On 05/07/13 01:46 PM, Rick White wrote: > Idd Ray - Idd command not found
OK, then can you do this: Ray -version > type mpiexec - mpiexec is /usr/bin/mpiexec > > When I removed openmpi then exe the script (Ray exe on multithreads but the > result assemblies are different from before) > I get this: > [[email protected] <mailto:[email protected]>] > set_default_values (./ui/mpich/utils.c:1337): no executable provided > [[email protected] <mailto:[email protected]>] > HYD_uii_mpx_get_parameters (./ui/mpich/utils.c:1510): setting default values > failed > Usage: ./mpiexec [global opts] [exec1 local opts] : [exec2 local opts] : ... > Global options (passed to all executables): > > Before I got: > mpiexec (OpenRTE) 1.4.3 > > But, when I reload OpenRTE 1.4.3 or 1.5.3 it doesn't multithread any more and > runs out of memory. > > Cheers and many thanks > Rick > > > On Fri, Jul 5, 2013 at 10:37 AM, Sébastien Boisvert > <[email protected] <mailto:[email protected]>> > wrote: > > On 05/07/13 11:54 AM, Rick White wrote: > > Hello Sebastien, > > Yes, I believe we updated to ubuntu 12.04 and I had it running on > Ubuntu 11.04 or 10.04 before. > But, I have it running on ubuntu 12.04 on my new laptop same commands. > > I have tried 1.4.1 & 1.5.1 > sudo apt-get install libopenmpi-dev openmpi-bin openmpi-doc > sudo apt-get install -y autotools-dev g++ build-essential > openmpi1.5-bin openmpi1.5-doc libopenmpi1.5-dev > > either works still only fire up on a single MPI. > > I have also tried the development version you sent me. > same problem only a single MPI fires up > > > > You are probably mixing different MPI libraries together. > > Can you provide the output of these two commands: > > > > ldd Ray > > > type mpiexec > > > or I get the segmentation fault error. > > Even when I get the Ray platform up and running on the Ray Dev > version same problem. > > Still confused on how to fix it. > > Cheers and many thanks > Rick > > > > On Fri, Jul 5, 2013 at 6:16 AM, Sébastien Boisvert > <sebastien.boisvert.3@ulaval.__ca <mailto:[email protected]> > <mailto:sebastien.boisvert.3@__ulaval.ca > <mailto:[email protected]>>> wrote: > > On 04/07/13 04:29 PM, Rick White wrote: > > > > Hello Sebastien, (Ray users!) > > I had ray working quite well on our server then all the > sudden it stopped. Worked fine yesterday. > > I get this error > Ray: error while loading shared libraries: > libmpichcxx.so.1.2: cannot open shared object file: No such file or directory > > > This means that libmpichcxx.so.1.2 is no longer available in > your library path $LD_LIBRARY_PATH. > > Did you update your operating system ? > > > > I used sudo apt-get install install libcr-dev mpich2 to get > the new mpi libraries states up to date. > > > If you recompile Ray with your updated MPI library, does that > work for you ? > > I don't know what happened? > > Cheers and many thanks > Rick > -- > Richard Allen White III M.S. > PhD Candidate - Suttle Lab > Department of Microbiology & Immunology > The University of British Columbia > Vancouver, BC, Canada > cell. 604-440-5150 <tel:604-440-5150> <tel:604-440-5150 > <tel:604-440-5150>> <tel:604-440-5150 <tel:604-440-5150> <tel:604-440-5150 > <tel:604-440-5150>>> > http://www.ocgy.ubc.ca/~____suttle/ > <http://www.ocgy.ubc.ca/~__suttle/> <http://www.ocgy.ubc.ca/~__suttle/ > <http://www.ocgy.ubc.ca/~suttle/>> <http://www.ocgy.ubc.ca/%____7Esuttle/ > <http://www.ocgy.ubc.ca/%__7Esuttle/> <http://www.ocgy.ubc.ca/%__7Esuttle/ > <http://www.ocgy.ubc.ca/%7Esuttle/>>> > > > > > > > > -- > Richard Allen White III M.S. > PhD Candidate - Suttle Lab > Department of Microbiology & Immunology > The University of British Columbia > Vancouver, BC, Canada > cell. 604-440-5150 <tel:604-440-5150> <tel:604-440-5150 > <tel:604-440-5150>> > http://www.ocgy.ubc.ca/~____suttle/ > <http://www.ocgy.ubc.ca/~__suttle/> <http://www.ocgy.ubc.ca/~__suttle/ > <http://www.ocgy.ubc.ca/~suttle/>> <http://www.ocgy.ubc.ca/%____7Esuttle/ > <http://www.ocgy.ubc.ca/%__7Esuttle/> <http://www.ocgy.ubc.ca/%__7Esuttle/ > <http://www.ocgy.ubc.ca/%7Esuttle/>>> > > > > > > > > -- > Richard Allen White III M.S. > PhD Candidate - Suttle Lab > Department of Microbiology & Immunology > The University of British Columbia > Vancouver, BC, Canada > cell. 604-440-5150 <tel:604-440-5150> > http://www.ocgy.ubc.ca/~__suttle/ <http://www.ocgy.ubc.ca/~suttle/> > <http://www.ocgy.ubc.ca/%__7Esuttle/ <http://www.ocgy.ubc.ca/%7Esuttle/>> > > > > > > > -- > Richard Allen White III M.S. > PhD Candidate - Suttle Lab > Department of Microbiology & Immunology > The University of British Columbia > Vancouver, BC, Canada > cell. 604-440-5150 > http://www.ocgy.ubc.ca/~suttle/ <http://www.ocgy.ubc.ca/%7Esuttle/> > > ------------------------------------------------------------------------------ This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev _______________________________________________ Denovoassembler-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
