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Posted to commits@airavata.apache.org by sh...@apache.org on 2016/10/07 20:52:56 UTC
[29/31] airavata git commit: updating local to upstream develop
updating local to upstream develop
Project: http://git-wip-us.apache.org/repos/asf/airavata/repo
Commit: http://git-wip-us.apache.org/repos/asf/airavata/commit/fa5a1e0f
Tree: http://git-wip-us.apache.org/repos/asf/airavata/tree/fa5a1e0f
Diff: http://git-wip-us.apache.org/repos/asf/airavata/diff/fa5a1e0f
Branch: refs/heads/develop
Commit: fa5a1e0fc6fe2140f822525e313bc57566024294
Parents: 8469eff 9f0445f
Author: Anuj Bhandar <bh...@gmail.com>
Authored: Fri Oct 7 12:36:40 2016 -0400
Committer: Anuj Bhandar <bh...@gmail.com>
Committed: Fri Oct 7 12:36:40 2016 -0400
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.../server/handler/AiravataServerHandler.java | 11 +
.../java/org/apache/airavata/api/Airavata.java | 47254 +++++++++--------
.../main/resources/lib/airavata/Airavata.cpp | 506 +
.../src/main/resources/lib/airavata/Airavata.h | 146 +
.../lib/airavata/Airavata_server.skeleton.cpp | 5 +
.../resources/lib/Airavata/API/Airavata.php | 301 +
.../resources/lib/Airavata/Model/job/Types.php | 22 +-
.../lib/apache/airavata/api/Airavata-remote | 7 +
.../lib/apache/airavata/api/Airavata.py | 395 +
.../apache/airavata/model/ComponentStatus.java | 2 +-
.../org/apache/airavata/model/EdgeModel.java | 2 +-
.../org/apache/airavata/model/NodeModel.java | 2 +-
.../org/apache/airavata/model/PortModel.java | 2 +-
.../apache/airavata/model/WorkflowModel.java | 2 +-
.../apache/airavata/model/WorkflowStatus.java | 2 +-
.../ApplicationDeploymentDescription.java | 2 +-
.../appdeployment/ApplicationModule.java | 2 +-
.../appcatalog/appdeployment/CommandObject.java | 2 +-
.../appcatalog/appdeployment/SetEnvPaths.java | 2 +-
.../ApplicationInterfaceDescription.java | 2 +-
.../appcatalog/computeresource/BatchQueue.java | 2 +-
.../computeresource/CloudJobSubmission.java | 2 +-
.../ComputeResourceDescription.java | 2 +-
.../computeresource/GlobusJobSubmission.java | 2 +-
.../computeresource/JobSubmissionInterface.java | 2 +-
.../computeresource/LOCALSubmission.java | 2 +-
.../computeresource/ResourceJobManager.java | 2 +-
.../computeresource/SSHJobSubmission.java | 2 +-
.../computeresource/UnicoreJobSubmission.java | 2 +-
.../ComputeResourcePreference.java | 2 +-
.../gatewayprofile/GatewayResourceProfile.java | 2 +-
.../gatewayprofile/StoragePreference.java | 2 +-
.../StorageResourceDescription.java | 2 +-
.../UserComputeResourcePreference.java | 2 +-
.../UserResourceProfile.java | 2 +-
.../UserStoragePreference.java | 2 +-
.../application/io/InputDataObjectType.java | 2 +-
.../application/io/OutputDataObjectType.java | 2 +-
.../airavata/model/commons/ErrorModel.java | 2 +-
.../model/commons/ValidationResults.java | 2 +-
.../airavata/model/commons/ValidatorResult.java | 2 +-
.../data/movement/DataMovementInterface.java | 2 +-
.../data/movement/GridFTPDataMovement.java | 2 +-
.../model/data/movement/LOCALDataMovement.java | 2 +-
.../model/data/movement/SCPDataMovement.java | 2 +-
.../data/movement/UnicoreDataMovement.java | 2 +-
.../model/data/replica/DataProductModel.java | 2 +-
.../data/replica/DataReplicaLocationModel.java | 2 +-
