[gmx-users] 'Command not found' after installation

[Nimmy McNimmerson]

Hi,

Apparently this is an issue with my intel compiler; the dynamic linker isn't finding the libiomp5.dylib library. However, I don't know how to fix this (the google results haven't worked.)

Please help,

Thanks,
John


________________________________
 From: "Barnett, James W." <jbarnet4 at tulane.edu>
To:  <nimzster at yahoo.com> 
Sent: Saturday, August 24, 2013 3:07 PM
Subject: Re: [gmx-users] 'Command not found' after installation
 

Unfortunately this is now beyond what I know with a Mac. It sounds like a library is missing that GROMACS needs, or GROMACS can't find it, which is probably a simple fix.

Perhaps someone more familiar with Mac will be able to weigh in.

jbarnet4 at tulane.edu | from mobile

<nimzster at yahoo.com> wrote:

>This gives the following:
>
>dyld: Library not loaded: libiomp5.dylib
>  Referenced from: /usr/local/gromacs/bin/g_luck
>  Reason: image not found
>Trace/BPT trap: 5
>
>If I try 'pdb2gmx', it says:
>
>dyld: Library not loaded: libiomp5.dylib
>  Referenced from: /usr/local/gromacs/bin/pdb2gmx
>  Reason: image not found
>Trace/BPT trap: 5
>
>Did the installation not work properly?
>
>
>________________________________
> From: "Barnett, James W." <jbarnet4 at tulane.edu>
>To: Nimmy McNimmerson <nimzster at yahoo.com>; Discussion list for GROMACS users <gmx-users at gromacs.org> 
>Sent: Saturday, August 24, 2013 10:42 AM
>Subject: Re: [gmx-users] 'Command not found' after installation
> 
>
>Try "g_luck". That's what has worked for me.
>
>On 08/24/2013 12:37 PM, Nimmy McNimmerson wrote:
>> Hello all,
>> I have been trying to get GROMACS (4.6.3) to work on my Mac (10.8.1). I downloaded the latest Intel C++ compilers and built Gromacs successfully (at least it appeared to be successful since I saw no error messages). I appended this line to my ~/.profile file: source /usr/local/gromacs/bin/GMXRC.bash, and restarted my terminal. Still, every time I type in a GROMACS command, such as "luck," it says "command not found." f I do echo $GMXDATA, it does return /usr/local/gromacs/share/gromacs, though.
>> Thanks,
>> John
>> 
>
>
>-- 
>Wes Barnett | jbarnet4 at tulane.edu