to a directory you have full control over (such as a subdirectory of your home space).<br><br>4. For further, perhaps more useful help, it would be nice if you supplied the result of "echo $PATH" as well as "ls <span style="color:rgb(0,0,0);font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif;font-size:16px">~/software/flash/hdf5-1.8.10-</span><span style="color:rgb(0,0,0);font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif;font-size:16px">patch1" (or whatever the path to your hdf5 is).</span></div><div><br></div><div>Best wishes,</div><div><div><div dir="ltr" class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><div><div dir="ltr"><div dir="ltr">--------<div>Ryan</div></div></div></div></div></div></div><br></div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Tue, Jul 9, 2024 at 6:33 AM Alessandro Ruocco <<a href="mailto:alessandro.ruocco@fsdynamics.fi">alessandro.ruocco@fsdynamics.fi</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex"><div class="msg-440490175721286826">
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Dear all,</div>
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We are trying to install FLASH on our cluster, but we are having issues when compiling HDF5 parallel. Below the loaded modules and the error message while trying to configure HDF5:</div>
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[~/software/flash/hdf5-1.8.10-patch1] (33 files, 1.1M) > module list</div>
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Currently Loaded Modulefiles:</div>
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1) null 3) toolbox/1.0 5) mpi/openmpi/1.10.7</div>
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2) uppdrag/base 4) local-soft/1.0 6) mpi/intel-mpi</div>
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[~/software/flash/hdf5-1.8.10-patch1] (33 files, 1.1M) > CC = mpicc ./configure --prefix=/usr/local/lib/HDF5-parallel --enable-parallel</div>
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-bash: CC: command not found</div>
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[~/software/flash/hdf5-1.8.10-patch1] (33 files, 1.1M) > mpicc ./configure --prefix=/usr/local/lib/HDF5-parallel --enable-parallel</div>
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./configure: file not recognized: File format not recognized</div>
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collect2: error: ld returned 1 exit status</div>
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[~/software/flash/hdf5-1.8.10-patch1] (33 files, 1.1M) > cc = mpicc ./configure --prefix=/usr/local/lib/HDF5-parallel --enable-parallel</div>
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cc: error: =: No such file or directory</div>
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cc: error: mpicc: No such file or directory</div>
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Do you have any suggestions on how to fix this?</div>
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Best regards</div>
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Alessandro</div>
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<td style="width:250px"><strong>Alessandro Ruocco</strong>, <span style="color:rgb(128,128,128)">
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