.../model/error/AiravataClientException.java | 2 +-
.../model/error/AiravataSystemException.java | 2 +-
.../model/error/AuthenticationException.java | 2 +-
.../model/error/AuthorizationException.java | 2 +-
.../error/ExperimentNotFoundException.java | 2 +-
.../model/error/InvalidRequestException.java | 2 +-
.../model/error/LaunchValidationException.java | 2 +-
.../model/error/ProjectNotFoundException.java | 2 +-
.../airavata/model/error/TimedOutException.java | 2 +-
.../airavata/model/error/ValidationResults.java | 2 +-
.../airavata/model/error/ValidatorResult.java | 2 +-
.../model/experiment/ExperimentModel.java | 2 +-
.../model/experiment/ExperimentStatistics.java | 2 +-
.../experiment/ExperimentSummaryModel.java | 2 +-
.../experiment/UserConfigurationDataModel.java | 2 +-
.../apache/airavata/model/group/GroupModel.java | 2 +-
.../org/apache/airavata/model/job/JobModel.java | 2 +-
.../event/ExperimentStatusChangeEvent.java | 2 +-
.../messaging/event/ExperimentSubmitEvent.java | 2 +-
.../model/messaging/event/JobIdentifier.java | 2 +-
.../messaging/event/JobStatusChangeEvent.java | 2 +-
.../event/JobStatusChangeRequestEvent.java | 2 +-
.../airavata/model/messaging/event/Message.java | 2 +-
.../messaging/event/ProcessIdentifier.java | 2 +-
.../event/ProcessStatusChangeEvent.java | 2 +-
.../event/ProcessStatusChangeRequestEvent.java | 2 +-
.../messaging/event/ProcessSubmitEvent.java | 2 +-
.../messaging/event/ProcessTerminateEvent.java | 2 +-
.../model/messaging/event/TaskIdentifier.java | 2 +-
.../messaging/event/TaskOutputChangeEvent.java | 2 +-
.../messaging/event/TaskStatusChangeEvent.java | 2 +-
.../event/TaskStatusChangeRequestEvent.java | 2 +-
.../airavata/model/process/ProcessModel.java | 2 +-
.../ComputationalResourceSchedulingModel.java | 2 +-
.../airavata/model/security/AuthzToken.java | 2 +-
.../airavata/model/status/ExperimentStatus.java | 2 +-
.../apache/airavata/model/status/JobStatus.java | 2 +-
.../airavata/model/status/ProcessStatus.java | 2 +-
.../airavata/model/status/TaskStatus.java | 2 +-
.../model/task/DataStagingTaskModel.java | 2 +-
.../model/task/EnvironmentSetupTaskModel.java | 2 +-
.../model/task/JobSubmissionTaskModel.java | 2 +-
.../airavata/model/task/MonitorTaskModel.java | 2 +-
.../apache/airavata/model/task/TaskModel.java | 2 +-
.../airavata/model/user/NSFDemographics.java | 2 +-
.../apache/airavata/model/user/UserProfile.java | 2 +-
.../airavata/model/workspace/Gateway.java | 2 +-
.../apache/airavata/model/workspace/Group.java | 2 +-
.../airavata/model/workspace/Notification.java | 2 +-
.../airavata/model/workspace/Project.java | 2 +-
.../apache/airavata/model/workspace/User.java | 2 +-
modules/commons/pom.xml | 10 -
.../airavata/common/utils/AiravataUtils.java | 2 +-
.../apache/airavata/common/utils/XMLUtil.java | 586 -
.../airavata/common/utils/XmlFormatter.java | 82 -
.../airavata/common/utils/XMLUtilTest.java | 56 -
.../src/main/resources/FORK_Groovy.template | 13 +
.../server/src/main/resources/ForkTemplate.xslt | 24 -
.../server/src/main/resources/LSFTemplate.xslt | 92 -
.../src/main/resources/LSF_Groovy.template | 27 +
.../server/src/main/resources/PBSTemplate.xslt | 107 -
.../src/main/resources/PBS_Groovy.template | 31 +
