thanks! Glad to help. best,
David Schneider SLAC/LCLS ________________________________________ From: users [users-boun...@lists.open-mpi.org] on behalf of Reuti [re...@staff.uni-marburg.de] Sent: Friday, August 12, 2016 12:00 PM To: Open MPI Users Subject: Re: [OMPI users] mpirun won't find programs from the PATH environment variable that are in directories that are relative paths Am 12.08.2016 um 20:34 schrieb r...@open-mpi.org: > Sorry for the delay - I had to catchup on some other things before I could > come back to checking this one. Took me awhile to track this down, but the > change is in test for master: > > https://github.com/open-mpi/ompi/pull/1958 > > Once complete, I’ll set it up for inclusion in v2.0.1 > > Thanks for reporting it! > Ralph > > >> On Jul 29, 2016, at 5:47 PM, Phil Regier <preg...@penguincomputing.com> >> wrote: >> >> If I'm reading you right, you're presently unable to do the equivalent >> (albeit probably with PATH set on a different line somewhere above) of >> >> PATH=arch/x86_64-rhel7-gcc48-opt/bin mpirun -n 1 psana >> >> I'm mildly curious whether it would help to add a leading "./" to get the >> equivalent of >> >> PATH=./arch/x86_64-rhel7-gcc48-opt/bin mpirun -n 1 psana >> >> But to be clear, I'm advocating >> >> PATH=$PWD/arch/x86_64-rhel7-gcc48-opt/bin mpirun -n 1 psana >> >> as opposed to >> >> mpirun -n 1 $PWD/arch/x86_64-rhel7-gcc48-opt/bin/psana >> >> mostly because you still get to set the path once and use it many times >> without duplicating code. >> >> >> For what it's worth, I've seen Ralph's suggestion generalized to something >> like >> >> PREFIX=$PWD/arch/x86_64-rhel7-gcc48-opt/bin mpirun -n 1 $PREFIX/psana AFAICS $PREFIX is evaluated too early. $ PREFIX=old_value $ PREFIX=foobar /bin/echo $PREFIX old_value Unless exactly this is the desired effect. -- Reuti >> >> where PREFIX might be set above in the same script, or sourced from a common >> config script or a custom environment module. I think this style appeals to >> many users on many levels. >> >> >> In any event, though, if this really is a bug that gets fixed, you've got >> lots of options. >> >> >> >> >> On Fri, Jul 29, 2016 at 5:24 PM, Schneider, David A. >> <david...@slac.stanford.edu> wrote: >> Hi, Thanks for the reply! It does look like mpirun runs from the same >> directory as where I launch it, and that the environment has the same value >> for PATH that I had before (with the relative directory in front), but of >> course, there are lots of other MPI based environment variables defined - >> maybe one of those means don't use the relative paths? >> >> Explicitly setting the path with $PWD like you say, yes, I agree that is a >> good defensive practice, but it is more cumbersome, the actually path looks >> >> mpirun -n 1 $PWD/arch/x86_64-rhel7-gcc48-opt/bin/psana >> >> best, >> >> David Schneider >> SLAC/LCLS >> ________________________________________ >> From: users [users-boun...@lists.open-mpi.org] on behalf of Phil Regier >> [preg...@penguincomputing.com] >> Sent: Friday, July 29, 2016 5:12 PM >> To: Open MPI Users >> Subject: Re: [OMPI users] mpirun won't find programs from the PATH >> environment variable that are in directories that are relative paths >> >> I might be three steps behind you here, but does "mpirun <args> pwd" show >> that all your launched processes are running in the same directory as the >> mpirun command? I assume that "mpirun <args> env" would show that your PATH >> variable is being passed along correctly, since you don't have any problems >> with absolute paths. In any event, is PATH=$PWD/dir/bin not an option? >> >> Seems to me that this last would be good practice for location-sensitive >> launches in general, though I do tend to miss things. >> >> On Fri, Jul 29, 2016 at 4:34 PM, Schneider, David A. >> <david...@slac.stanford.edu<mailto:david...@slac.stanford.edu>> wrote: >> I am finding, on linux, rhel7, with openmpi 1.8.8 and 1.10.3, that mpirun >> won't find apps that are specified on a relative path, i.e, if I have >> >> PATH=dir/bin >> >> and I am in a directory which has dir/bin as a subdirectory, and an >> executable bir/bin/myprogram, I can't do >> >> mpirun myprogram >> >> I get the error message that >> >> mpirun was unable to find the specified executable file, and therefore >> did not launch the job. >> >> whereas if I put an absolute path, something like >> >> PATH=/home/me/dir/bin >> >> then it works. >> >> This causes some problematic silent failure, sometimes we use relative >> directories to override a 'base' release, so if I had >> >> PATH=dir/bin:/central/install/dir/bin >> >> and myprogram was in both dir/bin and /central/install/dir/bin, through >> mpirun, I would be running myprogram from the central install, but otherwise >> I would run it from my own directory. >> >> Do other people find this is the case? I wonder if it is a problem that got >> introduced through our installation of openmpi. We do create relocatable >> rpm's, and I'm also trying openmpi from a conda package that is relocatable, >> I think all the prefix paths in the binary and text files were corrected >> properly for the install - at least everything else seems to work. >> >> best, >> >> David Schneider >> SLAC/LCLS >> _______________________________________________ >> users mailing list >> users@lists.open-mpi.org<mailto:users@lists.open-mpi.org> >> https://rfd.newmexicoconsortium.org/mailman/listinfo/users >> >> >> >> -- >> Phil Regier, Professional Services Engineer >> preg...@penguincomputing.com<mailto:preg...@penguincomputing.com> >> 415.954.2864 (office) >> 415.748.9056 (cell) >> _______________________________________________ >> users mailing list >> users@lists.open-mpi.org >> https://rfd.newmexicoconsortium.org/mailman/listinfo/users >> >> _______________________________________________ >> users mailing list >> users@lists.open-mpi.org >> https://rfd.newmexicoconsortium.org/mailman/listinfo/users > > _______________________________________________ > users mailing list > users@lists.open-mpi.org > https://rfd.newmexicoconsortium.org/mailman/listinfo/users _______________________________________________ users mailing list users@lists.open-mpi.org https://rfd.newmexicoconsortium.org/mailman/listinfo/users _______________________________________________ users mailing list users@lists.open-mpi.org https://rfd.newmexicoconsortium.org/mailman/listinfo/users
