Hi Luca, I don't think you compiled with debug information as you are not getting the file and line information (did you set the build type to debug?). This way you could post details of the line in CreateUnstructuredGridOutput. You could also go to that frame and list the local variables, e.g.
frame 8 info locals Zhamping: I have never used the format and don't know enough to see what is wrong here other than numElements is used quite a bit for for the operator new[] and also for seeking in the file. Sometimes this value is multiplied by a constant first - could it be that this should be of type long? (note: need more than a substitution at the top as it is passed to functions that require an int, e.g. ReadInt) Regards, Paul On 20 April 2010 14:12, <luca.cleme...@tororosso.com> wrote: > Dear Zhanping, > I have the gdb attache to my mpi pvserver processes, > what do you exactly want me to send you? > > Sincerely, > Luca > > Below the backtrace cut&paste of one of the pvserver. > > > (gdb) bt > #0 0x00002ac3b26b7bb5 in raise () from /lib64/libc.so.6 > #1 0x00002ac3b26b8fb0 in abort () from /lib64/libc.so.6 > #2 0x00002ac3b2439ae4 in __gnu_cxx::__verbose_terminate_handler () > from /usr/lib64/libstdc++.so.6 > #3 0x00002ac3b2437c26 in __gxx_personality_v0 () > from /usr/lib64/libstdc++.so.6 > #4 0x00002ac3b2437c53 in std::terminate () from /usr/lib64/libstdc++.so.6 > #5 0x00002ac3b2437d3a in __cxa_throw () from /usr/lib64/libstdc++.so.6 > #6 0x00002ac3b2438019 in operator new () from /usr/lib64/libstdc++.so.6 > #7 0x00002ac3b24380d9 in operator new[] () from /usr/lib64/libstdc++.so.6 > #8 0x00002ac3a573a196 in > vtkPEnSightGoldBinaryReader2::CreateUnstructuredGridOutput () > > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkPVFilters.so#9 > 0x00002ac3a574b465 in vtkPEnSightGoldBinaryReader2::ReadGeometryFile () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkPVFilters.so#10 > 0x00002ac3a5774781 in vtkPEnSightReader2::RequestData () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkPVFilters.so#11 > 0x00002ac3b18e8cec in vtkMultiBlockDataSetAlgorithm::ProcessRequest () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > > ---Type <return> to continue, or q <return> to quit--- > #12 0x00002ac3b180dcdc in vtkExecutive::CallAlgorithm () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #13 0x00002ac3b17f4a91 in vtkDemandDrivenPipeline::ExecuteData () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #14 0x00002ac3b17c8042 in vtkCompositeDataPipeline::ExecuteData () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #15 0x00002ac3b17f8be0 in vtkDemandDrivenPipeline::ProcessRequest () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #16 0x00002ac3b1992f3d in vtkStreamingDemandDrivenPipeline::ProcessRequest > () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #17 0x00002ac3b17c58de in vtkCompositeDataPipeline::ProcessRequest () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #18 0x00002ac3b17f872d in vtkDemandDrivenPipeline::UpdateData () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #19 0x00002ac3b19919d3 in vtkStreamingDemandDrivenPipeline::Update () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so---Type > <return> to continue, or q <return> to quit--- > .pv3.9 > #20 0x00002ac3b180e6f1 in vtkExecutive::Update () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #21 0x00002ac3b17f6bef in vtkDemandDrivenPipeline::Update () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #22 0x00002ac3b1989b35 in vtkStreamingDemandDrivenPipeline::Update () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #23 0x00002ac3b1770aa6 in vtkAlgorithm::Update () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #24 0x00002ac3a56e2bdb in vtkGenericEnSightReader2::RequestData () > > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkPVFilters.so#25 > 0x00002ac3b18e8cec in