Raminder, I changed the permission over my script for the second application service and it worked fine.
Thank you, On Wed, Feb 6, 2013 at 4:08 PM, Raminder Singh <[email protected]>wrote: > According to Gram user guide [1], executable file permission does not > allow execution. This guide can help you with gram error codes. > > Thanks > Raminder > > 1. > http://www.globus.org/toolkit/docs/4.0/execution/prewsgram/user-index.html > > > On Feb 6, 2013, at 4:52 PM, Pedro da Silveira wrote: > > > Hi Raminder, > > > > I tested the task submission again. My workflow has 2 application > services > > and 4 inputs total. Those 2 tasks run in less than 5 minutes, it is a > just > > a test. > > The first application services ran successfully (File transfer and job), > > but the second application services didn't. The second application > services > > got the files transfer correctly, but did not submit the task to PBS. The > > Airavata server was constantly printing "Job Error Code: 72". > > Do you know what could possibly cause this message? > > > > This is the Airavata-Server log messages: > > > > [INFO] -----END DATA----- > > [INFO] Status is zero > > [INFO] Status of job > > > https://gridftp1.ls4.tacc.utexas.edu:50383/16289984330111623786/8943296923859958664/isFAILED > > [INFO] -----DATA----- > > [INFO] Status of job > > > https://gridftp1.ls4.tacc.utexas.edu:50383/16289984330111623786/8943296923859958664/isFAILED > > [INFO] -----END DATA----- > > [INFO] Job Error Code: 72 > > [ERROR] Context passed was NULL. > > java.lang.RuntimeException: Context passed was NULL. > > at > > > org.apache.airavata.workflow.tracking.impl.ProvenanceNotifierImpl.sendingFault(ProvenanceNotifierImpl.java:496) > > at > > > org.apache.airavata.workflow.tracking.impl.ProvenanceNotifierImpl.sendingFault(ProvenanceNotifierImpl.java:485) > > at > > > org.apache.airavata.core.gfac.notification.impl.WorkflowTrackingNotification.executionFail(WorkflowTrackingNotification.java:108) > > at > > > org.apache.airavata.core.gfac.notification.impl.DefaultNotifier.executionFail(DefaultNotifier.java:135) > > at > > > org.apache.airavata.core.gfac.provider.impl.GramProvider.executeApplication(GramProvider.java:225) > > at > > > org.apache.airavata.core.gfac.provider.AbstractProvider.execute(AbstractProvider.java:69) > > at > > > org.apache.airavata.core.gfac.services.impl.AbstractSimpleService.execute(AbstractSimpleService.java:118) > > at org.apache.airavata.core.gfac.GfacAPI.gridJobSubmit(GfacAPI.java:140) > > at > > > org.apache.airavata.xbaya.invoker.EmbeddedGFacInvoker.invoke(EmbeddedGFacInvoker.java:256) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpreter.handleWSComponent(WorkflowInterpreter.java:749) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpreter.executeDynamically(WorkflowInterpreter.java:533) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpreter.scheduleDynamically(WorkflowInterpreter.java:218) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpretorSkeleton.executeWorkflow(WorkflowInterpretorSkeleton.java:389) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpretorSkeleton.access$400(WorkflowInterpretorSkeleton.java:87) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpretorSkeleton$2.run(WorkflowInterpretorSkeleton.java:382) > > at java.lang.Thread.run(Thread.java:680) > > [INFO] -----DATA----- > > [INFO] Job Protocol : https > > Host name : gridftp1.ls4.tacc.utexas.edu > > Port number : 50383 > > Url path : 16289984330111623786/8943296923859958664/ > > User : null > > Pwd : null > > on host lonestar4.tacc.teragrid.org Job Exit Code = 72 > > [INFO] -----END DATA----- > > [ERROR] Job Protocol : https > > Host name : gridftp1.ls4.tacc.utexas.edu > > Port number : 50383 > > Url path : 16289984330111623786/8943296923859958664/ > > User : null > > Pwd : null > > on host lonestar4.tacc.teragrid.org Job Exit Code = 72 > > org.apache.airavata.core.gfac.exception.JobSubmissionFault: Job Protocol > > : https > > Host name : gridftp1.ls4.tacc.utexas.edu > > Port number : 50383 > > Url path : 16289984330111623786/8943296923859958664/ > > User : null > > Pwd : null > > on host lonestar4.tacc.teragrid.org Job Exit Code = 72 > > at > > > org.apache.airavata.core.gfac.provider.impl.GramProvider.executeApplication(GramProvider.java:222) > > at > > > org.apache.airavata.core.gfac.provider.AbstractProvider.execute(AbstractProvider.java:69) > > at > > > org.apache.airavata.core.gfac.services.impl.AbstractSimpleService.execute(AbstractSimpleService.java:118) > > at org.apache.airavata.core.gfac.GfacAPI.gridJobSubmit(GfacAPI.java:140) > > at > > > org.apache.airavata.xbaya.invoker.EmbeddedGFacInvoker.invoke(EmbeddedGFacInvoker.java:256) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpreter.handleWSComponent(WorkflowInterpreter.java:749) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpreter.executeDynamically(WorkflowInterpreter.java:533) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpreter.scheduleDynamically(WorkflowInterpreter.java:218) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpretorSkeleton.executeWorkflow(WorkflowInterpretorSkeleton.java:389) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpretorSkeleton.access$400(WorkflowInterpretorSkeleton.java:87) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpretorSkeleton$2.run(WorkflowInterpretorSkeleton.java:382) > > at java.lang.Thread.run(Thread.java:680) > > Caused by: java.lang.Exception: Job Protocol : https > > Host name : gridftp1.ls4.tacc.utexas.edu > > Port number : 50383 > > Url path : 16289984330111623786/8943296923859958664/ > > User : null > > Pwd : null > > on host lonestar4.tacc.teragrid.org Job Exit Code = 72 > > ... 12 more > > Exception in thread "Thread-67" > > org.apache.airavata.workflow.model.exceptions.WorkflowRuntimeException: > > org.apache.airavata.workflow.model.exceptions.WorkflowException: Job > > Protocol : https > > Host name : gridftp1.ls4.tacc.utexas.edu > > Port number : 50383 > > Url path : 16289984330111623786/8943296923859958664/ > > User : null > > Pwd : null > > on host lonestar4.tacc.teragrid.org Job Exit Code = 72 > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpretorSkeleton.executeWorkflow(WorkflowInterpretorSkeleton.java:392) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpretorSkeleton.access$400(WorkflowInterpretorSkeleton.java:87) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpretorSkeleton$2.run(WorkflowInterpretorSkeleton.java:382) > > at java.lang.Thread.run(Thread.java:680) > > Caused by: > org.apache.airavata.workflow.model.exceptions.WorkflowException: > > Job Protocol : https > > Host name : gridftp1.ls4.tacc.utexas.edu > > Port number : 50383 > > Url path : 16289984330111623786/8943296923859958664/ > > User : null > > Pwd : null > > on host lonestar4.tacc.teragrid.org Job Exit Code = 72 > > at > > > org.apache.airavata.xbaya.invoker.EmbeddedGFacInvoker.invoke(EmbeddedGFacInvoker.java:321) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpreter.handleWSComponent(WorkflowInterpreter.java:749) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpreter.executeDynamically(WorkflowInterpreter.java:533) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpreter.scheduleDynamically(WorkflowInterpreter.java:218) > > at > > > org.apache.airavata.xbaya.interpretor.WorkflowInterpretorSkeleton.executeWorkflow(WorkflowInterpretorSkeleton.java:389) > > ... 3 more > > Caused by: org.apache.airavata.core.gfac.exception.JobSubmissionFault: > Job > > Protocol : https > > Host name : gridftp1.ls4.tacc.utexas.edu > > Port number : 50383 > > Url path : 16289984330111623786/8943296923859958664/ > > User : null > > Pwd : null > > on host lonestar4.tacc.teragrid.org Job Exit Code = 72 > > at > > > org.apache.airavata.core.gfac.provider.impl.GramProvider.executeApplication(GramProvider.java:222) > > at > > > org.apache.airavata.core.gfac.provider.AbstractProvider.execute(AbstractProvider.java:69) > > at > > > org.apache.airavata.core.gfac.services.impl.AbstractSimpleService.execute(AbstractSimpleService.java:118) > > at org.apache.airavata.core.gfac.GfacAPI.gridJobSubmit(GfacAPI.java:140) > > at > > > org.apache.airavata.xbaya.invoker.EmbeddedGFacInvoker.invoke(EmbeddedGFacInvoker.java:256) > > ... 7 more > > Caused by: java.lang.Exception: Job Protocol : https > > Host name : gridftp1.ls4.tacc.utexas.edu > > Port number : 50383 > > Url path : 16289984330111623786/8943296923859958664/ > > User : null > > Pwd : null > > on host lonestar4.tacc.teragrid.org Job Exit Code = 72 > > ... 12 more > > > > > > Thank you, > > > > > > > > > > > > On Wed, Feb 6, 2013 at 9:23 AM, Raminder Singh <[email protected] > >wrote: > > > >> Hi Pedro, > >> > >> Can you check space in home directory of your account on Lonestar? I > have > >> seen such problem if you cross disk quota. Gram does not give any error > >> and job does not go into queue. If quota is fine then we need to debug > more. > >> > >> Thanks > >> Raminder > >> > >> On Feb 5, 2013, at 7:49 PM, Pedro da Silveira wrote: > >> > >>> Hi Dev, > >>> > >>> I am trying to submit a workflow using my Xsede account using Xbaya. It > >> has > >>> worked successfully using "ogce" account. > >>> I changed the file "airavata-server.properties" to use my Xsede portal > >>> account. > >>> > >>> myproxy.user=pedrorcs > >>> myproxy.pass=****** > >>> > >>> I also changed the Application Service to use a different settings like > >> my > >>> user $SCRATCH directory. > >>> > >>> Executable