Re: [OMPI users] srun and openmpi
Run the program only once - it can be in the prolog of the job if you like. The output value needs to be in the env of every rank. You can reuse the value as many times as you like - it doesn't have to be unique for each job. There is nothing magic about the value itself. On Dec 30, 2010, at 2:11 PM, Michael Di Domenico wrote: > How early does this need to run? Can I run it as part of a task > prolog, or does it need to be the shell env for each rank? And does > it need to run on one node or all the nodes in the job? > > On Thu, Dec 30, 2010 at 8:54 PM, Ralph Castain wrote: >> Well, I couldn't do it as a patch - proved too complicated as the psm system >> looks for the value early in the boot procedure. >> >> What I can do is give you the attached key generator program. It outputs the >> envar required to run your program. So if you run the attached program and >> then export the output into your environment, you should be okay. Looks like >> this: >> >> $ ./psm_keygen >> OMPI_MCA_orte_precondition_transports=0099b3eaa2c1547e-afb287789133a954 >> $ >> >> You compile the program with the usual mpicc. >> >> Let me know if this solves the problem (or not). >> Ralph >> >> >> >> >> On Dec 30, 2010, at 11:18 AM, Michael Di Domenico wrote: >> >>> Sure, i'll give it a go >>> >>> On Thu, Dec 30, 2010 at 5:53 PM, Ralph Castain wrote: Ah, yes - that is going to be a problem. The PSM key gets generated by mpirun as it is shared info - i.e., every proc has to get the same value. I can create a patch that will do this for the srun direct-launch scenario, if you want to try it. Would be later today, though. On Dec 30, 2010, at 10:31 AM, Michael Di Domenico wrote: > Well maybe not horray, yet. I might have jumped the gun a bit, it's > looking like srun works in general, but perhaps not with PSM > > With PSM i get this error, (at least now i know what i changed) > > Error obtaining unique transport key from ORTE > (orte_precondition_transports not present in the environment) > PML add procs failed > --> Returned "Error" (-1) instead of "Success" (0) > > Turn off PSM and srun works fine > > > On Thu, Dec 30, 2010 at 5:13 PM, Ralph Castain wrote: >> Hooray! >> >> On Dec 30, 2010, at 9:57 AM, Michael Di Domenico wrote: >> >>> I think i take it all back. I just tried it again and it seems to >>> work now. I'm not sure what I changed (between my first and this >>> msg), but it does appear to work now. >>> >>> On Thu, Dec 30, 2010 at 4:31 PM, Michael Di Domenico >>> wrote: Yes that's true, error messages help. I was hoping there was some documentation to see what i've done wrong. I can't easily cut and paste errors from my cluster. Here's a snippet (hand typed) of the error message, but it does look like a rank communications error ORTE_ERROR_LOG: A message is attempting to be sent to a process whose contact information is unknown in file rml_oob_send.c at line 145. *** MPI_INIT failure message (snipped) *** orte_grpcomm_modex failed --> Returned "A messages is attempting to be sent to a process whose contact information us uknown" (-117) instead of "Success" (0) This msg repeats for each rank, an ultimately hangs the srun which i have to Ctrl-C and terminate I have mpiports defined in my slurm config and running srun with -resv-ports does show the SLURM_RESV_PORTS environment variable getting parts to the shell On Thu, Dec 23, 2010 at 8:09 PM, Ralph Castain wrote: > I'm not sure there is any documentation yet - not much clamor for it. > :-/ > > It would really help if you included the error message. Otherwise, > all I can do is guess, which wastes both of our time :-( > > My best guess is that the port reservation didn't get passed down to > the MPI procs properly - but that's just a guess. > > > On Dec 23, 2010, at 12:46 PM, Michael Di Domenico wrote: > >> Can anyone point me towards the most recent documentation for using >> srun and openmpi? >> >> I followed what i found on the web with enabling the MpiPorts config >> in slurm and using the --resv-ports switch, but I'm getting an error >> from openmpi during setup. >> >> I'm using Slurm 2.1.15 and Openmpi 1.5 w/PSM >> >> I'm sure I'm missing a step. >> >> Thanks >> ___ >> users mailing list >> us...@open-mpi.org >> http://www.open-mpi.org/mailman/listinfo.cgi/users > > > ___
Re: [OMPI users] srun and openmpi