vtkMultiBlockDataSetAlgorithm::ProcessRequest () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > > #26 0x00002ac3b180dcdc in vtkExecutive::CallAlgorithm () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #27 0x00002ac3b17f4a91 in vtkDemandDrivenPipeline::ExecuteData () > ---Type <return> to continue, or q <return> to quit--- > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #28 0x00002ac3b17c8042 in vtkCompositeDataPipeline::ExecuteData () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #29 0x00002ac3b17f8be0 in vtkDemandDrivenPipeline::ProcessRequest () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #30 0x00002ac3b1992f3d in vtkStreamingDemandDrivenPipeline::ProcessRequest > () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #31 0x00002ac3b17c58de in vtkCompositeDataPipeline::ProcessRequest () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #32 0x00002ac3b17f872d in vtkDemandDrivenPipeline::UpdateData () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #33 0x00002ac3b19919d3 in vtkStreamingDemandDrivenPipeline::Update () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #34 0x00002ac3b180e6f1 in vtkExecutive::Update () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > ---Type <return> to continue, or q <return> to quit--- > #35 0x00002ac3b17f6bef in vtkDemandDrivenPipeline::Update () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #36 0x00002ac3b1989b35 in vtkStreamingDemandDrivenPipeline::Update () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #37 0x00002ac3b1770aa6 in vtkAlgorithm::Update () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFiltering.so.pv3.9 > #38 0x00002ac3a91e325d in vtkAlgorithmCommand () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFilteringCS.so > #39 0x00002ac3a928e39e in vtkMultiBlockDataSetAlgorithmCommand () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkFilteringCS.so > #40 0x00002ac3a63950ab in vtkGenericEnSightReader2Command () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkPVFiltersCS.so > #41 0x00002ac3a96e9023 in vtkClientServerInterpreter::ProcessCommandInvoke > () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkClientServer.so > #42 0x00002ac3a96e931e in vtkClientServerInterpreter::ProcessOneMessage () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkClientServer---Type > <return> to continue, or q <return> to quit--- > .so > #43 0x00002ac3a96e9589 in vtkClientServerInterpreter::ProcessStream () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkClientServer.so > #44 0x00002ac3a96e95ff in vtkClientServerInterpreter::ProcessStream () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkClientServer.so > #45 0x00002ac3a52540ca in vtkSelfConnection::ProcessStreamLocally () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkPVServerCommon.so > #46 0x00002ac3a51d7a54 in vtkMPISelfConnectionProcessRMI () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkPVServerCommon.so > #47 0x00002ac3abca0b14 in vtkMultiProcessController::ProcessRMI () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkParallel.so.pv3.9 > #48 0x00002ac3abca1734 in vtkMultiProcessController::ProcessRMIs () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkParallel.so.pv3.9 > #49 0x00002ac3abca17bf in vtkMultiProcessController::ProcessRMIs () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkParallel.so.pv3.9 > #50 0x00002ac3a51d75d9 in vtkMPISelfConnection::InitializeSatellite () > ---Type <return> to continue, or q <return> to quit--- > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkPVServerCommon.so > #51 0x00002ac3a51d7740 in vtkMPISelfConnection::Initialize () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkPVServerCommon.so > #52 0x00002ac3a51dcf2b in vtkProcessModuleConnectionManager::Initialize () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkPVServerCommon.so > #53 0x00002ac3a51e95d1 in vtkProcessModule::Start () > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkPVServerCommon.so > #54 0x00002ac3a57ef6f0 in vtkPVMain::Run () > > from > /home/lclementi/develop/paraview/paraview-cvs-bin/bin/libvtkPVFilters.so#55 > 0x0000000000401466 in main () > > -----paraview-boun...