Re: [OMPI users] function fgets hangs a mpi program when it is used ompi-ps command

[Ralph Castain]

ompi-ps talks to mpirun to get the info, and then pretty-prints it to
stderr. Best guess is that it is having problems contacting mpirun. Are you
running it on the same node as mpirun (a requirement, unless you pass it the
full contact info)?

Check the ompi-ps man page and also "ompi-ps -h" to ensure you are running
it correctly. There may be options that would help to figure out what is
wrong (I forget what they all are).



On Thu, Sep 23, 2010 at 12:21 PM, Matheus Bersot Siqueira Barros <
matheusberso...@gmail.com> wrote:

> Jeff and Ralph,
>
> Thank you for your reply.
>
> 1) I'm not running on machines with OpenFabrics.
>
> 2) In my example, ompi-ps prints a maximum 82 bytes per line. Even so, I
> augment to 300 bytes per line to be sure that it is not the problem.
>
> char mystring [300];
> ...
> fgets (mystring , 300 , pFile);
>
> 2) When I run ps, it shows just two process: ps and bash.
> PID TTY  TIME  CMD
> 1961 pts/500:00:00 bash
> 2154 pts/500:00:00 ps
>
> But when I run ps -a -l, it appears my program(test.run) and other
> processes. I put below just the information related to my program.
>
> F S   UID   PID  PPID  C PRI  NI ADDR SZ WCHAN  TTY  TIME CMD
> 0 S  1000  1841  1840  0  80   0 - 18054 pipe_w pts/000:00:00 test.run
> 0 S  1000  1842  1840  0  80   0 - 18053 poll_s pts/000:00:00 test.run
> 0 S  1000  1843  1840  0  80   0 - 18053 poll_s pts/000:00:00 test.run
> 0 S  1000  1844  1840  0  80   0 - 18053 poll_s pts/000:00:00 test.run
>
> pipe_s  = wait state on read/write against a pipe.
>
> So, with that command I concluded that one mpi process is waiting for the
> read of a pipe.
>
> The problem still persists.
>
> Thanks,
> Matheus.
>
>
> On Wed, Sep 22, 2010 at 11:24 AM, Ralph Castain  wrote:
>
>> Printouts of less than 100 bytes would be unusual...but possible
>>
>>
>> On Wed, Sep 22, 2010 at 8:15 AM, Jeff Squyres  wrote:
>>
>>> Are you running on machines with OpenFabrics devices (that Open MPI is
>>> using)?
>>>
>>> Is ompi-ps printing 100 bytes or more?
>>>
>>> What does ps show when your program is hung?
>>>
>>>
>>>
>>> On Sep 17, 2010, at 3:13 PM, Matheus Bersot Siqueira Barros wrote:
>>>
>>> > Open MPI Version = 1.4.2
>>> > OS = Ubuntu 10.04 LTS and CentOS 5.3
>>> >
>>> > When I run the mpi program below in the terminal, the function fgets
>>> hangs.
>>> > How do I know it? I do a printf before and later the call of fgets and
>>> only the message "before fgets()" is showed.
>>> >
>>> > However, when I run the same program at Eclipse 3.6 with CDT
>>> 7.0.0.201006141710 or using gdb it runs normally.
>>> > If you change the command in the function popen  to another one(for
>>> instance: "ls -l"), it will run correctly.
>>> >
>>> > I use the following commands to compile and run the program:
>>> >
>>> > compile : mpicc teste.c -o teste.run
>>> >
>>> > run : mpirun -np 4 ./teste.run
>>> >
>>> >
>>> > Does anyone know why the program behaves like that?
>>> >
>>> > Thanks in advance,
>>> >
>>> > Matheus Bersot.
>>> >
>>> > MPI_PROGRAM:
>>> >
>>> > #include 
>>> > #include "mpi.h"
>>> >
>>> > int main(int argc, char *argv[])
>>> > {
>>> >int rank, nprocs;
>>> >FILE * pFile = NULL;
>>> >char mystring [100];
>>> >
>>> > MPI_Init(,);
>>> > MPI_Comm_size(MPI_COMM_WORLD,);
>>> > MPI_Comm_rank(MPI_COMM_WORLD,);
>>> >
>>> >if(rank == 0)
>>> >{
>>> >pFile = popen ("ompi-ps" , "r");
>>> >if (pFile == NULL) perror ("Error opening file");
>>> >else {
>>> >  while(!feof(pFile))
>>> >  {
>>> >printf("before fgets()\n");
>>> >fgets (mystring , 100 , pFile);
>>> >printf("after fgets()\n");
>>> >puts (mystring);
>>> >  }
>>> >  pclose (pFile);
>>> >}
>>> >   }
>>> >
>>> >   MPI_Finalize();
>>> >return 0;
>>> > }
>>> > ___
>>> > users mailing list
>>> > us...@open-mpi.org
>>> > http://www.open-mpi.org/mailman/listinfo.cgi/users
>>>
>>>
>>> --
>>> Jeff Squyres
>>> jsquy...@cisco.com
>>> For corporate legal information go to:
>>> http://www.cisco.com/web/about/doing_business/legal/cri/
>>>
>>>
>>> ___
>>> 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
>>
>
>
>
> --
> -
> "In moments of crisis, only the inspiration is more important than
> knowledge."
> (Albert Einstein)
>
> ___
> users mailing list
> us...@open-mpi.org
> http://www.open-mpi.org/mailman/listinfo.cgi/users
>

Re: [OMPI users] function fgets hangs a mpi program when it is used ompi-ps command

[Matheus Bersot Siqueira Barros]

Jeff and Ralph,

Thank you for your reply.

