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From "Eroma (JIRA)" <j...@apache.org>
Subject [jira] [Reopened] (AIRAVATA-2560) Cannot submit a job using the key added to LDAP server
Date Tue, 30 Jan 2018 21:37:00 GMT

     [ https://issues.apache.org/jira/browse/AIRAVATA-2560?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel
]

Eroma reopened AIRAVATA-2560:
-----------------------------

Still having with job submission.

 Errors in the log: 

2018-01-30 21:12:57,565 [pool-7-thread-32] ERROR o.a.a.gfac.core.GFacException process_id=PROCESS_8ccb52a2-6053-487d-93a2-88ffebf76bd1,
token_id=7cd58288-c013-462b-b091-530d0ca1ebad, experiment_id=Mothur-1_3f40bbb8-13cf-4611-8eac-c9c8e095c063,
gateway_id=seagrid - JSch initialization error
com.jcraft.jsch.JSchException: Auth cancel
 at com.jcraft.jsch.Session.connect(Session.java:511)
 at com.jcraft.jsch.Session.connect(Session.java:183)
 at org.apache.airavata.gfac.impl.Factory.getSSHSession(Factory.java:537)
 at org.apache.airavata.gfac.impl.HPCRemoteCluster.getSshSession(HPCRemoteCluster.java:138)
 at org.apache.airavata.gfac.impl.HPCRemoteCluster.getSession(HPCRemoteCluster.java:315)
 at org.apache.airavata.gfac.impl.HPCRemoteCluster.makeDirectory(HPCRemoteCluster.java:242)
 at org.apache.airavata.gfac.impl.task.EnvironmentSetupTask.execute(EnvironmentSetupTask.java:51)
 at org.apache.airavata.gfac.impl.GFacEngineImpl.executeTask(GFacEngineImpl.java:814)
 at org.apache.airavata.gfac.impl.GFacEngineImpl.configureWorkspace(GFacEngineImpl.java:553)
 at org.apache.airavata.gfac.impl.GFacEngineImpl.executeTaskListFrom(GFacEngineImpl.java:324)
 at org.apache.airavata.gfac.impl.GFacEngineImpl.executeProcess(GFacEngineImpl.java:286)
 at org.apache.airavata.gfac.impl.GFacWorker.executeProcess(GFacWorker.java:227)
 at org.apache.airavata.gfac.impl.GFacWorker.run(GFacWorker.java:86)
 at org.apache.airavata.common.logging.MDCUtil.lambda$wrapWithMDC$0(MDCUtil.java:40)
 at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
 at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
 at java.lang.Thread.run(Thread.java:748)
2018-01-30 21:12:57,565 [pool-7-thread-32] ERROR o.a.a.g.i.t.EnvironmentSetupTask process_id=PROCESS_8ccb52a2-6053-487d-93a2-88ffebf76bd1,
token_id=7cd58288-c013-462b-b091-530d0ca1ebad, experiment_id=Mothur-1_3f40bbb8-13cf-4611-8eac-c9c8e095c063,
gateway_id=seagrid - Error while environment setup
org.apache.airavata.gfac.core.GFacException: JSch initialization error
 at org.apache.airavata.gfac.impl.Factory.getSSHSession(Factory.java:540)
 at org.apache.airavata.gfac.impl.HPCRemoteCluster.getSshSession(HPCRemoteCluster.java:138)
 at org.apache.airavata.gfac.impl.HPCRemoteCluster.getSession(HPCRemoteCluster.java:315)
 at org.apache.airavata.gfac.impl.HPCRemoteCluster.makeDirectory(HPCRemoteCluster.java:242)
 at org.apache.airavata.gfac.impl.task.EnvironmentSetupTask.execute(EnvironmentSetupTask.java:51)
 at org.apache.airavata.gfac.impl.GFacEngineImpl.executeTask(GFacEngineImpl.java:814)
 at org.apache.airavata.gfac.impl.GFacEngineImpl.configureWorkspace(GFacEngineImpl.java:553)
 at org.apache.airavata.gfac.impl.GFacEngineImpl.executeTaskListFrom(GFacEngineImpl.java:324)
 at org.apache.airavata.gfac.impl.GFacEngineImpl.executeProcess(GFacEngineImpl.java:286)
 at org.apache.airavata.gfac.impl.GFacWorker.executeProcess(GFacWorker.java:227)
 at org.apache.airavata.gfac.impl.GFacWorker.run(GFacWorker.java:86)
 at org.apache.airavata.common.logging.MDCUtil.lambda$wrapWithMDC$0(MDCUtil.java:40)
 at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
 at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
 at java.lang.Thread.run(Thread.java:748)
Caused by: com.jcraft.jsch.JSchException: Auth cancel
 at com.jcraft.jsch.Session.connect(Session.java:511)
 at com.jcraft.jsch.Session.connect(Session.java:183)
 at org.apache.airavata.gfac.impl.Factory.getSSHSession(Factory.java:537)
 ... 14 common frames omitted

 