How early does this need to run? Can I run it as part of a task prolog, or does it need to be the shell env for each rank? And does it need to run on one node or all the nodes in the job? On Thu, Dec 30, 2010 at 8:54 PM, Ralph Castain wrote: > Well, I couldn't do it as a patch - proved too complicated as the psm system > looks for the value early in the boot procedure. > > What I can do is give you the attached key generator program. It outputs the > envar required to run your program. So if you run the attached program and > then export the output into your environment, you should be okay. Looks like > this: > > $ ./psm_keygen > OMPI_MCA_orte_precondition_transports=0099b3eaa2c1547e-afb287789133a954 > $ > > You compile the program with the usual mpicc. > > Let me know if this solves the problem (or not). > Ralph > > > > > On Dec 30, 2010, at 11:18 AM, Michael Di Domenico wrote: > >> Sure, i'll give it a go >> >> On Thu, Dec 30, 2010 at 5:53 PM, Ralph Castain wrote: >>> Ah, yes - that is going to be a problem. The PSM key gets generated by >>> mpirun as it is shared info - i.e., every proc has to get the same value. >>> >>> I can create a patch that will do this for the srun direct-launch scenario, >>> if you want to try it. Would be later today, though. >>> >>> >>> On Dec 30, 2010, at 10:31 AM, Michael Di Domenico wrote: >>> Well maybe not horray, yet. I might have jumped the gun a bit, it's looking like srun works in general, but perhaps not with PSM With PSM i get this error, (at least now i know what i changed) Error obtaining unique transport key from ORTE (orte_precondition_transports not present in the environment) PML add procs failed --> Returned "Error" (-1) instead of "Success" (0) Turn off PSM and srun works fine On Thu, Dec 30, 2010 at 5:13 PM, Ralph Castain wrote: > Hooray! > > On Dec 30, 2010, at 9:57 AM, Michael Di Domenico wrote: > >> I think i take it all back. I just tried it again and it seems to >> work now. I'm not sure what I changed (between my first and this >> msg), but it does appear to work now. >> >> On Thu, Dec 30, 2010 at 4:31 PM, Michael Di Domenico >> wrote: >>> Yes that's true, error messages help. I was hoping there was some >>> documentation to see what i've done wrong. I can't easily cut and >>> paste errors from my cluster. >>> >>> Here's a snippet (hand typed) of the error message, but it does look >>> like a rank communications error >>> >>> ORTE_ERROR_LOG: A message is attempting to be sent to a process whose >>> contact information is unknown in file rml_oob_send.c at line 145. >>> *** MPI_INIT failure message (snipped) *** >>> orte_grpcomm_modex failed >>> --> Returned "A messages is attempting to be sent to a process whose >>> contact information us uknown" (-117) instead of "Success" (0) >>> >>> This msg repeats for each rank, an ultimately hangs the srun which i >>> have to Ctrl-C and terminate >>> >>> I have mpiports defined in my slurm config and running srun with >>> -resv-ports does show the SLURM_RESV_PORTS environment variable >>> getting parts to the shell >>> >>> >>> On Thu, Dec 23, 2010 at 8:09 PM, Ralph Castain >>> wrote: I'm not sure there is any documentation yet - not much clamor for it. :-/ It would really help if you included the error message. Otherwise, all I can do is guess, which wastes both of our time :-( My best guess is that the port reservation didn't get passed down to the MPI procs properly - but that's just a guess. On Dec 23, 2010, at 12:46 PM, Michael Di Domenico wrote: > Can anyone point me towards the most recent documentation for using > srun and openmpi? > > I followed what i found on the web with enabling the MpiPorts config > in slurm and using the --resv-ports switch, but I'm getting an error > from openmpi during setup. > > I'm using Slurm 2.1.15 and Openmpi 1.5 w/PSM > > I'm sure I'm missing a step. > > Thanks > ___ > users mailing list > us...@open-mpi.org > 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 >>> >> >> ___ >> users mailing list >> us...@open-mpi.org >> http://www.open-mpi.org/mailman/listinfo.cgi/users > > > ___ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/
Re: [OMPI users] srun and openmpi
