CFD Online Logo CFD Online URL
www.cfd-online.com
[Sponsors]
Home > Forums > OpenFOAM

MPI problmes

Register Blogs Members List Search Today's Posts Mark Forums Read

Reply
 
LinkBack Thread Tools Display Modes
Old   December 27, 2012, 22:56
Default MPI problmes
  #1
Senior Member
 
Dongyue Li
Join Date: Jun 2012
Location: Torino, Italy
Posts: 664
Rep Power: 8
sharonyue is on a distinguished road
Hi Foamers.

According to this http://www.openfoam.org/download/git.php
After I compiled OF 21x and paraview, there is totally nothing wrong and successfully run solvers.
But I want to run parallel. so I tried, there are some errors:

Code:
cfd@cfd:~/OpenFOAM/tutorials/multiphase/interFoam/laminar/damBreak$ mpirun -np 4 interFoam -parallel
[cfd:08509] [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file runtime/orte_init.c at line 121
--------------------------------------------------------------------------
Sorry!  You were supposed to get help about:
    orte_init:startup:internal-failure
But I couldn't open the help file:
    /home/cfd/OpenFOAM/ThirdParty-2.1.x/platforms/linux64Gcc/openmpi-1.5.3/share/openmpi/help-orte-runtime: No such file or directory.  Sorry!
--------------------------------------------------------------------------
[cfd:08509] [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file orterun.c at line 572
cfd@cfd:~/OpenFOAM/tutorials/multiphase/interFoam/laminar/damBreak$
Code:
cfd@cfd:~/OpenFOAM/tutorials/multiphase/interFoam/laminar/damBreak$ mpirun
--------------------------------------------------------------------------
Sorry!  You were supposed to get help about:
    orterun:usage
But I couldn't open the help file:
    /home/cfd/OpenFOAM/ThirdParty-2.1.x/platforms/linux64Gcc/openmpi-1.5.3/share/openmpi/help-orterun.txt: No such file or directory.  Sorry!
--------------------------------------------------------------------------
cfd@cfd:~/OpenFOAM/tutorials/multiphase/interFoam/laminar/damBreak$
Code:
cfd@cfd:~/OpenFOAM/tutorials/multiphase/interFoam/laminar/damBreak$ sudo mpirun
[sudo] password for cfd: 
mpirun (Open MPI) 1.5.3