@paraview.org wrote: ----- >>Luca: >> >> >> >> Please try debugging it as Paul suggested and send the dump info >>to me. The parallel EnSight reader was added recently and there may >>be some unknown bugs, which may occur from parsing CASE files, >>reading geometry files, to loading data attribute files. >> >> >> >> Thanks. >> >> >> >> -Zhanping >> >> >> >>On Fri, Apr 16, 2010 at 4:58 AM, Paul Edwards >>< >>paul.m.edwa...@gmail.com >>> >> wrote: >> >> >>Did you compile it yourself? You could compile with debug >>information >> >>and attach a debugger to find out where it is happening. >> >> >> >>Regards, >> >>Paul >> >> >> >> >> >>On 16 April 2010 08:52, < >>luca.cleme...@tororosso.com >>> wrote: >> >>> Dear Stephane & Zhanping, >> >>> I tried to compile 3.8 from CVS, I did the checkout yesterday >>morning. >> >> >>> >> >>> But the problem persist, with the only difference that the error >>now appears >> >>> after few second from the moment I click on Apply button (below the >>error). >> >>> >> >>> Zhanping, >> >>> unfortunately I can't send the data file out :-( (it is also 20 >>GB). Is >> >> >>> there anything I can do to get more debugging output? >> >>> >> >>> Thank you for your help, >> >>> Luca >> >>> >> >>> >> >>> >> >>> --------------------------- >> >>> lcleme...@ws09:~/develop/paraview/paraview-cvs-bin/bin> >> >> >>> /home/lclementi/develop/paraview/mvapich2/bin/mpirun -np 8 >> >>> /home/lclementi/develop/paraview/paraview-cvs-bin/bin/pvserver >> >>> Listen on port: 11111 >> >>> Waiting for client... >> >>> Client connected. >> >> >>> Executing with: 0 >> >>> Executing with: 0 >> >>> Executing with: 0 >> >>> Executing with: 0 >> >>> Executing with: 0 >> >>> Executing with: 0 >> >>> Executing with: 0 >> >>> Executing with: 0 >> >>> Process id: 0 >> ERROR: In >> >> >>> >>/home/lclementi/develop/paraview/ParaView3-cvs/ParaView3/Servers/Comm >>on/vtkProcessModule.cxx, >> >>> line 1314 >> >>> vtkProcessModule (0x584160): Exception: Insufficient memory >>exception. >> >>> >> >>> terminate called after throwing an instance of 'std::bad_alloc' >> >> >>> what(): St9bad_alloc >> >>> terminate called after throwing an instance of 'std::bad_alloc' >> >>> what(): St9bad_alloc >> >>> terminate called after throwing an instance of 'std::bad_alloc' >> >>> what(): St9bad_alloc >> >> >>> terminate called after throwing an instance of 'std::bad_alloc' >> >>> what(): St9bad_alloc >> >>> rank 5 in job 3 ws09_35270 caused collective abort of all ranks >> >>> exit status of rank 5: killed by signal 9 >> >> >>> >> >>> --------------------------- >> >>> >> >>> ----- >>paraview-boun...@paraview.org >> wrote: ----- >> >>>> >> >>>>Luca, >> >>>> >> >>>>It seems you are using pv 3.6.2, could >> >> >>>>you try with paraview cvs or wait a few days and try it with the >>3.8 >> >>>>version? >> >>>> >> >>>> >> >>>>This kind of issue should be fixed now. >> >>>> >> >>>> >> >>>> >> >>>> >> >> >>>>Stephane >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >>zhanping....@kitware.com >> >> >>>> >> >>>> >> >>>> >> >>>>Envoyé par : >>paraview-boun...@paraview.org >> >>>> >> >>>> >> >>>>14/04/2010 16:13 >> >>>> >> >>>> >> >>>> >> >> >>>> >> >>>> >> >>>>A >> >>>> >> >>>> >>luca.cleme...@tororosso.com >> >>>> >> >>>> >> >>>> >> >>>>cc >> >>>> >> >>>> >>paraview@paraview.org >> >> >>>> >> >>>> >> >>>> >> >>>>Objet >> >>>> >> >>>>Re: [Paraview] Problem reading large >> >>>>data set (ensight format) >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>>Luca: >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> It is hard to determine what really >> >> >>>>causes this problem without loading the data to ParaView. Is that >> >>>>possible >> >>>>to share the dataset such that I can debug the code? >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >> >>>> thanks. >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> -Zhanping >> >>>> >> >>>> >> >>>> >> >>>> >> >>>>On Wed, Apr 14, 2010 at 4:58 AM, < >> >>>> >>luca.cleme...