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<p class=MsoNormal><font size=2 face=Georgia><span style='font-size:11.0pt;
font-family:Georgia'>Hi <o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Georgia><span style='font-size:11.0pt;
font-family:Georgia'>If I am right, the following command in the source
directory should do the job for you<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Georgia><span style='font-size:11.0pt;
font-family:Georgia'>./configure <options><o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Georgia><span style='font-size:11.0pt;
font-family:Georgia'>make<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Georgia><span style='font-size:11.0pt;
font-family:Georgia'>make install<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Georgia><span style='font-size:11.0pt;
font-family:Georgia'>make link<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Georgia><span style='font-size:11.0pt;
font-family:Georgia'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Georgia><span style='font-size:11.0pt;
font-family:Georgia'>if you have set the path manually, then instead of trying
GMXRC, try one of the below commands<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Georgia><span style='font-size:11.0pt;
font-family:Georgia'>luck or luck_d <o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Georgia><span style='font-size:11.0pt;
font-family:Georgia'>mdrun –h or mdrun_d -h<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Georgia><span style='font-size:11.0pt;
font-family:Georgia'><o:p> </o:p></span></font></p>
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<p class=MsoNormal><font size=2 face=Impact><span style='font-size:10.0pt;
font-family:Impact'>Best Regards,<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Impact><span style='font-size:10.0pt;
font-family:Impact'>Balamurugan.R</span></font><font size=2 face=Impact><span
style='font-size:10.0pt;font-family:Impact'><o:p></o:p></span></font></p>
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<hr size=2 width="100%" align=center tabindex=-1>
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<p class=MsoNormal><b><font size=2 face=Tahoma><span style='font-size:10.0pt;
font-family:Tahoma;font-weight:bold'>From:</span></font></b><font size=2
face=Tahoma><span style='font-size:10.0pt;font-family:Tahoma'>
gmx-users-bounces@gromacs.org [mailto:gmx-users-bounces@gromacs.org] <b><span
style='font-weight:bold'>On Behalf Of </span></b>Russell Green<br>
<b><span style='font-weight:bold'>Sent:</span></b> Friday, February 09, 2007
12:43 PM<br>
<b><span style='font-weight:bold'>To:</span></b> Discussion list for GROMACS
users<br>
<b><span style='font-weight:bold'>Subject:</span></b> Re: [gmx-users] Need
basic install help please</span></font><o:p></o:p></p>
</div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Again...pardon my Linux ignorance...I'm really new to this. I found the
GMXRC in the /usr/local/gromacs/bin. There were 4 files with different
extensions. I tried the path changes...but nothing happens? Maybe I'm doing
something wrong...I went into .bash_profile with vi and entered
PATH=$PATH:/usr/local/gromacs/bin/GMXRC followed by export=PATH. I tried GMXRC'
and GMXRC.bash but nothing happens still. ???<o:p></o:p></span></font></p>
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<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'> <o:p></o:p></span></font></p>
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<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Thanks,<o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Russell Green<br>
<br>
<o:p></o:p></span></font></p>
</div>
<div>
<p class=MsoNormal><span class=gmailquote><font size=3 face="Times New Roman"><span
style='font-size:12.0pt'>On 2/9/07, <b><span style='font-weight:bold'>Russell
Green</span></b> <<a href="mailto:russellwgreen@gmail.com">russellwgreen@gmail.com</a>>
wrote:</span></font></span> <o:p></o:p></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Ok...I tried the find command and it tells me there's no such file or
directory?? Now I really don't know what to do. <o:p></o:p></span></font></p>
</div>
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<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'> <o:p></o:p></span></font></p>
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<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Russell Green<br>
<br>
<o:p></o:p></span></font></p>
</div>
<div><span id="q_110a550a08a67fb7_2">
<div>
<p class=MsoNormal><span class=gmailquote><font size=3 face="Times New Roman"><span
style='font-size:12.0pt'>On 2/9/07, <b><span style='font-weight:bold'>Russell
Green</span></b> <<a href="mailto:russellwgreen@gmail.com" target="_blank">russellwgreen@gmail.com
</a>> wrote:</span></font></span> <o:p></o:p></p>
<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Oh...I see. I will try that. I'm re-compiling it just to make sure
everything is at default.<o:p></o:p></span></font></p>
</div>
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<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'> <o:p></o:p></span></font></p>
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<div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Thanks<br>
<br>
<o:p></o:p></span></font></p>
</div>
<div>
<div>
<p class=MsoNormal><span class=gmailquote><font size=3 face="Times New Roman"><span
style='font-size:12.0pt'>On 2/9/07, <b><span style='font-weight:bold'>Mark
Abraham</span></b> <<a href="mailto:Mark.Abraham@anu.edu.au" target="_blank">Mark.Abraham@anu.edu.au
</a>> wrote:</span></font></span> <o:p></o:p></p>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'>Russell Green wrote:<br>
> Pardon my ignorance of Linux...but after remembering I did the standard<br>
> install I went searching for /usr/local/ and gromacs is definitely in <br>
> there. I typed the "which mdrun" and I just got some no-result
message.<br>
> So if the paths are my problem...do I just edit the .bash_profile in the<br>
> home/russell/ directy as I have it?<br>
<br>
If gromacs is in /usr/local/gromacs, then you want to use 'source<br>
/usr/local/gromacs/bin/GMXRC' in your .bash_profile. If that doesn't<br>
work, cd to /usr/local and do 'find * -name "GMXRC"' to find where it
is. <br>
<br>
Mark<br>
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<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
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<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><br>
<br>
<o:p></o:p></span></font></p>
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