[mpich-discuss] Segmentation Fault when running any application.

[Anthony Chan]

If your OpenMP contructs do not make any MPI call
(only the main thread is making MPI calls),
MPI_THREAD_FUNNELED should be used instead, e.g.

http://www.mpi-forum.org/docs/mpi-20-html/node165.htm

A.Chan

----- Original Message -----
> Hi,
> Make sure that you call MPI_Init_thread(..,MPI_THREAD_MULTIPLE,..) in
> your code instead of MPI_Init().
> 
> -Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" <michael.warthon at upr.edu>
> To: "Jayesh Krishna" <jayesh at mcs.anl.gov>
> Cc: mpich-discuss at mcs.anl.gov
> Sent: Sunday, November 20, 2011 11:34:43 AM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> One more question concerning this whole setup. If I wanted to compile
> an MPI program that used OpenMP, how would I go about doing that? I
> have tried to compile it but just adding the -fopenmp flag but when I
> tried to run the program using mpiexec the program did nothing. There
> was no compilation error or anything. When I commented out the lines
> concerning OpenMP, the program ran fine.
> 
> 
> On Fri, Nov 18, 2011 at 3:23 PM, Jayesh Krishna < jayesh at mcs.anl.gov >
> wrote:
> 
> 
> Glad to know it worked for you.
> The error messages are still annoying though. There are some known
> bugs with SMPD that might give these error messages (as you have
> already found) but unfortunately I haven't been able to recreate it
> here (Also we don't have dev resources to pursue this SMPD bug. So
> unfortunately you are stuck with the bug if you use SMPD.).
> 
> 
> Regards,
> Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> To: "Jayesh Krishna" < jayesh at mcs.anl.gov >
> Cc: mpich-discuss at mcs.anl.gov
> 
> 
> 
> Sent: Friday, November 18, 2011 2:36:59 PM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> Oh my god! It finally worked! Yes, apparently it was that I was
> compiling it for the 64-bit version of MPICH2. I ran the code and it
> worked fine even though it was giving me the error concerning the left
> socket in mpiexec. Since it is working correctly, I think everything
> is okay now. Thank you very much for helping me out these past couple
> of days. I greatly appreciate it!
> 
> 
> On Fri, Nov 18, 2011 at 2:11 PM, Jayesh Krishna < jayesh at mcs.anl.gov >
> wrote:
> 
> 
> Hi,
> Do you have a 64-bit version of MPICH2 installed in your system ? If
> so, you need to create 64-bit executable with gcc (Use "-m64" flag of
> gcc OR use mingw compilers that accept "-m64" option) .
> 
> (PS: On 64-bit systems I use mingw compilers,
> x86_64-w64-mingw32-g++ -I"/cygdrive/c/Program Files/MPICH2/include"
> -L"/cygdrive/c/Program Files/MPICH2/lib" hellow.c -lmpi
> 
> )
> 
> Regards,
> Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> To: "Jayesh Krishna" < jayesh at mcs.anl.gov >
> Cc: mpich-discuss at mcs.anl.gov
> 
> 
> 
> Sent: Friday, November 18, 2011 12:04:05 PM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> 
> Alright I entered that command in and the result was this:
> 
> /tmp/cc0GoDvV.o:hello.c:(.text+0x1f): undefined reference to
> `_MPI_Init'
> /tmp/cc0GoDvV.o:hello.c:(.text+0x36): undefined reference to
> `_MPI_Comm_size'
> /tmp/cc0GoDvV.o:hello.c:(.text+0x4d): undefined reference to
> `_MPI_Comm_rank'
> /tmp/cc0GoDvV.o:hello.c:(.text+0x64): undefined reference to
> `_MPI_Get_processor
> _name'
> /tmp/cc0GoDvV.o:hello.c:(.text+0x93): undefined reference to
> `_MPI_Finalize'
> collect2: ld returned 1 exit status
> 
> 
> On Fri, Nov 18, 2011 at 11:52 AM, Jayesh Krishna < jayesh at mcs.anl.gov
> > wrote:
> 
> 
> Hi,
> Try,
> 
> $ gcc -I "/cygdrive/c/Program Files/MPICH2/include" -L
> "/cygdrive/c/Program Files/MPICH2/lib" hello.c -o hello.exe -lmpi
> 
> 
> Regards,
> Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> To: "Jayesh Krishna" < jayesh at mcs.anl.gov >
> Cc: mpich-discuss at mcs.anl.gov
> 
> 
> 
> Sent: Friday, November 18, 2011 11:19:11 AM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> 
> If the program I am trying to compile will work with mpiexec even with
> the error present, then I will not install MPICH2 from source.
