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https://issues.apache.org/jira/browse/AIRAVATA-3276?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=17009894#comment-17009894
]
Marcus Christie commented on AIRAVATA-3276:
-------------------------------------------
When input is type URI, isRequired=true but it is hidden (and "showOptions"
"toggle" config is not applied), then the Orchestrator fails to create input
data staging tasks:
{noformat}
2020-01-07 16:42:26,519 [pool-31-thread-4] ERROR
o.a.a.o.s.OrchestratorServerHandler
experiment_id=Gaussian_on_Jan_7,_2020_11:42_AM_3e083097-4505-49e7-8983-f6842532eabe,
gateway_id=seagrid - Experiment launch failed due to Thrift conversion error,
experimentId:
Gaussian_on_Jan_7,_2020_11:42_AM_3e083097-4505-49e7-8983-f6842532eabe,
gatewayId: seagrid
org.apache.thrift.TException: Experiment
'Gaussian_on_Jan_7,_2020_11:42_AM_3e083097-4505-49e7-8983-f6842532eabe' launch
failed. Unable to figureout execution type for application
Gaussian_bd41aa7e-5ec0-4a11-a321-f35ba8bfce91
at
org.apache.airavata.orchestrator.server.OrchestratorServerHandler.launchExperiment(OrchestratorServerHandler.java:263)
at
org.apache.airavata.orchestrator.server.OrchestratorServerHandler.launchExperiment(OrchestratorServerHandler.java:723)
at
org.apache.airavata.orchestrator.server.OrchestratorServerHandler$ExperimentHandler.onMessage(OrchestratorServerHandler.java:677)
at
org.apache.airavata.messaging.core.impl.ExperimentConsumer.handleDelivery(ExperimentConsumer.java:84)
at
com.rabbitmq.client.impl.ConsumerDispatcher$5.run(ConsumerDispatcher.java:144)
at
com.rabbitmq.client.impl.ConsumerWorkService$WorkPoolRunnable.run(ConsumerWorkService.java:99)
at
java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1128)
at
java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:628)
at java.base/java.lang.Thread.run(Thread.java:834)
Caused by:
org.apache.airavata.orchestrator.core.exception.OrchestratorException: Error
during creating process
at
org.apache.airavata.orchestrator.cpi.impl.SimpleOrchestratorImpl.createAndSaveTasks(SimpleOrchestratorImpl.java:358)
at
org.apache.airavata.orchestrator.server.OrchestratorServerHandler.launchExperiment(OrchestratorServerHandler.java:231)
... 8 common frames omitted
Caused by: org.apache.airavata.common.exception.AiravataException: Error while
serializing data staging sub task model
at
org.apache.airavata.orchestrator.cpi.impl.SimpleOrchestratorImpl.createAndSaveInputDataStagingTasks(SimpleOrchestratorImpl.java:432)
at
org.apache.airavata.orchestrator.cpi.impl.SimpleOrchestratorImpl.createAndSaveTasks(SimpleOrchestratorImpl.java:324)
... 9 common frames omitted
Caused by: org.apache.thrift.protocol.TProtocolException: Required field
'source' is unset! Struct:DataStagingTaskModel(source:null,
destination:SCP://[email protected]:22/oasis/scratch/comet/gridchem/temp_project/seagrid_workdirs/PROCESS_4a4185a2-fa00-45b6-9fe2-069f3e825c09/,
type:INPUT, processInput:InputDataObjectType(name:test, type:URI,
standardInput:false, metaData:{"editor": {"dependencies": {"show":
{"Input-File": {"comparison": "equals", "value": "no"}}}}}, inputOrder:1,
isRequired:true, requiredToAddedToCommandLine:false, dataStaged:false,
isReadOnly:false))
at
org.apache.airavata.model.task.DataStagingTaskModel.validate(DataStagingTaskModel.java:847)
at
org.apache.airavata.model.task.DataStagingTaskModel$DataStagingTaskModelStandardScheme.write(DataStagingTaskModel.java:979)
at
org.apache.airavata.model.task.DataStagingTaskModel$DataStagingTaskModelStandardScheme.write(DataStagingTaskModel.java:891)
at
org.apache.airavata.model.task.DataStagingTaskModel.write(DataStagingTaskModel.java:767)
at org.apache.thrift.TSerializer.serialize(TSerializer.java:79)
at
org.apache.airavata.common.utils.ThriftUtils.serializeThriftObject(ThriftUtils.java:27)
at
org.apache.airavata.orchestrator.cpi.impl.SimpleOrchestratorImpl.getInputDataStagingTask(SimpleOrchestratorImpl.java:646)
at
org.apache.airavata.orchestrator.cpi.impl.SimpleOrchestratorImpl.createAndSaveInputDataStagingTasks(SimpleOrchestratorImpl.java:426)
... 10 common frames omitted
{noformat}
> BUG: non uploaded files argument appears in command-line in job script
> ----------------------------------------------------------------------
>
> Key: AIRAVATA-3276
> URL: https://issues.apache.org/jira/browse/AIRAVATA-3276
> Project: Airavata
> Issue Type: Sub-task
> Components: Django Portal
> Affects Versions: 0.18
> Environment: https://seagrid.org/
> Reporter: Eroma
> Assignee: Marcus Christie
> Priority: Major
> Fix For: 0.19
>
>
> 1. Created new application ABAQUS-6.14-1
> 2. In this application a file need to be uploaded as optional file.
> 3. This particular input also has an argument.
> 4. When the file is not uploaded the argument appears in command-line without
> the file.
> 5. The argument should only appear with the filename when the file is
> uploaded.
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