Should have also warned you: you'll need to configure OMPI --with-devel-headers to get this program to build/run. On Dec 30, 2010, at 1:54 PM, Ralph Castain wrote: > Well, I couldn't do it as a patch - proved too complicated as the psm system > looks for the value early in the boot procedure. > > What I can do is give you the attached key generator program. It outputs the > envar required to run your program. So if you run the attached program and > then export the output into your environment, you should be okay. Looks like > this: > > $ ./psm_keygen > OMPI_MCA_orte_precondition_transports=0099b3eaa2c1547e-afb287789133a954 > $ > > You compile the program with the usual mpicc. > > Let me know if this solves the problem (or not). > Ralph > > > > On Dec 30, 2010, at 11:18 AM, Michael Di Domenico wrote: > >> Sure, i'll give it a go >> >> On Thu, Dec 30, 2010 at 5:53 PM, Ralph Castain wrote: >>> Ah, yes - that is going to be a problem. The PSM key gets generated by >>> mpirun as it is shared info - i.e., every proc has to get the same value. >>> >>> I can create a patch that will do this for the srun direct-launch scenario, >>> if you want to try it. Would be later today, though. >>> >>> >>> On Dec 30, 2010, at 10:31 AM, Michael Di Domenico wrote: >>> Well maybe not horray, yet. I might have jumped the gun a bit, it's looking like srun works in general, but perhaps not with PSM With PSM i get this error, (at least now i know what i changed) Error obtaining unique transport key from ORTE (orte_precondition_transports not present in the environment) PML add procs failed --> Returned "Error" (-1) instead of "Success" (0) Turn off PSM and srun works fine On Thu, Dec 30, 2010 at 5:13 PM, Ralph Castain wrote: > Hooray! > > On Dec 30, 2010, at 9:57 AM, Michael Di Domenico wrote: > >> I think i take it all back. I just tried it again and it seems to >> work now. I'm not sure what I changed (between my first and this >> msg), but it does appear to work now. >> >> On Thu, Dec 30, 2010 at 4:31 PM, Michael Di Domenico >> wrote: >>> Yes that's true, error messages help. I was hoping there was some >>> documentation to see what i've done wrong. I can't easily cut and >>> paste errors from my cluster. >>> >>> Here's a snippet (hand typed) of the error message, but it does look >>> like a rank communications error >>> >>> ORTE_ERROR_LOG: A message is attempting to be sent to a process whose >>> contact information is unknown in file rml_oob_send.c at line 145. >>> *** MPI_INIT failure message (snipped) *** >>> orte_grpcomm_modex failed >>> --> Returned "A messages is attempting to be sent to a process whose >>> contact information us uknown" (-117) instead of "Success" (0) >>> >>> This msg repeats for each rank, an ultimately hangs the srun which i >>> have to Ctrl-C and terminate >>> >>> I have mpiports defined in my slurm config and running srun with >>> -resv-ports does show the SLURM_RESV_PORTS environment variable >>> getting parts to the shell >>> >>> >>> On Thu, Dec 23, 2010 at 8:09 PM, Ralph Castain >>> wrote: I'm not sure there is any documentation yet - not much clamor for it. :-/ It would really help if you included the error message. Otherwise, all I can do is guess, which wastes both of our time :-( My best guess is that the port reservation didn't get passed down to the MPI procs properly - but that's just a guess. On Dec 23, 2010, at 12:46 PM, Michael Di Domenico wrote: > Can anyone point me towards the most recent documentation for using > srun and openmpi? > > I followed what i found on the web with enabling the MpiPorts config > in slurm and using the --resv-ports switch, but I'm getting an error > from openmpi during setup. > > I'm using Slurm 2.1.15 and Openmpi 1.5 w/PSM > > I'm sure I'm missing a step. > > Thanks > ___ > users mailing list > us...@open-mpi.org > 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 >>> >> >> ___ >> users mailing list >> us...@open-mpi.org >> 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 > >
Re: [OMPI users] srun and openmpi
Well, I couldn't do it as a patch - proved too complicated as the psm system looks for the value early in the boot procedure. What I can do is give you the attached key generator program. It outputs the envar required to run your program. So if you run the attached program and then export the output into your environment, you should be okay. Looks like this: $ ./psm_keygen OMPI_MCA_orte_precondition_transports=0099b3eaa2c1547e-afb287789133a954 $ You compile the program with the usual mpicc. Let me know if this solves the problem (or not). Ralph psm_keygen.c Description: Binary data On Dec 30, 2010, at 11:18 AM, Michael Di Domenico wrote: > Sure, i'll give it a go > > On Thu, Dec 30, 2010 at 5:53 PM, Ralph Castain wrote: >> Ah, yes - that is going to be a problem. The PSM key gets generated by >> mpirun as it is shared info - i.e., every proc has to get the same value. >> >> I can create a patch that will do this for the srun direct-launch scenario, >> if