> Currently the command I am entering is:
> 
> $ gcc hello.c -o hello.exe -I "/cygdrive/c/Program
> Files/MPICH2/include" -L "/cygdrive/c/Program
> Files/MPICH2/lib/libmpi.a" -lmpi
> 
> The response I get is:
> 
> /usr/lib/gcc/i686-pc-cygwin/4.5.3/../../../../i686-pc-cygwin/bin/ld:
> cannot find
> -lmpi
> collect2: ld returned 1 exit status
> 
> Is there a verbose option for gcc in order to obtain more information
> about what is happening?
> 
> On Fri, Nov 18, 2011 at 10:32 AM, Jayesh Krishna < jayesh at mcs.anl.gov
> > wrote:
> 
> 
> Hi,
> If you are not too much concerned about performance you can
> configure/make/install MPICH2 from source on Cygwin.
> If you want help with compiling an MPI program with gcc libs please
> send us the complete command that you used to compile your code (From
> the error message it looks like you did not specify the path to
> libmpi.a , you need to specify the path using "-L" option).
> 
> (PS: Please provide as much details as possible)
> 
> Regards,
> Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> 
> To: "Jose Marques" < jmarques at itn.pt >, "Jayesh Krishna" <
> jayesh at mcs.anl.gov >
> Cc: mpich-discuss at mcs.anl.gov
> 
> 
> 
> Sent: Thursday, November 17, 2011 2:54:37 PM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> 
> Ok well I did a bit of searching on past discussions and it looks like
> the error will come up but won't affect how the program will run.
> However, it seems that I keep getting out of one problem and running
> into another. When I tried to compile the hello.c file again I got
> this error:
> 
> /usr/lib/gcc/i686-pc-cygwin/4.5.3/../../../../i686-pc-cygwin/bin/ld:
> cannot find
> -lmpi
> collect2: ld returned 1 exit status
> 
> I want to make sure that other executable will work for mpiexec so I
> would like to be able to compile hello.c and then test to see if it
> will run or not.
> 
> 
> On Thu, Nov 17, 2011 at 12:38 PM, Michael Warthon <
> michael.warthon at upr.edu > wrote:
> 
> 
> Thank you. Unfortunately I still get the same error regarding the
> closing of the left context socket.
> 
> 
> 
> 
> 
> On Thu, Nov 17, 2011 at 2:28 PM, Jose Marques < jmarques at itn.pt >
> wrote:
> 
> 
> 
> Michael,
> 
> There's a good set of instructions in
> http://www.petri.co.il/disable-uac-in-windows-7.htm
> 
> Rds,
> Jose
> 
> 
> 
> 
> On 17-11-2011 6:12, Michael Warthon wrote:
> 
> 
> 
> How do I go about turning that off?
> 
> 
> 
> On Nov 17, 2011, at 2:05 PM, Jose Marques < jmarques at itn.pt > wrote:
> 
> 
> 
> 
> Michael,
> 
> Did you switch off User Account Control in Windows 7 ? I think I had
> the same probs and solved them taking care of UAC.
> 
> Jose
> 
> On 17-11-2011 5:35, Michael Warthon wrote:
> 
> I am still getting the same error even after reinstalling SMPD. The
> MPICH2 that I have installed is the 64-bit version. My computer has
> windows 7, is a 64-bit operating system, and has an intel core i5 CPU
> processor. The installer I used mpich2-1.4.1p1-win-x86-64.msi is the
> correct one right?
> 
> 
> On Thu, Nov 17, 2011 at 12:22 PM, Jayesh Krishna < jayesh at mcs.anl.gov
> > wrote:
> 
> 
> Hi,
> The error message does not appear with the "-verbose" option (The
> launch mechanism with a "-verbose" option is different though).
