Hmm... To be honest I'm a novice at installing complex things, I'm a computer scientist by trade but I'm not very good at troubleshooting this kind of thing. Has anyone actually installed GROMACS on mac and what did you do? (Using the default gcc/g++ doesn't work for the AVX stuff)
________________________________ From: Mark Abraham <mark.j.abra...@gmail.com> To: Discussion list for GROMACS users <gmx-users@gromacs.org> Sent: Sunday, August 25, 2013 12:57 AM Subject: Re: [gmx-users] 'Command not found' after installation Hi, I don't have any experience with icc on Mac, but I would try either * re-reading the icc docs to see whether you should be source-ing some configuration file to set up the dynamic loading at run time (as well as at compile time), and/or * making a static build (cmake -DBUILD_SHARED_LIBS=off; but some Google hits suggests icc was broken at some point and iomp5 enforces dynamic linking, go figure!), * when you're really sure you've set up your build environment correctly, complaining at Intel (again) :-) Mark On Sun, Aug 25, 2013 at 7:18 AM, Nimmy McNimmerson <nimzs...@yahoo.com> wrote: > 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." <jbarn...@tulane.edu> > To: <nimzs...@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. > > jbarn...@tulane.edu | from mobile > > <nimzs...@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." <jbarn...@tulane.edu> >>To: Nimmy McNimmerson <nimzs...@yahoo.com>; Discussion list for GROMACS users >><gmx-users@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 | jbarn...@tulane.edu > -- > gmx-users mailing list gmx-users@gromacs.org > http://lists.gromacs.org/mailman/listinfo/gmx-users > * Please search the archive at > http://www.gromacs.org/Support/Mailing_Lists/Search before posting! > * Please don't post (un)subscribe requests to the list. Use the > www interface or send it to gmx-users-requ...@gromacs.org. > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists -- gmx-users mailing list gmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists -- gmx-users mailing list gmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