Usage: mpirun [OPTION]...  [PROGRAM]...
Start the given program using Open RTE

   -am <arg0>            Aggregate MCA parameter set file list
   --app <arg0>          Provide an appfile; ignore all other command line
                         options
   -bind-to-board|--bind-to-board 
                         Whether to bind processes to specific boards
                         (meaningless on 1 board/node)
   -bind-to-core|--bind-to-core 
                         Whether to bind processes to specific cores
   -bind-to-none|--bind-to-none 
                         Do not bind processes to cores or sockets
                         (default)
   -bind-to-socket|--bind-to-socket 
                         Whether to bind processes to sockets
   -byboard|--byboard    Whether to assign processes round-robin by board
                         (equivalent to bynode if only 1 board/node)
   -bycore|--bycore      Alias for byslot
   -bynode|--bynode      Whether to assign processes round-robin by node
   -byslot|--byslot      Whether to assign processes round-robin by slot
                         (the default)
   -bysocket|--bysocket  Whether to assign processes round-robin by socket
-c|-np|--np <arg0>       Number of processes to run
   -cf|--cartofile <arg0>  
                         Provide a cartography file
   -cpu-set|--cpu-set <arg0>  
                         Comma-separated list of ranges specifying logical
                         cpus allocated to this job [default: none]
   -cpus-per-proc|--cpus-per-proc <arg0>  
                         Number of cpus to use for each process [default=1]
   -cpus-per-rank|--cpus-per-rank <arg0>  
                         Synonym for cpus-per-proc
-d|-debug-devel|--debug-devel 
                         Enable debugging of OpenRTE
   -debug|--debug        Invoke the user-level debugger indicated by the
                         orte_base_user_debugger MCA parameter
   -debug-daemons|--debug-daemons 
                         Enable debugging of any OpenRTE daemons used by
                         this application
   -debug-daemons-file|--debug-daemons-file 
                         Enable debugging of any OpenRTE daemons used by
                         this application, storing output in files
   -debugger|--debugger <arg0>  
                         Sequence of debuggers to search for when "--debug"
                         is used
   -default-hostfile|--default-hostfile <arg0>  
                         Provide a default hostfile
   -display-allocation|--display-allocation 
                         Display the allocation being used by this job
   -display-devel-allocation|--display-devel-allocation 
                         Display a detailed list (mostly intended for
                         developers) of the allocation being used by this
                         job
   -display-devel-map|--display-devel-map 
                         Display a detailed process map (mostly intended for
                         developers) just before launch
   -display-map|--display-map 
                         Display the process map just before launch
   -do-not-launch|--do-not-launch 
                         Perform all necessary operations to prepare to
                         launch the application, but do not actually launch
                         it
   -do-not-resolve|--do-not-resolve 
                         Do not attempt to resolve interfaces
   -gmca|--gmca <arg0> <arg1>  
                         Pass global MCA parameters that are applicable to
                         all contexts (arg0 is the parameter name; arg1 is
                         the parameter value)
-h|--help                This help message
-H|-host|--host <arg0>   List of hosts to invoke processes on
   --hetero              Indicates that multiple app_contexts are being
                         provided that are a mix of 32/64 bit binaries
   -hostfile|--hostfile <arg0>  
                         Provide a hostfile
   -launch-agent|--launch-agent <arg0>  
                         Command used to start processes on remote nodes
                         (default: orted)
   -leave-session-attached|--leave-session-attached 
                         Enable debugging of OpenRTE
   -loadbalance|--loadbalance 
                         Balance total number of procs across all allocated
                         nodes
   -machinefile|--machinefile <arg0>  
                         Provide a hostfile
   -mca|--mca <arg0> <arg1>  
                         Pass context-specific MCA parameters; they are
                         considered global if --gmca is not used and only
                         one context is specified (arg0 is the parameter
                         name; arg1 is the parameter value)
   -n|--n <arg0>         Number of processes to run
   -nolocal|--nolocal    Do not run any MPI applications on the local node
   -nooversubscribe|--nooversubscribe 
                         Nodes are not to be oversubscribed, even if the
                         system supports such operation
   --noprefix            Disable automatic --prefix behavior
   -nperboard|--nperboard <arg0>  