path: > >>> /scratch/00091/tg458470/executePwscf.sh > >>> > >>> Scratch Working directory: > >>> /scratch/00091/tg458470/Phonon > >>> > >>> I set the workflow to run then I setup correctly the local path to > input > >>> files on my desktop. > >>> All input files got transferred correctly, but the job were never not > >>> submitted to PBS. > >>> Can someone please clarify if I am doing something wrong? > >>> > >>> This is the log on Airavata-Server: > >>> > >>> > >> > ================================================================================================================= > >>> [INFO] Experiment launched > >>> :SimplePhonon_01a4d374-486f-4948-937f-a9de4b2b45eb > >>> [INFO] -----DATA----- > >>> [INFO] Start scheduling > >>> [INFO] -----END DATA----- > >>> [INFO] Searching registry for some deployed application hosts > >>> [INFO] Found service on: lonestar4.tacc.teragrid.org > >>> [INFO] Found service on: lonestar4.tacc.teragrid.org > >>> [INFO] -----DATA----- > >>> [INFO] Finish scheduling > >>> [INFO] -----END DATA----- > >>> null > >>> [INFO] Proxy file renewed to > >>> /tmp/x509up_upedrorcsed4c4290-90e6-40a6-bfe7-3c5239da1b7c for the user > >>> pedrorcs with 3600 lifetime. > >>> [INFO] Creating Directory = gridftp1.ls4.tacc.utexas.edu:2811 > >>> =//scratch/00091/tg458470/Phonon > >>> [INFO] Creating Directory = gridftp1.ls4.tacc.utexas.edu:2811 > >>> > >> > =//scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d > >>> [INFO] Creating Directory = gridftp1.ls4.tacc.utexas.edu:2811 > >>> > >> > =//scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/inputData > >>> [INFO] Creating Directory = gridftp1.ls4.tacc.utexas.edu:2811 > >>> > >> > =//scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/outputData > >>> org.globus.gsi.gssapi.GlobusGSSCredentialImpl@2161df1f > >>> [INFO] The remote file is > >>> > >> > ///scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/inputData/Pwscf_Input > >>> [INFO] Uploading file > >>> [INFO] Upload file > >>> > >> > to:///scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/inputData/Pwscf_Input > >>> is done > >>> org.globus.gsi.gssapi.GlobusGSSCredentialImpl@2161df1f > >>> [INFO] The remote file is > >>> > >> > ///scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/inputData/Mg.vbc3 > >>> [INFO] Uploading file > >>> [INFO] Upload file > >>> > >> > to:///scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/inputData/Mg.vbc3 > >>> is done > >>> org.globus.gsi.gssapi.GlobusGSSCredentialImpl@2161df1f > >>> [INFO] The remote file is > >>> > >> > ///scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/inputData/008Ocabm3.vdb > >>> [INFO] Uploading file > >>> [INFO] Upload file > >>> > >> > to:///scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/inputData/008Ocabm3.vdb > >>> is done > >>> [INFO] -----DATA----- > >>> [INFO] Start execution > >>> [INFO] -----END DATA----- > >>> org.globus.gsi.gssapi.GlobusGSSCredentialImpl@2161df1f > >>> [INFO] -----DATA----- > >>> [INFO] Finished launching job, Host = lonestar4.tacc.teragrid.org RSL > = > >> &( > >>> queue = "development" )( stdout = > >>> > >> > "/scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/lonestar_application.stdout" > >>> )( count = "12" )( executable = > "/scratch/00091/tg458470/executePwscf.sh" > >>> )( stderr = > >>> > >> > "/scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/lonestar_application.stderr" > >>> )( maxwalltime = "20" )( hostCount = "1" )( minmemory = "1024" )( > >> project = > >>> "TG-TRA120030" )( jobtype = "mpi" )( environment = ( "inputData" > >>> > >> > "/scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/inputData" > >>> ) ( "outputData" > >>> > >> > "/scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/outputData" > >>> ) )( proxy_timeout = "1" )( arguments = > >>> > >> > "///scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/inputData/Pwscf_Input" > >>> > >> > "///scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/inputData/Mg.vbc3" > >>> > >> > "///scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d/inputData/008Ocabm3.vdb" > >>> )( directory = > >>> > >> > "/scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d" > >>> )( maxmemory = "2048" ) working directory = > >>> > >> > /scratch/00091/tg458470/Phonon/AppSimplePhonon_Tue_Feb_05_18_30_22_CST_2013_7a7dded8-e058-4be2-ad43-cacf77b3138d > >>> temp directory = /scratch/00091/tg458470/Phonon Globus GateKeeper > >> Endpoint > >>> = gridftp1.ls4.tacc.utexas.edu:2119/jobmanager-sge > >>> [INFO] -----END DATA----- > >>> > >> > ================================================================================================================= > >>> > >>> > >>> Thank you so much, > >>> > >>> > >>> Pedro da Silveira > >> > >> > >