you want to try it. Would be later today, though. >> >> >> On Dec 30, 2010, at 10:31 AM, Michael Di Domenico wrote: >> >>> Well maybe not horray, yet. I might have jumped the gun a bit, it's >>> looking like srun works in general, but perhaps not with PSM >>> >>> With PSM i get this error, (at least now i know what i changed) >>> >>> Error obtaining unique transport key from ORTE >>> (orte_precondition_transports not present in the environment) >>> PML add procs failed >>> --> Returned "Error" (-1) instead of "Success" (0) >>> >>> Turn off PSM and srun works fine >>> >>> >>> On Thu, Dec 30, 2010 at 5:13 PM, Ralph Castain wrote: Hooray! On Dec 30, 2010, at 9:57 AM, Michael Di Domenico wrote: > I think i take it all back. I just tried it again and it seems to > work now. I'm not sure what I changed (between my first and this > msg), but it does appear to work now. > > On Thu, Dec 30, 2010 at 4:31 PM, Michael Di Domenico > wrote: >> Yes that's true, error messages help. I was hoping there was some >> documentation to see what i've done wrong. I can't easily cut and >> paste errors from my cluster. >> >> Here's a snippet (hand typed) of the error message, but it does look >> like a rank communications error >> >> ORTE_ERROR_LOG: A message is attempting to be sent to a process whose >> contact information is unknown in file rml_oob_send.c at line 145. >> *** MPI_INIT failure message (snipped) *** >> orte_grpcomm_modex failed >> --> Returned "A messages is attempting to be sent to a process whose >> contact information us uknown" (-117) instead of "Success" (0) >> >> This msg repeats for each rank, an ultimately hangs the srun which i >> have to Ctrl-C and terminate >> >> I have mpiports defined in my slurm config and running srun with >> -resv-ports does show the SLURM_RESV_PORTS environment variable >> getting parts to the shell >> >> >> On Thu, Dec 23, 2010 at 8:09 PM, Ralph Castain wrote: >>> I'm not sure there is any documentation yet - not much clamor for it. >>> :-/ >>> >>> It would really help if you included the error message. Otherwise, all >>> I can do is guess, which wastes both of our time :-( >>> >>> My best guess is that the port reservation didn't get passed down to >>> the MPI procs properly - but that's just a guess. >>> >>> >>> On Dec 23, 2010, at 12:46 PM, Michael Di Domenico wrote: >>> Can anyone point me towards the most recent documentation for using srun and openmpi? I followed what i found on the web with enabling the MpiPorts config in slurm and using the --resv-ports switch, but I'm getting an error from openmpi during setup. I'm using Slurm 2.1.15 and Openmpi 1.5 w/PSM I'm sure I'm missing a step. Thanks ___ users mailing list us...@open-mpi.org 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 >>> >> > > ___ > users mailing list > us...@open-mpi.org > 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 >>> >>> ___ >>> users mailing list >>> us...@open-mpi.org >>> http://www.open-mpi.org/mailman/listinfo.cgi/users >> >> >> ___ >> users mailing list >> us...@open-mpi.org >> http://www.open-mpi.org/
Re: [OMPI users] srun and openmpi
Sure, i'll give it a go On Thu, Dec 30, 2010 at 5:53 PM, Ralph Castain wrote: > Ah, yes - that is going to be a problem. The PSM key gets generated by mpirun > as it is shared info - i.e., every proc has to get the same value. > > I can create a patch that will do this for the srun direct-launch scenario, > if you want to try it. Would be later today, though. > > > On Dec 30, 2010, at 10:31 AM, Michael Di Domenico wrote: > >> Well maybe not horray, yet. I might have jumped the gun a bit, it's >> looking like srun works in general, but perhaps not with PSM >> >> With PSM i get this error, (at least now i know what i changed) >> >> Error obtaining unique transport key from ORTE >> (orte_precondition_transports not present in the environment) >> PML add procs failed >> --> Returned "Error" (-1) instead of "Success" (0) >> >> Turn off PSM and srun works fine >> >> >> On Thu, Dec 30, 2010 at 5:13 PM, Ralph Castain wrote: >>> Hooray! >>> >>> On Dec 30, 2010, at 9:57 AM, Michael Di Domenico wrote: >>> I think i take it all back. I just tried it again and it seems to work now. I'm not sure what I changed (between my first and this msg), but it does appear to work now. On Thu, Dec 30, 2010 at 4:31 PM, Michael Di Domenico wrote: > Yes that's true, error messages help. I was hoping there was some > documentation to see what i've done wrong. I can't easily cut and > paste errors from my