                         Launch n processes per board on all allocated
                         nodes
   -npernode|--npernode <arg0>  
                         Launch n processes per node on all allocated nodes
   -npersocket|--npersocket <arg0>  
                         Launch n processes per socket on all allocated
                         nodes
   -num-boards|--num-boards <arg0>  
                         Number of processor boards/node (1-256) [default:
                         1]
   -num-cores|--num-cores <arg0>  
                         Number of cores/socket (1-256) [default: 1]
   -num-sockets|--num-sockets <arg0>  
                         Number of sockets/board (1-256) [default: 1]
   -ompi-server|--ompi-server <arg0>  
                         Specify the URI of the Open MPI server, or the name
                         of the file (specified as file:filename) that
                         contains that info
   -output-filename|--output-filename <arg0>  
                         Redirect output from application processes into
                         filename.rank
   -path|--path <arg0>   PATH to be used to look for executables to start
                         processes
   -pernode|--pernode    Launch one process per available node on the
                         specified number of nodes [no -np => use all
                         allocated nodes]
   --prefix <arg0>       Prefix where Open MPI is installed on remote nodes
   --preload-files <arg0>  
                         Preload the comma separated list of files to the
                         remote machines current working directory before
                         starting the remote process.
   --preload-files-dest-dir <arg0>  
                         The destination directory to use in conjunction
                         with --preload-files. By default the absolute and
                         relative paths provided by --preload-files are
                         used.
-q|--quiet               Suppress helpful messages
   -report-bindings|--report-bindings 
                         Whether to report process bindings to stderr
   -report-events|--report-events <arg0>  
                         Report events to a tool listening at the specified
                         URI
   -report-pid|--report-pid <arg0>  
                         Printout pid on stdout [-], stderr [+], or a file
                         [anything else]
   -report-uri|--report-uri <arg0>  
                         Printout URI on stdout [-], stderr [+], or a file
                         [anything else]
   -rf|--rankfile <arg0>  
                         Provide a rankfile file
-s|--preload-binary      Preload the binary on the remote machine before
                         starting the remote process.
   -server-wait-time|--server-wait-time <arg0>  
                         Time in seconds to wait for ompi-server (default:
                         10 sec)
   -show-progress|--show-progress 
                         Output a brief periodic report on launch progress
   -slot-list|--slot-list <arg0>  
                         List of processor IDs to bind MPI processes to
                         (e.g., used in conjunction with rank files)
   -stdin|--stdin <arg0>  
                         Specify procs to receive stdin [rank, all, none]
                         (default: 0, indicating rank 0)
   -stride|--stride <arg0>  
                         When binding multiple cores to a rank, the step
                         size to use between cores [default: 1]
   -tag-output|--tag-output 
                         Tag all output with [job,rank]
   -timestamp-output|--timestamp-output 
                         Timestamp all application process output
   -tmpdir|--tmpdir <arg0>  
                         Set the root for the session directory tree for
                         orterun ONLY
   -tv|--tv              Deprecated backwards compatibility flag; synonym
                         for "--debug"
   -use-regexp|--use-regexp 
                         Use regular expressions for launch
-v|--verbose             Be verbose
-V|--version             Print version and exit
   -wait-for-server|--wait-for-server 
                         If ompi-server is not already running, wait until
                         it is detected (default: false)
   -wd|--wd <arg0>       Synonym for --wdir
   -wdir|--wdir <arg0>   Set the working directory of the started processes
-x <arg0>                Export an environment variable, optionally
                         specifying a value (e.g., "-x foo" exports the
                         environment variable foo and takes its value from
                         the current environment; "-x foo=bar" exports the
                         environment variable name foo and sets its value to
                         "bar" in the started processes)
   -xml|--xml            Provide all output in XML format
   -xml-file|--xml-file <arg0>  
                         Provide all output in XML format to the specified
                         file
   -xterm|--xterm <arg0>  
                         Create a new xterm window and display output from
                         the specified ranks there