> I think that the issue is still that MPICH2 was not installed
> correctly in your system (I verified that 1.4.1p1 works correctly -
> without error msgs - on our Srv2008). Please follow the steps below
> and let us know if it works for you,
> 
> # Right-click on the command prompt icon and select "Run as
> administrator" to open an admin command prompt
> # From the admin command prompt, uninstall SMPD using the "-uninstall"
> option (Type "smpd -uninstall")
> # From the admin command prompt, install SMPD using the "-install"
> option (Type "smpd -install")
> # Try running mpiexec from the admin command prompt (Type "mpiexec -n
> 2 hostname")
> # Try running mpiexec from a normal command prompt (Type "mpiexec -n 2
> hostname")
> 
> Let us know the results.
> 
> 
> Regards,
> Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> To: "Jayesh Krishna" < jayesh at mcs.anl.gov >
> Cc: mpich-discuss at mcs.anl.gov
> 
> 
> Sent: Thursday, November 17, 2011 10:10:28 AM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> 
> Alright. Attached is the text file with the complete message from the
> command: "c:\Program Files\MPICH2\bin\mpiexec" -verbose -n 2 hostname
> 
> I tried the other command and for some reason I am actually able to
> run the program even when the errors occur. This is the response I got
> when running the command:
> 
> C:\Users\Mike>"c:\Program Files\MPICH2\bin\mpiexec" -n 2 "C:\Program
> Files\MPICH
> 2\examples\cpi.exe"
> error closing the left context socket: Error = -1
> Enter the number of intervals: (0 quits) 100
> pi is approximately 3.1416009869231241, Error is 0.0000083333333309
> wall clock time = 0.000541
> Enter the number of intervals: (0 quits) 10
> pi is approximately 3.1424259850010983, Error is 0.0008333314113051
> wall clock time = 0.000047
> Enter the number of intervals: (0 quits) 0
> op_read error on left context: Error = -1
> unable to read the cmd header on the left context, Error = -1
> .
> Error posting readv, An existing connection was forcibly closed by the
> remote ho
> st.(10054)
> 
> 
> On Thu, Nov 17, 2011 at 9:56 AM, Jayesh Krishna < jayesh at mcs.anl.gov >
> wrote:
> 
> 
> Hi,
> Yes, please give us the output of the command with "-verbose" turned
> on.
> And for these tests, run mpiexec with the complete path ("c:\Program
> Files\MPICH2\bin\mpiexec" -verbose -n 2 hostname). Do you get the same
> error message when executing cpi ("c:\Program
> Files\MPICH2\bin\mpiexec" -n 2 "C:\Program
> Files\MPICH2\examples\cpi.exe")?
> 
> 
> Regards,
> Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> To: "Jayesh Krishna" < jayesh at mcs.anl.gov >
> Cc: mpich-discuss at mcs.anl.gov
> 
> 
> 
> Sent: Thursday, November 17, 2011 9:42:42 AM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> 
> For each command, this is the entire response that I get:
> 
> 
> C:\Users\Mike>mpiexec -validate
> SUCCESS
> 
> C:\Users\Mike>mpiexec -n 2 hostname
> error closing the left context socket: Error = -1
> 
> Mike-PC
> Mike-PC
> error closing the left context socket: Error = -1
> 
> C:\Users\Mike>
> 
> 
> Did you want me to use the verbose option?
> 
> On Thu, Nov 17, 2011 at 9:21 AM, Jayesh Krishna < jayesh at mcs.anl.gov >
> wrote:
> 
> 
> Hi,
> Please copy-paste the command and the response (the complete message)
> in your email.
> Are you able to validate the registered username/password (Type
> "mpiexec -validate" and it should return "SUCCESS")?
> 
> 
> Regards,
> Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> To: "Jayesh Krishna" < jayesh at mcs.anl.gov >
> 
> 
> 
> Cc: mpich-discuss at mcs.anl.gov
> Sent: Thursday, November 17, 2011 7:50:25 AM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> Ok. I have checked and yes smpd is running and I have given a
> sufficient username and password so that mpiexec will run. Now I am
> getting a new error when executing mpiexec -n 2 hostname where it is
> giving me this response:
> 
> error closing the left context socket: Error = -1
> 
> 
> On Wed, Nov 16, 2011 at 2:21 PM, Jayesh Krishna < jayesh at mcs.anl.gov >
> wrote:
> 
> 
> Hi,
> 
> 1. Make sure that the process manager, smpd, is running in your system
> (Look in the task manager/Process Explorer to see if there is a
> service named smpd running. Alternately you can run "smpd -status" to
> check if smpd is running)
> 
> 2. Run a simple non-MPI program like hostname from the command prompt
> using mpiexec (Type "mpiexec -n 2 hostname" ). When prompted for
> username/password give a valid Windows username/password.