@tororosso.com >> >> >>>>> >> >>>>wrote: >> >>>> >> >>>> >> >>>>Hi all, >> >>>> >> >>>> >> >>>>I'm trying to read a large data set ~60Milion cells in Ensight >> >>>>format. >> >>>>The files on the disk are about 18GBs. >> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>>I compiled Paraview with mpich, I run 8 pvserver on my workstation >> >>>>with >> >>>>mpirun. My workstation has _144GB of RAM_ (which should be enough >>to >> >> >>>>load >> >>>>the entire data set), with two quad core. >> >>>> >> >>>> >> >>>> >> >>>> >> >>>>When I try to load the data set I always get the error reported >> >>>>below. >> >>>>I monitored the situation and when this happen my workstation RAM >> >> >>>>usage >> >>>>is only ~ 26%. >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>>Thank you for your help, >> >>>> >> >>>> >> >>>>Luca >> >>>> >> >>>> >> >>>> >> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>> >> >>>>------------------------------------------ >> >>>> >> >>>> >> >>>>lcleme...@ws09:~/develop/paraview/paraview-bin/bin> >> >>>>/home/lclementi/develop/paraview/mvapich2/bin/mpirun >> >> >>>>-np 8 /home/lclementi/develop/paraview/paraview-bin/bin/pvserver >> >>>> >> >>>> >> >>>>Listen on port: 11111 >> >>>> >> >>>> >> >>>>Waiting for client... >> >>>> >> >>>> >> >>>>Client connected. >> >> >>>> >> >>>> >> >>>>Process id: 0 >> ERROR: In >> >>>>/home/lclementi/develop/paraview/paraview-3.6.2-src/ParaView3/Serve >>rs >> >>>>/Common/vtkProcessModule.cxx, >> >>>>line 1297 >> >>>> >> >> >>>> >> >>>>vtkProcessModule (0x5d7330): Exception: Insufficient memory >> >>>>exception. >> >>>> >> >>>> >> >>>> >> >>>> >> >>>>terminate called after throwing an instance of 'std::bad_alloc' >> >> >>>> >> >>>> >> >>>>what(): St9bad_alloc >> >>>> >> >>>> >> >>>>terminate called after throwing an instance of 'std::bad_alloc' >> >>>> >> >>>> >> >>>>what(): St9bad_alloc >> >> >>>> >> >>>> >> >>>>terminate called after throwing an instance of 'std::bad_alloc' >> >>>> >> >>>> >> >>>>what(): St9bad_alloc >> >>>> >> >>>> >> >>>>terminate called after throwing an instance of 'std::bad_alloc' >> >> >>>> >> >>>> >> >>>>what(): St9bad_alloc >> >>>> >> >>>> >> >>>>rank 2 in job 1 ws09_35270 caused collective abort of all >> >>>>ranks >> >>>> >> >>>> >> >>>>exit status of rank 2: killed by signal 9 >> >> >>>> >> >>>> >> >>>>----------------------------------- >> >>>> >> >>>> >> >>>> >> >>>> >> >>>>___________________________________________________________________ >>__ >> >>>>____________________________________________ >> >> >>>> >> >>>> >> >>>>Questo messaggio è da intendersi esclusivamente ad uso del >> >>>>destinatario >> >>>>e può contenere informazioni che sono di natura privilegiata, >> >>>>confidenziale >> >>>> >> >> >>>> >> >>>>o non divulgabile secondo le leggi vigenti. 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If the reader of this message is >>not >> >>>>the >> >>>>intended recipient, or the employee or agent responsible for >> >>>>delivering >> >>>>the >> >> >>>> >> >>>> >> >>>>message to the intended recipient, you are hereby notified that any >> >>>>dissemination, >> >>>>distribution or copying of this communication is strictly >> >>>> >> >>>> >> >> >>>>prohibited. 