Report bugs to http://www.open-mpi.org/community/help/
cfd@cfd:~/OpenFOAM/tutorials/multiphase/interFoam/laminar/damBreak$
Code:
cfd@cfd:~/OpenFOAM/tutorials/multiphase/interFoam/laminar/damBreak$ sudo su
root@cfd:/home/cfd/OpenFOAM/tutorials/multiphase/interFoam/laminar/damBreak# mpirun -np 4 interFoam -parallel
--------------------------------------------------------------------------
mpirun was unable to launch the specified application as it could not find an executable:

Executable: interFoam
Node: cfd

while attempting to start process rank 0.
--------------------------------------------------------------------------
4 total processes failed to start
root@cfd:/home/cfd/OpenFOAM/tutorials/multiphase/interFoam/laminar/damBreak#
How to fix this? Thanks in advance
sharonyue is offline   Reply With Quote

Old   December 28, 2012, 00:31
Post Dear sharonyue,
  #2
Senior Member
 
Tushar Chourushi
Join Date: Jul 2009
Location: IIT-Indore, India
Posts: 318
Blog Entries: 1
Rep Power: 8
Tushar@cfd is on a distinguished road
Have you done? "decomposePar" properly?..

I think you should check your file "decomposeParDict"...

All the best...
Tushar@cfd is offline   Reply With Quote

Old   December 28, 2012, 01:36
Default
  #3
Senior Member
 
Dongyue Li
Join Date: Jun 2012
Location: Torino, Italy
Posts: 664
Rep Power: 8
sharonyue is on a distinguished road
Quote:
Originally Posted by Tushar_Mtechcfd View Post
Have you done? "decomposePar" properly?..

I think you should check your file "decomposeParDict"...

All the best...
~Yes,I have done that~
sharonyue is offline   Reply With Quote

Old   December 28, 2012, 02:42
Default
  #4
Senior Member
 
Tushar Chourushi
Join Date: Jul 2009
Location: IIT-Indore, India
Posts: 318
Blog Entries: 1
Rep Power: 8
Tushar@cfd is on a distinguished road
Can you please copy-paste the "decomposeParDict" code here... So that I will have a better idea...

Last edited by Tushar@cfd; December 28, 2012 at 04:18.
Tushar@cfd is offline   Reply With Quote

Old   December 28, 2012, 04:40
Default
  #5
Senior Member
 
Dongyue Li
Join Date: Jun 2012
Location: Torino, Italy
Posts: 664
Rep Power: 8
sharonyue is on a distinguished road
Quote:
Originally Posted by Tushar_Mtechcfd View Post
Can you please copy-paste the "decomposeParDict" code here... So that I will have a better idea...

Code:
numberOfSubdomains 4;

method          simple;

simpleCoeffs
{
    n               ( 2 2 1 );
    delta           0.001;
}

hierarchicalCoeffs
{
    n               ( 1 1 1 );
    delta           0.001;
    order           xyz;
}

manualCoeffs
{
    dataFile        "";
}

distributed     no;

roots           ( );


// ************************************************************************* //


I think its tough to install openmpi for myself.
sharonyue is offline   Reply With Quote

Old   December 28, 2012, 04:56
Default
  #6
Senior Member
 
Dongyue Li
Join Date: Jun 2012
Location: Torino, Italy
Posts: 664
Rep Power: 8
sharonyue is on a distinguished road
I do strictly according to this page. http://www.openfoam.org/download/git.php
But I can NOT install openmpi correctly. Its driving me crazy and upset!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
sharonyue is offline   Reply With Quote

Old   December 28, 2012, 05:14
Post
  #7
Senior Member
 
Tushar Chourushi
Join Date: Jul 2009
Location: IIT-Indore, India
Posts: 318
Blog Entries: 1
Rep Power: 8
Tushar@cfd is on a distinguished road
1) Install "openmpi-bin" and after that

2) Try running this command...
mpirun -np 4 interFoam -parallel
Tushar@cfd is offline   Reply With Quote

Old   December 28, 2012, 05:16
Default
  #8
Senior Member
 
Dongyue Li
Join Date: Jun 2012
Location: Torino, Italy
Posts: 664
Rep Power: 8
sharonyue is on a distinguished road
Quote:
Originally Posted by Tushar_Mtechcfd View Post
1) Install "openmpi-bin" and after that

2) Try running this command...
mpirun -np 4 interFoam -parallel

Code:
cfd@cfd:~/OpenFOAM/tutorials/multiphase/interFoam/laminar/damBreak$ mpirun -np 4 interFoam -parallel
[cfd:08509] [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file runtime/orte_init.c at line 121
--------------------------------------------------------------------------
Sorry!  You were supposed to get help about:
    orte_init:startup:internal-failure
But I couldn't open the help file:
    /home/cfd/OpenFOAM/ThirdParty-2.1.x/platforms/linux64Gcc/openmpi-1.5.3/share/openmpi/help-orte-runtime: No such file or directory.  Sorry!
--------------------------------------------------------------------------
[cfd:08509] [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file orterun.c at line 572
cfd@cfd:~/OpenFOAM/tutorials/multiphase/interFoam/laminar/damBreak$
yeah, I have installed that...
sharonyue is offline   Reply With Quote

Old   December 28, 2012, 05:17
Default
  #9
Senior Member
 
Laurence R. McGlashan
Join Date: Mar 2009
Posts: 370
Rep Power: 14
l_r_mcglashan will become famous soon enough
What is the result of:

Code:
ls $WM_THIRD_PARTY_DIR/platforms/linux64Gcc/openmpi-1.5.3/share/openmpi/
Does that path exist?

