<br><br><div class="gmail_quote">On Wed, Mar 4, 2009 at 2:25 AM, 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;">
Manik Mayur wrote:<div class="Ih2E3d"><br>
<blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
<br>
<br>
On Wed, Mar 4, 2009 at 1:55 AM, Roland Schulz <<a href="mailto:roland@utk.edu" target="_blank">roland@utk.edu</a> <mailto:<a href="mailto:roland@utk.edu" target="_blank">roland@utk.edu</a>>> wrote:<br>
<br>
You will have to recompile everything:<br>
make clean<br>
make<br>
<br>
<br>
I tried that but to no avail, then I tried building static libs by removing --enable-shared in ./configure and it got compiled and installed properly.<br>
Thanks to all, as for now, its working to my need.<br>
But somehow still I feel that with openmpi-1.3, gromacs-4.0.4 and Xeon Quad core at 3.6Ghz, the processing speed which I am getting, is quite low.<br>
</blockquote>
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This comment won't help you fix the issue. You need to start by telling us why you think the speed is low, and under what conditions you are testing. If you aren't using an optimized FFT package you will get slow throughput with PME.<font color="#888888"></font><font color="#888888"></font></blockquote>
<div><font size="2"> </font><font style="color: rgb(0, 0, 0);" color="#888888" size="2"><br>Yes, I do need to run some more tests before commenting on the speed issue. However, I just found that the processor is not Xeon Quad core @ 3.6 Ghz. The output of $cat /proc/cpuinfo is:<br>
<br>-bash-2.05b$ cat /proc/cpuinfo <br>processor : 0<br>vendor_id : GenuineIntel<br>cpu family : 15<br>model : 4<br>model name : Intel(R) Xeon(TM) CPU 3.60GHz<br>stepping : 1<br>cpu MHz : 3600.248<br>
cache size : 1024 KB<br>physical id : 0<br>siblings : 2<br>runqueue : 0<br>fdiv_bug : no<br>hlt_bug : no<br>f00f_bug : no<br>coma_bug : no<br>fpu : yes<br>fpu_exception : yes<br>cpuid level : 5<br>
wp : yes<br>flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm nx lm<br>bogomips : 7182.74<br><br>processor : 1<br>vendor_id : GenuineIntel<br>
cpu family : 15<br>model : 4<br>model name : Intel(R) Xeon(TM) CPU 3.60GHz<br>stepping : 1<br>cpu MHz : 3600.248<br>cache size : 1024 KB<br>physical id : 3<br>siblings : 2<br>runqueue : 1<br>
fdiv_bug : no<br>hlt_bug : no<br>f00f_bug : no<br>coma_bug : no<br>fpu : yes<br>fpu_exception : yes<br>cpuid level : 5<br>wp : yes<br>flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm nx lm<br>
bogomips : 7182.74<br><br>processor : 2<br>vendor_id : GenuineIntel<br>cpu family : 15<br>model : 4<br>model name : Intel(R) Xeon(TM) CPU 3.60GHz<br>stepping : 1<br>cpu MHz : 3600.248<br>cache size : 1024 KB<br>
physical id : 0<br>siblings : 2<br>runqueue : 0<br>fdiv_bug : no<br>hlt_bug : no<br>f00f_bug : no<br>coma_bug : no<br>fpu : yes<br>fpu_exception : yes<br>cpuid level : 5<br>wp : yes<br>
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm nx lm<br>bogomips : 7182.74<br><br>processor : 3<br>vendor_id : GenuineIntel<br>cpu family : 15<br>
model : 4<br>model name : Intel(R) Xeon(TM) CPU 3.60GHz<br>stepping : 1<br>cpu MHz : 3600.248<br>cache size : 1024 KB<br>physical id : 3<br>siblings : 2<br>runqueue : 1<br>fdiv_bug : no<br>
hlt_bug : no<br>f00f_bug : no<br>coma_bug : no<br>fpu : yes<br>fpu_exception : yes<br>cpuid level : 5<br>wp : yes<br>flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm nx lm<br>
bogomips : 7182.74<br></font></div><br><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;"><font color="#888888">
Mark</font><div><div></div><div class="Wj3C7c"><br>
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</div></div></blockquote></div><br><br clear="all"><br>-- <br>Graduate student<br>Microfluidics Lab<br>Dept. of Mechanical Engg.<br>IIT Kharagpur<br>