It does not. The command returns what looks like a prompt (>) and stays
suspended that way, but no output is written to test.out in the
Test_Parallel folder.
Maria C. Milletti
Professor of Chemistry
503A Science Complex
Eastern Michigan University
(734) 487-1183
On Tue, Sep 19, 2017 at 1:26 PM, Daniel Roe <daniel.r.roe.gmail.com> wrote:
> OK - in that case the next step would be to try testing an individual
> program.
>
> $ cd $AMBERHOME/AmberTools/src/cpptraj/test/Test_Parallel
> $ DO_PARALLEL='mpirun -n 2' ./RunTest.sh
>
> See if that succeeds.
>
> -Dan
>
> On Tue, Sep 19, 2017 at 11:53 AM, Maria Clelia Milletti
> <mmilletti.emich.edu> wrote:
> > I do get
> > Hello
> > Hello
> >
> > Maria C. Milletti
> > Professor of Chemistry
> > 503A Science Complex
> > Eastern Michigan University
> > (734) 487-1183
> >
> > On Tue, Sep 19, 2017 at 10:42 AM, Daniel Roe <daniel.r.roe.gmail.com>
> wrote:
> >
> >> The errors in your log have to do with MPI, not with Amber itself. Are
> >> you able to use MPI to run a program at all? E.g.
> >>
> >> mpirun -n 2 echo Hello
> >>
> >> If the output is not just:
> >>
> >> Hello
> >> Hello
> >>
> >> then there is something wrong with the MPI installation on your machine.
> >>
> >> -Dan
> >>
> >> On Tue, Sep 19, 2017 at 10:35 AM, Maria Clelia Milletti
> >> <mmilletti.emich.edu> wrote:
> >> > Thank you, that worked.
> >> > I am now trying to install the parallel version on a different
> machine,
> >> > older but also a 12-core MacPro running OS 12.10.6
> >> > The ./configure -mpi gnu in $AMBERHOME is successful, but when I 'make
> >> > test', every test fails. I have attached the diff and log files.
> >> > Any help is greatly appreciated.
> >> >
> >> > Maria C. Milletti
> >> > Professor of Chemistry
> >> > 503A Science Complex
> >> > Eastern Michigan University
> >> > (734) 487-1183
> >> >
> >> > On Mon, Sep 18, 2017 at 4:33 PM, David A Case <david.case.rutgers.edu
> >
> >> > wrote:
> >> >
> >> >> On Mon, Sep 18, 2017, Maria Clelia Milletti wrote:
> >> >>
> >> >> > I'm having a problem installing the parallel version of
> >> >> > Amber16/AmberTools17 on a 12-core Intel XeonE5 MacPro (OS 10.12.6).
> >> >> > The serial installation was successful. I then downloaded mpich-3.2
> >> and
> >> >> > installed it from the AmberTools/src directory using the command
> >> >> > ./configure_mpich gnu
> >> >>
> >> >> > When I try to 'make test' I get the error
> >> >> > No rule to make target 'test'.
> >> >>
> >> >> What directory are you in when you issue this command? Note that,
> after
> >> >> running configure_mpich, you need to go back to $AMBERHOME, re-run
> >> >> configure
> >> >> with the "-mpi" option, then type "make install" followed by "make
> >> test".
> >> >>
> >> >> ....dac
> >> >>
> >> >>
> >> >> _______________________________________________
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> >> >> AMBER.ambermd.org
> >> >> http://lists.ambermd.org/mailman/listinfo/amber
> >> >>
> >> >
> >> > _______________________________________________
> >> > AMBER mailing list
> >> > AMBER.ambermd.org
> >> > http://lists.ambermd.org/mailman/listinfo/amber
> >> >
> >>
> >>
> >>
> >> --
> >> -------------------------
> >> Daniel R. Roe
> >> Laboratory of Computational Biology
> >> National Institutes of Health, NHLBI
> >> 5635 Fishers Ln, Rm T900
> >> Rockville MD, 20852
> >> https://www.lobos.nih.gov/lcb
> >>
> >> _______________________________________________
> >> AMBER mailing list
> >> AMBER.ambermd.org
> >> http://lists.ambermd.org/mailman/listinfo/amber
> >>
> > _______________________________________________
> > AMBER mailing list
> > AMBER.ambermd.org
> > http://lists.ambermd.org/mailman/listinfo/amber
>
>
>
> --
> -------------------------
> Daniel R. Roe
> Laboratory of Computational Biology
> National Institutes of Health, NHLBI
> 5635 Fishers Ln, Rm T900
> Rockville MD, 20852
> https://www.lobos.nih.gov/lcb
>
> _______________________________________________
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> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
>
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Received on Wed Sep 20 2017 - 13:00:02 PDT