cluster. > > Here's a snippet (hand typed) of the error message, but it does look > like a rank communications error > > ORTE_ERROR_LOG: A message is attempting to be sent to a process whose > contact information is unknown in file rml_oob_send.c at line 145. > *** MPI_INIT failure message (snipped) *** > orte_grpcomm_modex failed > --> Returned "A messages is attempting to be sent to a process whose > contact information us uknown" (-117) instead of "Success" (0) > > This msg repeats for each rank, an ultimately hangs the srun which i > have to Ctrl-C and terminate > > I have mpiports defined in my slurm config and running srun with > -resv-ports does show the SLURM_RESV_PORTS environment variable > getting parts to the shell > > > On Thu, Dec 23, 2010 at 8:09 PM, Ralph Castain wrote: >> I'm not sure there is any documentation yet - not much clamor for it. :-/ >> >> It would really help if you included the error message. Otherwise, all I >> can do is guess, which wastes both of our time :-( >> >> My best guess is that the port reservation didn't get passed down to the >> MPI procs properly - but that's just a guess. >> >> >> On Dec 23, 2010, at 12:46 PM, Michael Di Domenico wrote: >> >>> Can anyone point me towards the most recent documentation for using >>> srun and openmpi? >>> >>> I followed what i found on the web with enabling the MpiPorts config >>> in slurm and using the --resv-ports switch, but I'm getting an error >>> from openmpi during setup. >>> >>> I'm using Slurm 2.1.15 and Openmpi 1.5 w/PSM >>> >>> I'm sure I'm missing a step. >>> >>> Thanks >>> ___ >>> users mailing list >>> us...@open-mpi.org >>> 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 >> > ___ users mailing list us...@open-mpi.org 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 >>> >> >> ___ >> users mailing list >> us...@open-mpi.org >> 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 >
Re: [OMPI users] srun and openmpi
Ah, yes - that is going to be a problem. The PSM key gets generated by mpirun as it is shared info - i.e., every proc has to get the same value. I can create a patch that will do this for the srun direct-launch scenario, if you want to try it. Would be later today, though. On Dec 30, 2010, at 10:31 AM, Michael Di Domenico wrote: > Well maybe not horray, yet. I might have jumped the gun a bit, it's > looking like srun works in general, but perhaps not with PSM > > With PSM i get this error, (at least now i know what i changed) > > Error obtaining unique transport key from ORTE > (orte_precondition_transports not present in the environment) > PML add procs failed > --> Returned "Error" (-1) instead of "Success" (0) > > Turn off PSM and srun works fine > > > On Thu, Dec 30, 2010 at 5:13 PM, Ralph Castain wrote: >> Hooray! >> >> On Dec 30, 2010, at 9:57 AM, Michael Di Domenico wrote: >> >>> I think i take it all back. I just tried it again and it seems to >>> work now. I'm not sure what I changed (between my first and this >>> msg), but it does appear to work now. >>> >>> On Thu, Dec 30, 2010 at 4:31 PM, Michael Di Domenico >>> wrote: Yes that's true, error messages help. I was hoping there was some documentation to see what i've done wrong. I can't easily cut and paste errors from my cluster. Here's a snippet (hand typed) of the error message, but it does look like a rank communications error ORTE_ERROR_LOG: A message is attempting to be sent to a process whose contact information is unknown in file rml_oob_send.c at line 145. *** MPI_INIT failure message (snipped) *** orte_grpcomm_modex failed --> Returned "A messages is attempting to be sent to a process whose contact information us uknown" (-117) instead of "Success" (0) This msg repeats for each rank, an ultimately hangs the srun which i have to Ctrl-C and terminate I have mpiports defined in my slurm config and running srun with -resv-ports does show the SLURM_RESV_PORTS environment variable getting parts to the shell On Thu, Dec 23, 2010 at 8:09 PM, Ralph Castain wrote: > I'm not sure there is any documentation yet - not much clamor for it. :-/ > > It would really help if you included the error message. Otherwise, all I > can do is guess, which wastes both of our time :-( > > My best guess is that the port reservation didn't get passed down to the > MPI procs properly - but that's just a guess. > > > On Dec 23, 2010, at 12:46 PM, Michael Di Domenico wrote: > >> Can anyone point me towards the most recent documentation for using >> srun and openmpi? >> >> I followed what i found on the web with enabling the MpiPorts config >> in slurm and using the --resv-ports switch, but I'm getting an error >> from openmpi during setup. >> >> I'm using Slurm 2.1.15 and Openmpi 1.5 w/PSM >> >> I'm sure I'm missing a step. >> >> Thanks >> ___ >> users mailing list >> us...@open-mpi.org >> 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 > >>> >>> ___ >>> users mailing list >>> us...@open-mpi.org >>> 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 >> > > ___ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users