1) I'm not running on machines with OpenFabrics.

2) In my example, ompi-ps prints a maximum 82 bytes per line. Even so, I
augment to 300 bytes per line to be sure that it is not the problem.

char mystring [300];
...
fgets (mystring , 300 , pFile);

2) When I run ps, it shows just two process: ps and bash.
PID TTY  TIME  CMD
1961 pts/500:00:00 bash
2154 pts/500:00:00 ps

But when I run ps -a -l, it appears my program(test.run) and other
processes. I put below just the information related to my program.

F S   UID   PID  PPID  C PRI  NI ADDR SZ WCHAN  TTY  TIME CMD
0 S  1000  1841  1840  0  80   0 - 18054 pipe_w pts/000:00:00 test.run
0 S  1000  1842  1840  0  80   0 - 18053 poll_s pts/000:00:00 test.run
0 S  1000  1843  1840  0  80   0 - 18053 poll_s pts/000:00:00 test.run
0 S  1000  1844  1840  0  80   0 - 18053 poll_s pts/000:00:00 test.run

pipe_s  = wait state on read/write against a pipe.

So, with that command I concluded that one mpi process is waiting for the
read of a pipe.

The problem still persists.

Thanks,
Matheus.

On Wed, Sep 22, 2010 at 11:24 AM, Ralph Castain  wrote:

> Printouts of less than 100 bytes would be unusual...but possible
>
>
> On Wed, Sep 22, 2010 at 8:15 AM, Jeff Squyres  wrote:
>
>> Are you running on machines with OpenFabrics devices (that Open MPI is
>> using)?
>>
>> Is ompi-ps printing 100 bytes or more?
>>
>> What does ps show when your program is hung?
>>
>>
>>
>> On Sep 17, 2010, at 3:13 PM, Matheus Bersot Siqueira Barros wrote:
>>
>> > Open MPI Version = 1.4.2
>> > OS = Ubuntu 10.04 LTS and CentOS 5.3
>> >
>> > When I run the mpi program below in the terminal, the function fgets
>> hangs.
>> > How do I know it? I do a printf before and later the call of fgets and
>> only the message "before fgets()" is showed.
>> >
>> > However, when I run the same program at Eclipse 3.6 with CDT
>> 7.0.0.201006141710 or using gdb it runs normally.
>> > If you change the command in the function popen  to another one(for
>> instance: "ls -l"), it will run correctly.
>> >
>> > I use the following commands to compile and run the program:
>> >
>> > compile : mpicc teste.c -o teste.run
>> >
>> > run : mpirun -np 4 ./teste.run
>> >
>> >
>> > Does anyone know why the program behaves like that?
>> >
>> > Thanks in advance,
>> >
>> > Matheus Bersot.
>> >
>> > MPI_PROGRAM:
>> >
>> > #include 
>> > #include "mpi.h"
>> >
>> > int main(int argc, char *argv[])
>> > {
>> >int rank, nprocs;
>> >FILE * pFile = NULL;
>> >char mystring [100];
>> >
>> > MPI_Init(,);
>> > MPI_Comm_size(MPI_COMM_WORLD,);
>> > MPI_Comm_rank(MPI_COMM_WORLD,);
>> >
>> >if(rank == 0)
>> >{
>> >pFile = popen ("ompi-ps" , "r");
>> >if (pFile == NULL) perror ("Error opening file");
>> >else {
>> >  while(!feof(pFile))
>> >  {
>> >printf("before fgets()\n");
>> >fgets (mystring , 100 , pFile);
>> >printf("after fgets()\n");
>> >puts (mystring);
>> >  }
>> >  pclose (pFile);
>> >}
>> >   }
>> >
>> >   MPI_Finalize();
>> >return 0;
>> > }
>> > ___
>> > users mailing list
>> > us...@open-mpi.org
>> > http://www.open-mpi.org/mailman/listinfo.cgi/users
>>
>>
>> --
>> Jeff Squyres
>> jsquy...@cisco.com
>> For corporate legal information go to:
>> http://www.cisco.com/web/about/doing_business/legal/cri/
>>
>>
>> ___
>> 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
>



-- 
-
"In moments of crisis, only the inspiration is more important than
knowledge."
(Albert Einstein)

Re: [OMPI users] function fgets hangs a mpi program when it is used ompi-ps command

[Ralph Castain]