2018-01-30 21:12:57,640 [pool-7-thread-32] ERROR o.a.a.gfac.impl.GFacEngineImpl process_id=PROCESS_8ccb52a2-6053-487d-93a2-88ffebf76bd1,
token_id=7cd58288-c013-462b-b091-530d0ca1ebad, experiment_id=Mothur-1_3f40bbb8-13cf-4611-8eac-c9c8e095c063,
gateway_id=seagrid - expId: Mothur-1_3f40bbb8-13cf-4611-8eac-c9c8e095c063, processId: PROCESS_8ccb52a2-6053-487d-93a2-88ffebf76bd1,
taskId: TASK_c9e1d3d4-0013-4eae-8081-75178cad2fdd type: ENV_SETUP,:- Input staging failed,
reason: Error while environment setup
2018-01-30 21:12:57,758 [pool-7-thread-32] ERROR o.a.a.gfac.impl.GFacWorker process_id=PROCESS_8ccb52a2-6053-487d-93a2-88ffebf76bd1,
token_id=7cd58288-c013-462b-b091-530d0ca1ebad, experiment_id=Mothur-1_3f40bbb8-13cf-4611-8eac-c9c8e095c063,
gateway_id=seagrid - GFac Worker throws an exception
org.apache.airavata.gfac.core.GFacException: Error while environment setup
 at org.apache.airavata.gfac.impl.GFacEngineImpl.configureWorkspace(GFacEngineImpl.java:572)
 at org.apache.airavata.gfac.impl.GFacEngineImpl.executeTaskListFrom(GFacEngineImpl.java:324)
 at org.apache.airavata.gfac.impl.GFacEngineImpl.executeProcess(GFacEngineImpl.java:286)
 at org.apache.airavata.gfac.impl.GFacWorker.executeProcess(GFacWorker.java:227)
 at org.apache.airavata.gfac.impl.GFacWorker.run(GFacWorker.java:86)
 at org.apache.airavata.common.logging.MDCUtil.lambda$wrapWithMDC$0(MDCUtil.java:40)
 at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
 at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
 at java.lang.Thread.run(Thread.java:748)

> Cannot submit a job using the key added to LDAP server
> ------------------------------------------------------
>
>                 Key: AIRAVATA-2560
>                 URL: https://issues.apache.org/jira/browse/AIRAVATA-2560
>             Project: Airavata
>          Issue Type: Bug
>          Components: gfc, PGA PHP Web Gateway
>    Affects Versions: 0.18
>         Environment: https://dev.seagrid.org
>            Reporter: Eroma
>            Assignee: Marcus Christie
>            Priority: Major
>             Fix For: 0.18
>
>
> Logged in to gateway using campus login.
> In dashboard got the messages saying I have an account in the campus cluster tds.uits.iu.edu.
> Submitted a job but the job fails due to jsch error [1].
> [1]
> 2017-10-16 20:32:31,747 [pool-7-thread-4] ERROR o.a.a.gfac.core.GFacException process_id=PROCESS_0f25d91c-09fa-42bd-b404-d87053abe080,
token_id=56db7d0f-7637-427d-b4f3-9b7da2be8b7d, experiment_id=Clone_of_Gaussian-T2_58a27f73-7e6b-4d79-9ebf-1b8d079805e1,
gateway_id=seagrid - JSch initialization error
> com.jcraft.jsch.JSchException: Auth cancel
>         at com.jcraft.jsch.Session.connect(Session.java:511)
>         at com.jcraft.jsch.Session.connect(Session.java:183)
>         at org.apache.airavata.gfac.impl.Factory.getSSHSession(Factory.java:542)
>         at org.apache.airavata.gfac.impl.HPCRemoteCluster.getSshSession(HPCRemoteCluster.java:138)
>         at org.apache.airavata.gfac.impl.HPCRemoteCluster.getSession(HPCRemoteCluster.java:315)
>         at org.apache.airavata.gfac.impl.HPCRemoteCluster.makeDirectory(HPCRemoteCluster.java:242)
>         at org.apache.airavata.gfac.impl.task.EnvironmentSetupTask.execute(EnvironmentSetupTask.java:51)
>         at org.apache.airavata.gfac.impl.GFacEngineImpl.executeTask(GFacEngineImpl.java:814)
>         at org.apache.airavata.gfac.impl.GFacEngineImpl.configureWorkspace(GFacEngineImpl.java:553)
>         at org.apache.airavata.gfac.impl.GFacEngineImpl.executeTaskListFrom(GFacEngineImpl.java:324)
>         at org.apache.airavata.gfac.impl.GFacEngineImpl.executeProcess(GFacEngineImpl.java:286)
>         at org.apache.airavata.gfac.impl.GFacWorker.executeProcess(GFacWorker.java:227)
>         at org.apache.airavata.gfac.impl.GFacWorker.run(GFacWorker.java:86)
>         at org.apache.airavata.common.logging.MDCUtil.lambda$wrapWithMDC$0(MDCUtil.java:40)
>         at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
>         at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
>         at java.lang.Thread.run(Thread.java:748)
> 2017-10-16 20:32:31,747 [pool-7-thread-4] ERROR o.a.a.g.i.t.EnvironmentSetupTask process_id=PROCESS_0f25d91c-09fa-42bd-b404-d87053abe080,
token_id=56db7d0f-7637-427d-b4f3-9b7da2be8b7d, experiment_id=Clone_of_Gaussian-T2_58a27f73-7e6b-4d79-9ebf-1b8d079805e1,
gateway_id=seagrid - Error while environment setup



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