Re: [OMPI users] srun and openmpi
Well maybe not horray, yet. I might have jumped the gun a bit, it's looking like srun works in general, but perhaps not with PSM With PSM i get this error, (at least now i know what i changed) Error obtaining unique transport key from ORTE (orte_precondition_transports not present in the environment) PML add procs failed --> Returned "Error" (-1) instead of "Success" (0) Turn off PSM and srun works fine On Thu, Dec 30, 2010 at 5:13 PM, Ralph Castain wrote: > Hooray! > > On Dec 30, 2010, at 9:57 AM, Michael Di Domenico wrote: > >> I think i take it all back. I just tried it again and it seems to >> work now. I'm not sure what I changed (between my first and this >> msg), but it does appear to work now. >> >> On Thu, Dec 30, 2010 at 4:31 PM, Michael Di Domenico >> wrote: >>> Yes that's true, error messages help. I was hoping there was some >>> documentation to see what i've done wrong. I can't easily cut and >>> paste errors from my cluster. >>> >>> Here's a snippet (hand typed) of the error message, but it does look >>> like a rank communications error >>> >>> ORTE_ERROR_LOG: A message is attempting to be sent to a process whose >>> contact information is unknown in file rml_oob_send.c at line 145. >>> *** MPI_INIT failure message (snipped) *** >>> orte_grpcomm_modex failed >>> --> Returned "A messages is attempting to be sent to a process whose >>> contact information us uknown" (-117) instead of "Success" (0) >>> >>> This msg repeats for each rank, an ultimately hangs the srun which i >>> have to Ctrl-C and terminate >>> >>> I have mpiports defined in my slurm config and running srun with >>> -resv-ports does show the SLURM_RESV_PORTS environment variable >>> getting parts to the shell >>> >>> >>> On Thu, Dec 23, 2010 at 8:09 PM, Ralph Castain wrote: I'm not sure there is any documentation yet - not much clamor for it. :-/ It would really help if you included the error message. Otherwise, all I can do is guess, which wastes both of our time :-( My best guess is that the port reservation didn't get passed down to the MPI procs properly - but that's just a guess. On Dec 23, 2010, at 12:46 PM, Michael Di Domenico wrote: > Can anyone point me towards the most recent documentation for using > srun and openmpi? > > I followed what i found on the web with enabling the MpiPorts config > in slurm and using the --resv-ports switch, but I'm getting an error > from openmpi during setup. > > I'm using Slurm 2.1.15 and Openmpi 1.5 w/PSM > > I'm sure I'm missing a step. > > Thanks > ___ > users mailing list > us...@open-mpi.org > 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 >>> >> >> ___ >> users mailing list >> us...@open-mpi.org >> 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 >
Re: [OMPI users] srun and openmpi
Hooray! On Dec 30, 2010, at 9:57 AM, Michael Di Domenico wrote: > I think i take it all back. I just tried it again and it seems to > work now. I'm not sure what I changed (between my first and this > msg), but it does appear to work now. > > On Thu, Dec 30, 2010 at 4:31 PM, Michael Di Domenico > wrote: >> Yes that's true, error messages help. I was hoping there was some >> documentation to see what i've done wrong. I can't easily cut and >> paste errors from my cluster. >> >> Here's a snippet (hand typed) of the error message, but it does look >> like a rank communications error >> >> ORTE_ERROR_LOG: A message is attempting to be sent to a process whose >> contact information is unknown in file rml_oob_send.c at line 145. >> *** MPI_INIT failure message (snipped) *** >> orte_grpcomm_modex failed >> --> Returned "A messages is attempting to be sent to a process whose >> contact information us uknown" (-117) instead of "Success" (0) >> >> This msg repeats for each rank, an ultimately hangs the srun which i >> have to Ctrl-C and terminate >> >> I have mpiports defined in my slurm config and running srun with >> -resv-ports does show the