Dear Thomas, thank you again. Symlink in /usr/lib64 is not enough, I have symlinked also in /home/stefano/opt/mpi/openmpi/1.6.4/intel/lib and, as expected, not only libimf.so but also ibirng.so and libintlc.so.5 are necessary.
Now also remote runs works, but this is only a workaround, I still not understand why mpirun do not find intel library even if LD_LIBRARY_PATH contains also /home/stefano/opt/intel/2013.4.183/lib/intel64. Can you try explain again? Thank you very much. Stefano Zaghi Ph.D. Aerospace Engineer, Research Scientist, Dept. of Computational Hydrodynamics at *CNR-INSEAN*<http://www.insean.cnr.it/en/content/cnr-insean> The Italian Ship Model Basin (+39) 06.50299297 (Office) My codes: *OFF* <https://github.com/szaghi/OFF>, Open source Finite volumes Fluid dynamics code *Lib_VTK_IO* <https://github.com/szaghi/Lib_VTK_IO>, a Fortran library to write and read data conforming the VTK standard *IR_Precision* <https://github.com/szaghi/IR_Precision>, a Fortran (standard 2003) module to develop portable codes 2013/6/21 <thomas.fo...@ulstein.com> > your settings are as following: > export MPI=/home/stefano/opt/mpi/openmpi/1.6.4/intel > export PATH=${MPI}/bin:$PATH > export LD_LIBRARY_PATH=${MPI}/lib/openmpi:${MPI}/lib:$LD_LIBRARY_PATH > export LD_RUN_PATH=${MPI}/lib/openmpi:${MPI}/lib:$LD_RUN_PATH > > and your path to libimf.so file is > /home/stefano/opt/intel/2013.4.183/lib/libimf.so > > your export LD_LIbrary_PATH if i can decude it right would be because you > use the $MPI first. > > /home/stefano/opt/mpi/openmpi/1.64./intel/lib/openmpi and > /home/stefano/opt/mpi/openmpi/1.64./intel/lib > > as you can see it doesnt look for the files int he right place. > > the simplest thing i would try is to symlink the libimf.so file to > /usr/lib64 and should give you a workaround. > > > > > > > From: Stefano Zaghi <stefano.za...@gmail.com> > To: Open MPI Users <us...@open-mpi.org>, > Date: 21.06.2013 09:45 > Subject: Re: [OMPI users] OpenMPI 1.6.4 and Intel > Composer_xe_2013.4.183: problem with remote runs, orted: error while > loading shared libraries: libimf.so > Sent by: users-boun...@open-mpi.org > ------------------------------ > > > > Dear Thomas, > > thank you very much for your very fast replay. > > Yes I have that library in the correct place: > > -rwxr-xr-x 1 stefano users 3.0M May 20 14:22 > opt/intel/2013.4.183/lib/intel64/libimf.so > > Stefano Zaghi > Ph.D. Aerospace Engineer, > Research Scientist, Dept. of Computational Hydrodynamics at > *CNR-INSEAN*<http://www.insean.cnr.it/en/content/cnr-insean> > > The Italian Ship Model Basin > (+39) 06.50299297 (Office) > My codes: > *OFF* <https://github.com/szaghi/OFF>, Open source Finite volumes Fluid > dynamics code > *Lib_VTK_IO* <https://github.com/szaghi/Lib_VTK_IO>, a Fortran library to > write and read data conforming the VTK standard > *IR_Precision* <https://github.com/szaghi/IR_Precision>, a Fortran > (standard 2003) module to develop portable codes > > > 2013/6/21 <*thomas.fo...@ulstein.com* <thomas.fo...@ulstein.com>> > hi Stefano > > your error message show that you are missing a shared library, not > necessary that library path is wrong. > > do you actually have libimf.so, can you find the file on your system. > > ./Thomas > > > > > From: Stefano Zaghi <*stefano.za...@gmail.com*<stefano.za...@gmail.com> > > > To: *us...@open-mpi.org* <us...@open-mpi.org>, > Date: 21.06.2013 09:27 > Subject: [OMPI users] OpenMPI 1.6.4 and Intel > Composer_xe_2013.4.183: problem with remote runs, orted: error while > loading shared libraries: libimf.so > Sent by: *users-boun...@open-mpi.org* <users-boun...