> If mpiexec gives you an error, type "mpiexec -remove" to remove the
> existing registered username/password and then type "mpiexec
> -register" to register a new/valid Windows username/password. Re-run
> mpiexec.
> 
> 3. Run the sample MPI program, cpi.exe, provided with MPICH2 (mpiexec
> -n 2 C:\Progra~1\MPICH2\examples\cpi.exe)
> 
> >> I am getting an error when I look at the MPICH2 configurable
> >> settings ...
> 
> This is a known bug. Due to limited developer bandwidth we haven't
> been able to address this issue yet.
> 
> 
> Regards,
> Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> To: "Jayesh Krishna" < jayesh at mcs.anl.gov >
> 
> Sent: Wednesday, November 16, 2011 12:27:01 PM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> 
> 
> Alright. I have reinstalled MPICH2 using the method in section 9.4.
> However, I am not able to connect to the host it seems. I keep
> receiving this message when trying to execute a program:
> 
> 
> 
> Credentials for Mike rejected connecting to Mike-PC
> 
> Aborting: Unable to connect to Mike-PC
> Also, I am getting an error when I look at the MPICH2 configurable
> settings that says that MPICH2 is not installed or that it cannot
> query the host.
> 
> On Wed, Nov 16, 2011 at 9:35 AM, Jayesh Krishna < jayesh at mcs.anl.gov >
> wrote:
> 
> 
> Hi,
> Looks like MPICH2 was not installed correctly in your system.
> Uninstall your existing version of MPICH2. Please follow the steps in
> Section 9.4 (Not 9.1 -
> http://www.mcs.anl.gov/research/projects/mpich2/documentation/files/mpich2-1.4.1-installguide.pdf
> ) of the installer's guide to install MPICH2.
> 
> 
> 
> 
> (PS: I am assuming that you have Win7/Srv2008/...)
> 
> Regards,
> Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> To: "Jayesh Krishna" < jayesh at mcs.anl.gov >
> 
> 
> 
> Sent: Tuesday, November 15, 2011 9:04:57 PM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> 
> Yeah it must have been that I got the installation mixed up. I
> downloaded the windows installer and it finally compiled. So progess
> has been made as now I am getting this error when trying to run
> hello.exe:
> 
> 
> 
> Error while connecting to host, No connection could be made because
> the target m
> 
> achine actively refused it. (10061)
> 
> Connect on sock (host=localhost, port=8676) failed, exhaused all end
> points
> 
> Unable to connect to 'localhost:8676',
> 
> sock error: Error = -1
> 
> 
> On Tue, Nov 15, 2011 at 5:12 PM, Jayesh Krishna < jayesh at mcs.anl.gov >
> wrote:
> 
> 
> Hi,
> There are two ways you can use MPICH2 on Windows+cygwin,
> 
> # Download MPICH2 source compile/install it on Cygwin. Use mpicc to
> compile and use mpiexec (from this installation - NOT the one
> available with Windows installer) to run your program.
> 
> # Download MPICH2 Windows installer, install MPICH2 (using installer
> gui). Use the cygwin/gcc libs provided with the Windows installation
> to compile your code. Use mpiexec from the Windows installation to run
> your job.
> 
> Looks like you are mixing the approaches.
> 
> 
> Regards,
> Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> To: "Jayesh Krishna" < jayesh at mcs.anl.gov >
> 
> 
> 
> Sent: Tuesday, November 15, 2011 1:03:02 PM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> 
> I was using mpicc in order to compile it. Unfortunately I am still not
> able to compile the code even with the command you gave me. I used:
> 
> gcc -l/mpich_install/include -L/mpich_install/lib hello.c -lmpi
> 
> I still received the same error. Did I install it incorrectly maybe?
> 
> On Tue, Nov 15, 2011 at 12:42 PM, Jayesh Krishna < jayesh at mcs.anl.gov
> > wrote:
> 
> 
> Hi,
> How were you compiling your code before ?
> A command similar to,
> 
> "gcc -I/cygdrive/c/Progra~1/MPICH2/include
> -L/cygdrive/c/Progra~1/MPICH2/lib hello.c -o hello.exe -lmpi"
> 
> should work.