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If the reader of this message is >>not the >> >>> intended recipient, or the employee or agent responsible for >>delivering the >> >>> message to the intended recipient, you are hereby notified that any >> >> >>> dissemination, distribution or copying of this communication is >>strictly >> >>> prohibited. If you have received this e-mail in error, please >>notify us >> >>> immediately by return e-mail and delete this e-mail and all >>attachments from >> >> >>> your system. >> >>> >>_____________________________________________________________________ >>____________________________________________ >> >>> >> >>> _______________________________________________ >> >>> Powered by >>www.kitware.com >> >> >>> >> >>> Visit other Kitware open-source projects at >> >>> >>http://www.kitware.com/opensource/opensource.html >> >>> >> >>> Please keep messages on-topic and check the ParaView Wiki at: >> >> >>> >>http://paraview.org/Wiki/ParaView >> >>> >> >>> Follow this link to subscribe/unsubscribe: >> >>> >>http://www.paraview.org/mailman/listinfo/paraview >> >> >>> >> >>> >> >>_______________________________________________ >> >>Powered by >>www.kitware.com >> >> >>Visit other Kitware open-source projects at >>http://www.kitware.com/opensource/opensource.html >> >> >> >>Please keep messages on-topic and check the ParaView Wiki at: >>http://paraview.org/Wiki/ParaView >> >> >>Follow this link to subscribe/unsubscribe: >> >>http://www.paraview.org/mailman/listinfo/paraview >> >> >> >> >> >>-- >> >>Zhanping Liu, PhD >> >>Kitware, Inc. >> >>28 Corporate Drive >> >>Clifton Park, NY 12065-8662 >> >>Phone: 518-371-3971 x 138 >> >>http://www.zhanpingliu.org >> >> >>_______________________________________________ >>Powered by www.kitware.com >> >>Visit other Kitware open-source projects at >>http://www.kitware.com/opensource/opensource.html >> >>Please keep messages on-topic and check the ParaView Wiki at: >>http://paraview.org/Wiki/ParaView >> >>Follow this link to subscribe/unsubscribe: >>http://www.paraview.org/mailman/listinfo/paraview >> >> > _________________________________________________________________________________________________________________ > Questo messaggio è da intendersi esclusivamente ad uso del destinatario e > può contenere informazioni che sono di natura privilegiata, confidenziale > o non divulgabile secondo le leggi vigenti. Se il lettore del presente > messaggio non è il destinatario designato, o il dipendente/agente > responsabile > per la consegna del messaggio al destinatario designato, si informa che ogni > disseminazione, distribuzione o copiatura di questa comunicazione è > strettamente proibita anche ai sensi del decreto legislativo 196/03 . Se > avete ricevuto questo messaggio per errore, vi preghiamo di notificarcelo > immediatamente a mezzo e-mail di risposta e successivamente di procedere > alla cancellazione di questa e-mail e relativi allegati dal vostro sistema. > _________________________________________________________________________________________________________________ > This message is intended only for the use of the addressee and may contain > information that is privileged, confidential and exempt from > disclosure under applicable law. If the reader of this message is not the > intended recipient, or the employee or agent responsible for delivering the > message to the intended recipient, you are hereby notified that any > dissemination, distribution or copying of this communication is strictly > prohibited. If you have received this e-mail in error, please notify us > immediately by return e-mail and delete this e-mail and all attachments from > your system. > _________________________________________________________________________________________________________________ > _______________________________________________ Powered by www.kitware.com Visit other Kitware open-source projects at http://www.kitware.com/opensource/opensource.html Please keep messages on-topic and check the ParaView Wiki at: http://paraview.org/Wiki/ParaView Follow this link to subscribe/unsubscribe: http://www.paraview.org/mailman/listinfo/paraview