@open-mpi.org> > ------------------------------ > > > > > Dear All, > I have compiled OpenMPI 1.6.4 with Intel Composer_xe_2013.4.183. > > My configure is: > > ./configure --prefix=/home/stefano/opt/mpi/openmpi/1.6.4/intel CC=icc > CXX=icpc F77=ifort FC=ifort > > Intel Composer has been installed in: > > /home/stefano/opt/intel/2013.4.183/composer_xe_2013.4.183 > > Into the .bashrc and .profile in all nodes there is: > > source /home/stefano/opt/intel/2013.4.183/bin/compilervars.sh intel64 > export MPI=/home/stefano/opt/mpi/openmpi/1.6.4/intel > export PATH=${MPI}/bin:$PATH > export LD_LIBRARY_PATH=${MPI}/lib/openmpi:${MPI}/lib:$LD_LIBRARY_PATH > export LD_RUN_PATH=${MPI}/lib/openmpi:${MPI}/lib:$LD_RUN_PATH > > If I run parallel job into each single node (e.g. mpirun -np 8 myprog) all > works well. However, when I tried to run parallel job in more nodes of the > cluster (remote runs) like the following: > > mpirun -np 16 --bynode --machinefile nodi.txt -x LD_LIBRARY_PATH -x > LD_RUN_PATH myprog > > I got the following error: > > /home/stefano/opt/mpi/openmpi/1.6.4/intel/bin/orted: error while loading > shared libraries: libimf.so: cannot open shared object file: No such file > or directory > > I have read many FAQs and online resources, all indicating LD_LIBRARY_PATH > as the possible problem (wrong setting). However I am not able to figure > out what is going wrong, the LD_LIBRARY_PATH seems to set right in all > nodes. > > It is worth noting that in the same cluster I have successful installed > OpenMPI 1.4.3 with Intel Composer_xe_2011_sp1.6.233 following exactly the > same procedure. > > Thank you in advance for all suggestion, > sincerely > > Stefano Zaghi > Ph.D. Aerospace Engineer, > Research Scientist, Dept. of Computational Hydrodynamics at > *CNR-INSEAN*<http://www.insean.cnr.it/en/content/cnr-insean> > > The Italian Ship Model Basin > (+39) 06.50299297 (Office) > My codes: * > **OFF* <https://github.com/szaghi/OFF>, Open source Finite volumes Fluid > dynamics code * > **Lib_VTK_IO* <https://github.com/szaghi/Lib_VTK_IO>, a Fortran library > to write and read data conforming the VTK standard > *IR_Precision* <https://github.com/szaghi/IR_Precision>, a Fortran > (standard 2003) module to develop portable codes > _______________________________________________ > users mailing list* > **us...@open-mpi.org* <us...@open-mpi.org>* > **http://www.open-mpi.org/mailman/listinfo.cgi/users*<http://www.open-mpi.org/mailman/listinfo.cgi/users> > > > > > > > > Denne e-posten kan innehalde informasjon som er konfidensiell > og/eller underlagt lovbestemt teieplikt. Kun den tiltenkte adressat har > adgang > til å lese eller vidareformidle denne e-posten eller tilhøyrande vedlegg. > Dersom De ikkje er den tiltenkte mottakar, vennligst kontakt avsendar pr > e-post, slett denne e-posten med vedlegg og makuler samtlige utskrifter og > kopiar av den. > > This e-mail may contain confidential information, or otherwise > be protected against unauthorised use. Any disclosure, distribution or > other use of the information by anyone but the intended recipient is > strictly prohibited. > If you have received this e-mail in error, please advise the sender by > immediate reply and destroy the received documents and any copies hereof. > > > PBefore > printing, think about the environment > > > > _______________________________________________ > users mailing list* > **us...@open-mpi.org* <us...@open-mpi.org>* > **http://www.open-mpi.org/mailman/listinfo.cgi/users*<http://www.open-mpi.org/mailman/listinfo.cgi/users> > _______________________________________________ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users > > > > > > > > > Denne e-posten kan innehalde informasjon som er konfidensiell > og/eller underlagt lovbestemt teieplikt. Kun den tiltenkte adressat har > adgang > til å lese eller vidareformidle denne e-posten eller tilhøyrande vedlegg. > Dersom De ikkje er den tiltenkte mottakar, vennligst kontakt avsendar pr > e-post, slett denne e-posten med vedlegg og makuler samtlige utskrifter og > kopiar av den. > > This e-mail may contain confidential information, or otherwise > be protected against unauthorised use. Any disclosure, distribution or > other use of the information by anyone but the intended recipient is > strictly prohibited. > If you have received this e-mail in error, please advise the sender by > immediate reply and destroy the received documents and any copies hereof. > > > PBefore > printing, think about the environment > > > > > _______________________________________________ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users >