Printouts of less than 100 bytes would be unusual...but possible

On Wed, Sep 22, 2010 at 8:15 AM, Jeff Squyres  wrote:

> Are you running on machines with OpenFabrics devices (that Open MPI is
> using)?
>
> Is ompi-ps printing 100 bytes or more?
>
> What does ps show when your program is hung?
>
>
>
> On Sep 17, 2010, at 3:13 PM, Matheus Bersot Siqueira Barros wrote:
>
> > Open MPI Version = 1.4.2
> > OS = Ubuntu 10.04 LTS and CentOS 5.3
> >
> > When I run the mpi program below in the terminal, the function fgets
> hangs.
> > How do I know it? I do a printf before and later the call of fgets and
> only the message "before fgets()" is showed.
> >
> > However, when I run the same program at Eclipse 3.6 with CDT
> 7.0.0.201006141710 or using gdb it runs normally.
> > If you change the command in the function popen  to another one(for
> instance: "ls -l"), it will run correctly.
> >
> > I use the following commands to compile and run the program:
> >
> > compile : mpicc teste.c -o teste.run
> >
> > run : mpirun -np 4 ./teste.run
> >
> >
> > Does anyone know why the program behaves like that?
> >
> > Thanks in advance,
> >
> > Matheus Bersot.
> >
> > MPI_PROGRAM:
> >
> > #include 
> > #include "mpi.h"
> >
> > int main(int argc, char *argv[])
> > {
> >int rank, nprocs;
> >FILE * pFile = NULL;
> >char mystring [100];
> >
> > MPI_Init(,);
> > MPI_Comm_size(MPI_COMM_WORLD,);
> > MPI_Comm_rank(MPI_COMM_WORLD,);
> >
> >if(rank == 0)
> >{
> >pFile = popen ("ompi-ps" , "r");
> >if (pFile == NULL) perror ("Error opening file");
> >else {
> >  while(!feof(pFile))
> >  {
> >printf("before fgets()\n");
> >fgets (mystring , 100 , pFile);
> >printf("after fgets()\n");
> >puts (mystring);
> >  }
> >  pclose (pFile);
> >}
> >   }
> >
> >   MPI_Finalize();
> >return 0;
> > }
> > ___
> > users mailing list
> > us...@open-mpi.org
> > http://www.open-mpi.org/mailman/listinfo.cgi/users
>
>
> --
> Jeff Squyres
> jsquy...@cisco.com
> For corporate legal information go to:
> http://www.cisco.com/web/about/doing_business/legal/cri/
>
>
> ___
> users mailing list
> us...@open-mpi.org
> http://www.open-mpi.org/mailman/listinfo.cgi/users
>

Re: [OMPI users] function fgets hangs a mpi program when it is used ompi-ps command

[Jeff Squyres]

Are you running on machines with OpenFabrics devices (that Open MPI is using)?

Is ompi-ps printing 100 bytes or more?

What does ps show when your program is hung?



On Sep 17, 2010, at 3:13 PM, Matheus Bersot Siqueira Barros wrote:

> Open MPI Version = 1.4.2
> OS = Ubuntu 10.04 LTS and CentOS 5.3
> 
> When I run the mpi program below in the terminal, the function fgets hangs. 
> How do I know it? I do a printf before and later the call of fgets and only 
> the message "before fgets()" is showed.
> 
> However, when I run the same program at Eclipse 3.6 with CDT 
> 7.0.0.201006141710 or using gdb it runs normally. 
> If you change the command in the function popen  to another one(for instance: 
> "ls -l"), it will run correctly. 
> 
> I use the following commands to compile and run the program:
> 
> compile : mpicc teste.c -o teste.run
> 
> run : mpirun -np 4 ./teste.run
> 
> 
> Does anyone know why the program behaves like that?
>  
> Thanks in advance,
> 
> Matheus Bersot. 
> 
> MPI_PROGRAM:
> 
> #include 
> #include "mpi.h"
> 
> int main(int argc, char *argv[])
> {
>int rank, nprocs;
>FILE * pFile = NULL;
>char mystring [100];
> 
> MPI_Init(,);
> MPI_Comm_size(MPI_COMM_WORLD,);
> MPI_Comm_rank(MPI_COMM_WORLD,);
> 
>if(rank == 0)
>{
>pFile = popen ("ompi-ps" , "r");
>if (pFile == NULL) perror ("Error opening file");
>else {
>  while(!feof(pFile))
>  {   
>printf("before fgets()\n");
>fgets (mystring , 100 , pFile);  
>printf("after fgets()\n"); 
>puts (mystring);
>  }
>  pclose (pFile);
>}
>   }
> 
>   MPI_Finalize();
>return 0;
> }
> ___
> users mailing list
> us...@open-mpi.org
> http://www.open-mpi.org/mailman/listinfo.cgi/users


-- 
Jeff Squyres
jsquy...@cisco.com
For corporate legal information go to:
http://www.cisco.com/web/about/doing_business/legal/cri/