.../src/main/resources/SLURMTemplate.xslt | 102 -
.../src/main/resources/SLURM_Groovy.template | 28 +
.../server/src/main/resources/UGETemplate.xslt | 78 -
.../src/main/resources/UGE_Groovy.template | 28 +
.../server/src/main/resources/logback.xml | 31 +
modules/distribution/pom.xml | 56 +-
.../src/main/assembly/bin-assembly.xml | 15 +-
modules/gfac/gfac-core/pom.xml | 33 +-
.../apache/airavata/gfac/core/GFacUtils.java | 171 +-
.../apache/airavata/gfac/core/GroovyMap.java | 94 +
.../airavata/gfac/core/JobDescriptor.java | 489 -
.../org/apache/airavata/gfac/core/Script.java | 75 +
.../gfac/core/cluster/OutputParser.java | 8 -
.../gfac/core/x2012/x12/AfterAnyList.java | 185 -
.../gfac/core/x2012/x12/AfterOKList.java | 185 -
.../gfac/core/x2012/x12/ExportProperties.java | 202 -
.../airavata/gfac/core/x2012/x12/InputList.java | 185 -
.../core/x2012/x12/JobDescriptorDocument.java | 131 -
.../gfac/core/x2012/x12/ModuleLoadCommands.java | 185 -
.../airavata/gfac/core/x2012/x12/PbsParams.java | 1500 -
.../gfac/core/x2012/x12/PostJobCommands.java | 185 -
.../gfac/core/x2012/x12/PreJobCommands.java | 185 -
.../core/x2012/x12/impl/AfterAnyListImpl.java | 254 -
.../core/x2012/x12/impl/AfterOKListImpl.java | 254 -
.../x2012/x12/impl/ExportPropertiesImpl.java | 252 -
.../gfac/core/x2012/x12/impl/InputListImpl.java | 254 -
.../x12/impl/JobDescriptorDocumentImpl.java | 96 -
.../x2012/x12/impl/ModuleLoadCommandsImpl.java | 254 -
.../gfac/core/x2012/x12/impl/PbsParamsImpl.java | 4381 --
.../x2012/x12/impl/PostJobCommandsImpl.java | 254 -
.../core/x2012/x12/impl/PreJobCommandsImpl.java | 254 -
.../src/main/resources/PBSJobDescriptor.xsd | 116 -
.../src/main/resources/gsissh-schemas.xsdconfig | 14 -
.../org/apache/airavata/gfac/impl/Factory.java | 11 +-
.../airavata/gfac/impl/GFacEngineImpl.java | 5 +
.../gfac/impl/job/ForkOutputParser.java | 5 -
.../airavata/gfac/impl/job/LSFOutputParser.java | 10 +-
.../airavata/gfac/impl/job/PBSOutputParser.java | 90 +-
.../gfac/impl/job/SlurmOutputParser.java | 61 +-
.../airavata/gfac/impl/job/UGEOutputParser.java | 89 +-
.../impl/task/DefaultJobSubmissionTask.java | 8 +-
.../gfac/impl/task/ForkJobSubmissionTask.java | 6 +-
.../catalog/impl/ExperimentRegistry.java | 8 +
.../src/main/resources/credstore-mysql.sql | 10 +-
.../org/apache/airavata/server/ServerMain.java | 1 +
.../engine/interpretor/WorkflowInterpreter.java | 1 -
.../invoker/MsgBoxWsaResponsesCorrelator.java | 2 +-
.../component/ws/WSComponentApplication.java | 1 -
.../workflow/model/gpel/script/BPELScript.java | 2 -
.../model/gpel/script/WorkflowWSDL.java | 1 -
.../airavata/workflow/model/wf/Workflow.java | 1 -
modules/workflow/workflow-core/pom.xml | 11 +-
.../apache/airavata/workflow/core/XMLUtil.java | 587 +
.../airavata/workflow/core/XmlFormatter.java | 82 +
.../airavata/workflow/core/XMLUtilTest.java | 56 +
pom.xml | 2 +
.../airavata-apis/airavata_api.thrift | 5 +
167 files changed, 26946 insertions(+), 34500 deletions(-)
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http://git-wip-us.apache.org/repos/asf/airavata/blob/fa5a1e0f/airavata-api/airavata-api-server/src/main/java/org/apache/airavata/api/server/handler/AiravataServerHandler.java
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