SLURM_RESV_PORTS environment variable >> getting parts to the shell >> >> >> On Thu, Dec 23, 2010 at 8:09 PM, Ralph Castain wrote: >>> I'm not sure there is any documentation yet - not much clamor for it. :-/ >>> >>> It would really help if you included the error message. Otherwise, all I >>> can do is guess, which wastes both of our time :-( >>> >>> My best guess is that the port reservation didn't get passed down to the >>> MPI procs properly - but that's just a guess. >>> >>> >>> On Dec 23, 2010, at 12:46 PM, Michael Di Domenico wrote: >>> Can anyone point me towards the most recent documentation for using srun and openmpi? I followed what i found on the web with enabling the MpiPorts config in slurm and using the --resv-ports switch, but I'm getting an error from openmpi during setup. I'm using Slurm 2.1.15 and Openmpi 1.5 w/PSM I'm sure I'm missing a step. Thanks ___ users mailing list us...@open-mpi.org 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 >>> >> > > ___ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users
Re: [OMPI users] srun and openmpi
I think i take it all back. I just tried it again and it seems to work now. I'm not sure what I changed (between my first and this msg), but it does appear to work now. On Thu, Dec 30, 2010 at 4:31 PM, Michael Di Domenico wrote: > Yes that's true, error messages help. I was hoping there was some > documentation to see what i've done wrong. I can't easily cut and > paste errors from my cluster. > > Here's a snippet (hand typed) of the error message, but it does look > like a rank communications error > > ORTE_ERROR_LOG: A message is attempting to be sent to a process whose > contact information is unknown in file rml_oob_send.c at line 145. > *** MPI_INIT failure message (snipped) *** > orte_grpcomm_modex failed > --> Returned "A messages is attempting to be sent to a process whose > contact information us uknown" (-117) instead of "Success" (0) > > This msg repeats for each rank, an ultimately hangs the srun which i > have to Ctrl-C and terminate > > I have mpiports defined in my slurm config and running srun with > -resv-ports does show the SLURM_RESV_PORTS environment variable > getting parts to the shell > > > On Thu, Dec 23, 2010 at 8:09 PM, Ralph Castain wrote: >> I'm not sure there is any documentation yet - not much clamor for it. :-/ >> >> It would really help if you included the error message. Otherwise, all I can >> do is guess, which wastes both of our time :-( >> >> My best guess is that the port reservation didn't get passed down to the MPI >> procs properly - but that's just a guess. >> >> >> On Dec 23, 2010, at 12:46 PM, Michael Di Domenico wrote: >> >>> Can anyone point me towards the most recent documentation for using >>> srun and openmpi? >>> >>> I followed what i found on the web with enabling the MpiPorts config >>> in slurm and using the --resv-ports switch, but I'm getting an error >>> from openmpi during setup. >>> >>> I'm using Slurm 2.1.15 and Openmpi 1.5 w/PSM >>> >>> I'm sure I'm missing a step. >>> >>> Thanks >>> ___ >>> users mailing list >>> us...@open-mpi.org >>> 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 >> >
Re: [OMPI users] srun and openmpi
Yes that's true, error messages help. I was hoping there was some documentation to see what i've done wrong. I can't easily cut and paste errors from my cluster. Here's a snippet (hand typed) of the error message, but it does look like a rank communications error ORTE_ERROR_LOG: A message is attempting to be sent to a process whose contact information is unknown in file rml_oob_send.c at line 145. *** MPI_INIT failure message (snipped) *** orte_grpcomm_modex failed --> Returned "A messages is attempting to be sent to a process whose contact information us uknown" (-117) instead of "Success" (0) This msg repeats for each rank, an ultimately hangs the srun which i have to Ctrl-C and terminate I have mpiports defined in my slurm config and running srun with -resv-ports does show the SLURM_RESV_PORTS environment variable getting parts to the shell On Thu, Dec 23, 2010 at 8:09 PM, Ralph Castain wrote: > I'm not sure there is any documentation yet - not much clamor for it. :-/ > > It would really help if you included the error message. Otherwise, all I can > do is guess, which wastes both of our time :-( > > My best guess is that the port reservation didn't get passed down to the MPI > procs properly - but that's just a guess. > > > On Dec 23, 2010, at 12:46 PM, Michael Di Domenico wrote: > >> Can anyone point me towards the most recent documentation for using >> srun and openmpi? >> >> I followed what i found on the web with enabling the MpiPorts config >> in slurm and using the --resv-ports switch, but I'm getting an error >> from openmpi during setup. >> >> I'm using Slurm 2.1.15 and Openmpi 1.5 w/PSM >> >> I'm sure I'm missing a step. >> >> Thanks >> ___ >> users mailing list >> us...@open-mpi.org >> 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 >
