Hi Mark!<br>Thanks for the tip I got it the mpi mdrun running on my quad core machine. I just have one small clarification. In the output file md.log I see this message <br><br>"Started mdrun at node (0)"<br><br>
I monitor my processor's load using gkrellm to see how many are running. When I started the mdrun ( mpirun -np 4 mdrun ....) I specified 4 processors and gkrellm displays the four processors running to full capacity but why does the output in md.log give the above message. <br>
I am wondering if I missed out some thing !!<br>Thanks<br>JJ<br><br><div class="gmail_quote">On Tue, Jun 16, 2009 at 2:47 PM, Mark Abraham <span dir="ltr"><<a href="mailto:Mark.Abraham@anu.edu.au">Mark.Abraham@anu.edu.au</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">jayant james wrote:<br>
<blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;"><div class="im">
Hi !!<br>
I am attempting to install mpi mdrun such that I can use all four processors of my quad core system. But I keep running into this problem!! My operating system is Suse 10.1.<br>
<br></div>
(cd .libs && rm -f <a href="http://libgmxpreprocess_mpi.la" target="_blank">libgmxpreprocess_mpi.la</a> <<a href="http://libgmxpreprocess_mpi.la" target="_blank">http://libgmxpreprocess_mpi.la</a>> && ln -s ../<a href="http://libgmxpreprocess_mpi.la" target="_blank">libgmxpreprocess_mpi.la</a> <<a href="http://libgmxpreprocess_mpi.la" target="_blank">http://libgmxpreprocess_mpi.la</a>> <a href="http://libgmxpreprocess_mpi.la" target="_blank">libgmxpreprocess_mpi.la</a> <<a href="http://libgmxpreprocess_mpi.la" target="_blank">http://libgmxpreprocess_mpi.la</a>>)<br>
make[1]: *** No rule to make target `../mdlib/<a href="http://libmd_mpi.la" target="_blank">libmd_mpi.la</a> <<a href="http://libmd_mpi.la" target="_blank">http://libmd_mpi.la</a>>', needed by `mdrun'. Stop.<div class="im">
<br>
make[1]: Leaving directory `/usr/local/gromacs-4.0.3/src/kernel'<br>
<br>
I would appreciate help/suggestions in my installation.<br>
</div></blockquote>
<br>
Don't install in root filespace. Unpack the distribution in your own home directory, configure, make, and then switch to root for "make install". Also, why bother installing a version that's months old?<br>
<br>
Mark<br>
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</blockquote></div><br><br clear="all"><br>-- <br>Jayasundar Jayant James<br><br><a href="http://www.chick.com/reading/tracts/0096/0096_01.asp">www.chick.com/reading/tracts/0096/0096_01.asp</a>) <br><br>