> 
> 
> Regards,
> jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> To: "Jayesh Krishna" < jayesh at mcs.anl.gov >
> 
> 
> 
> Sent: Tuesday, November 15, 2011 12:18:43 PM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> 
> Alright. Well I tried it and for some reason it is not able to see the
> library.
> I used the command:
> gcc -g hello.c -L\mpich_install\lib -lmpi
> 
> It ended up giving me an error saying:
> fatal error: mpi.h: No such file or directory
> 
> On Tue, Nov 15, 2011 at 10:32 AM, Jayesh Krishna < jayesh at mcs.anl.gov
> > wrote:
> 
> 
> Hi,
> Try using gcc (usual gcc stuff: specify include dirs using "-I", lib
> dirs using "-L") to compile your code and link it with "-lmpi" .
> 
> 
> Regards,
> Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> To: "Jayesh Krishna" < jayesh at mcs.anl.gov >
> 
> 
> 
> Sent: Tuesday, November 15, 2011 10:16:00 AM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> 
> What would be the correct command to use in cygwin in order to compile
> the code? Just want to make sure that I actually compiled it
> correctly.
> 
> 
> On Tue, Nov 15, 2011 at 10:10 AM, Jayesh Krishna < jayesh at mcs.anl.gov
> > wrote:
> 
> 
> Hi,
> I just tried compiling your code with cygwin gcc (3.4.4) + MPICH2
> 1.4.1p1 gcc libs and it worked for me (No seg fault, gives the
> expected output).
> Make sure that you are using the correct header files and libraries
> (MPICH2 libs and headers) when you compile your code.
> 
> Regards,
> 
> Jayesh
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> 
> 
> 
> To: "Jayesh Krishna" < jayesh at mcs.anl.gov >
> Sent: Tuesday, November 15, 2011 9:53:32 AM
> Subject: Re: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> Ah sorry. I forgot to include the p1 at the end of it. I am using
> mpich2 1.4.1p1
> 
> 
> On Tue, Nov 15, 2011 at 9:44 AM, Jayesh Krishna < jayesh at mcs.anl.gov >
> wrote:
> 
> 
> Did you try the latest stable release (1.4.1p1)?
> 
> -Jayesh
> 
> 
> ----- Original Message -----
> From: "Michael Warthon" < michael.warthon at upr.edu >
> To: mpich-discuss at mcs.anl.gov
> Sent: Monday, November 14, 2011 7:54:43 PM
> Subject: [mpich-discuss] Segmentation Fault when running any
> application.
> 
> 
> 
> Hello,
> 
> I am new to MPI and I went and installed mpich2 1.4.1 onto a windows
> system that is being used through cygwin. I have compiled the code
> that simply prints the process and rank as shown below.
> 
> 
> 
> #include <stdio.h>
> #include <mpi.h>
> 
> int main( int argc, char *argv[]) {
> 
> int numprocs, rank, namelen;
> char processor_name[MPI_MAX_PROCESSOR_NAME];
> 
> MPI_Init(&argc, &argv);
> MPI_Comm_size(MPI_COMM_WORLD, &numprocs);
> MPI_Comm_rank(MPI_COMM_WORLD, &rank);
> MPI_Get_processor_name(processor_name, &namelen);
> 
> printf( "Process %d on %s out of %d\n" , rank, processor_name,
> numprocs);
> 
> MPI_Finalize();
> }
> 
> Nothing too complicated. However, I still receive an error from the
> command line in cygwin that simply reads segmentation fault: (core
> dumped). The command I used was:
> 
> mpiexec -n 1 a.exe
> 
> No matter what executable I try to run, I still receive the same
> error. Any help regarding this would be greatly appreciated!
> _______________________________________________
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> 
> 
> 
> 
> 
> 
> 
> 
> 
> 
> _______________________________________________
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> --
> Dr. Jose G. Marques
> Reactor Manager
> Instituto Tecnologico e Nuclear phone: (+351) 219 946 115 Estrada
> Nacional 10 fax: (+351) 219 941 039 P-2686-953 Sacavem, Portugal
> --
> Dr. Jose G. Marques
> Reactor Manager
> Instituto Tecnologico e Nuclear phone: (+351) 219 946 115 Estrada
> Nacional 10 fax: (+351) 219 941 039 P-2686-953 Sacavem, Portugal
> 
> 
> 
> 
> 
> _______________________________________________
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