Re: [OMPI users] openmpi hangs when running on more than one node (unless i use --debug-daemons )
Thank You Raplh It works :) On Wed, Dec 29, 2010 at 4:23 PM, Ralph Castain wrote: > Both look perfectly right to me. The difference is only because your > "success" one still has the ssh session active. > > It looks to me like something is preventing communication when the ssh > session is terminated, but I have no clue why. > > Given the small cluster size, I would just add this to your default param > file and not worry about it: > > orte_leave_session_attached = 1 > > > On Dec 29, 2010, at 2:10 AM, Advanced Computing Group University of Padova > wrote: > > > > On Wed, Dec 29, 2010 at 10:10 AM, Advanced Computing Group University of > Padova wrote: > >> Thank you Ralph, >> Your suspects seems to be quite interesting :) >> I try to run the same program from node 192.168.1/2.11 using also >> 192.168.2.12 "tracing" .12 activities. >> I attach the two files (_succ: using --debug-daemons , _fail:without >> --debug-daemons) >> I notice that orted daemon on the second node is called in a different >> way. >> Moreover when i launch without --debug-daemons a process called >> orted.. remain active on the second node after i kill (ctrl+c) the >> command on the first node. >> >> Can you continue to help me ? >> >> >> On Tue, Dec 28, 2010 at 8:51 PM, Ralph Castain wrote: >> >>> All --debug-daemons really does is keep the ssh session open after >>> launching the remote daemon and turn on some output. Otherwise, we close >>> that session as most systems only allow a limited number of concurrent ssh >>> sessions to be open. >>> >>> I suspect you have a system setting that kills any running job upon ssh >>> close. It would be best if you removed that restriction. If you cannot, then >>> you can always run your MPI jobs with --no-daemonize. This will keep the ssh >>> session open, but without all the debug output. >>> >>> That flag is just shorthand for an MCA param, so you can set it in your >>> environ or put it in your default MCA param file. >>> >>> >>> On Dec 28, 2010, at 3:31 AM, Advanced Computing Group University of >>> Padova wrote: >>> >>> yes i've tested 'em >>> In fact using the --debug-daemons switch everything works fine! (and i >>> see that on the nodes a process calles orted... is started whenever i launch >>> a test application) >>> I believe this is a environment variables problem >>> >>> On Mon, Dec 27, 2010 at 10:16 PM, David Zhang wrote: >>> have you tested your ssh key setup, fire wall, and switch settings to ensure all nodes are talking to each other? On Mon, Dec 27, 2010 at 1:07 AM, Advanced Computing Group University of Padova wrote: > using openmpi 1.4.2 > > > On Fri, Dec 24, 2010 at 11:17 AM, Advanced Computing Group University > of Padova wrote: > >> Hi, >> i am building a small 16 nodes cluster gentoo based. >> I succesfully installed openmpi and i succesfully tried some simple >> small test parallel program on a single host but... >> i can't run parallel program on more than one nodes >> >> >> The nodes are cloned (so they are equals). >> The mpiuser (and their ssh certificates) uses /home/mpiuser that is a >> nfs share. >> I modified .bashrc >> >> - >> PATH=/usr/bin:$PATH ; export PATH ; >> LD_LIBRARY_PATH=/usr/lib64:$LD_LIBRARY_PATH ; export LD_LIBRARY_PATH ; >> >> # already present below >> if [[ $- != *i* ]] ; then >> # Shell is non-interactive. Be done now! >> return >> fi >> - >> >> The very very strange behaviour is that using the --debug-daemons let >> my program run succesfully. >> >> Thank you in advance and sorry for my bad english >> >> >> >> > > ___ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users > -- David Zhang University of California, San Diego ___ users mailing list us...@open-mpi.org 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 >>> >>> >>> >>> ___ >>> users mailing list >>> us...@open-mpi.org >>> 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 > > > > ___ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users >