And also post the output of the Allwmake script that you ran in $WM_THIRD_PARTY_DIR.

Code:
cd $WM_THIRD_PARTY_DIR
./Allwmake > log.make 2>&1 &
Nobody can help you unless you provide more information.

P.S. Do not run stuff as root.
__________________
Laurence R. McGlashan :: Website
l_r_mcglashan is offline   Reply With Quote

Old   December 28, 2012, 05:28
Default
  #10
Senior Member
 
Dongyue Li
Join Date: Jun 2012
Location: Torino, Italy
Posts: 664
Rep Power: 8
sharonyue is on a distinguished road
Quote:
Originally Posted by l_r_mcglashan View Post
What is the result of:

Code:
ls $WM_THIRD_PARTY_DIR/platforms/linux64Gcc/openmpi-1.5.3/share/openmpi/
Does that path exist?

And also post the output of the Allwmake script that you ran in $WM_THIRD_PARTY_DIR.

Code:
cd $WM_THIRD_PARTY_DIR
./Allwmake > log.make 2>&1 &
Nobody can help you unless you provide more information.

P.S. Do not run stuff as root.

no it does not exits.

Code:
cfd@cfd:~/OpenFOAM/ThirdParty-2.1.x/platforms/linux64Gcc$ ls
paraview-3.12.0
I installed openmpi153 this way:

cd OpenFOAM/ThirdParty-2.1.x/openmpi1.5.3
./configure
make all install

then I set the .bashrc but it does not work. actually I dont know how to set the .bashrc. I search the internet.............




forget it !!!!! I just re-install my ubuntu and compile Openfoam.. I am totally pissed off! I am running interFoam on a mesh with 3,000,000 cells. thats too slow! I cant endure that. now I am so upset. I got have a rest.

anyway Thank you guys very much. I will update my problem later after I reinstall my ubuntu and foam.
sharonyue is offline   Reply With Quote

Old   December 28, 2012, 05:38
Default
  #11
Senior Member
 
Laurence R. McGlashan
Join Date: Mar 2009
Posts: 370
Rep Power: 14
l_r_mcglashan will become famous soon enough
Quote:
Originally Posted by sharonyue View Post
forget it !!!!! I just re-install my ubuntu and compile Openfoam.. I am totally pissed off!.
Don't do that, it will take even longer!

Unpack the openmpi sources into $WM_THIRD_PARTY_DIR and then just run the Allwmake script in $WM_THIRD_PARTY_DIR. That will install openmpi for you.
__________________
Laurence R. McGlashan :: Website
l_r_mcglashan is offline   Reply With Quote

Old   December 28, 2012, 05:40
Post
  #12
Senior Member
 
Tushar Chourushi
Join Date: Jul 2009
Location: IIT-Indore, India
Posts: 318
Blog Entries: 1
Rep Power: 8
Tushar@cfd is on a distinguished road
Check this link...
http://auriza.site40.net/notes/mpi/o...on-ubuntu-904/

Try installing it from the command prompt..


Best of luck...
Tushar@cfd is offline   Reply With Quote

Reply

Thread Tools
Display Modes

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off
Trackbacks are On
Pingbacks are On
Refbacks are On


Similar Threads
Thread Thread Starter Forum Replies Last Post
mpirun, best parameters pablodecastillo Hardware 17 April 27, 2012 13:05
MPI error florencenawei OpenFOAM Installation 3 October 10, 2011 01:21
Error using LaunderGibsonRSTM on SGI ALTIX 4700 jaswi OpenFOAM 2 April 29, 2008 10:54
Is Testsuite on the way or not lakeat OpenFOAM Installation 6 April 28, 2008 11:12
MPI and parallel computation Wang Main CFD Forum 7 April 15, 2004 11:25


All times are GMT -4. The time now is 03:38.