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From scnakand...@apache.org
Subject [2/2] airavata git commit: Merge branch 'master' of https://git-wip-us.apache.org/repos/asf/airavata
Date Thu, 25 Jun 2015 15:25:34 GMT
Merge branch 'master' of https://git-wip-us.apache.org/repos/asf/airavata


Project: http://git-wip-us.apache.org/repos/asf/airavata/repo
Commit: http://git-wip-us.apache.org/repos/asf/airavata/commit/f200d50b
Tree: http://git-wip-us.apache.org/repos/asf/airavata/tree/f200d50b
Diff: http://git-wip-us.apache.org/repos/asf/airavata/diff/f200d50b

Branch: refs/heads/master
Commit: f200d50be55bd435e367494482d67881f4f19f51
Parents: aa2fab5 636a733
Author: Supun Nakandala <scnakandala@apache.org>
Authored: Thu Jun 25 20:55:13 2015 +0530
Committer: Supun Nakandala <scnakandala@apache.org>
Committed: Thu Jun 25 20:55:13 2015 +0530

----------------------------------------------------------------------
 .../java/org/apache/airavata/api/Airavata.java  |    2 +-
 .../Airavata/Model/Messaging/Event/Types.php    |  379 +++++-
 .../airavata/model/messaging/event/ttypes.py    |  335 +++++-
 .../org/apache/airavata/model/Workflow.java     |    2 +-
 .../ApplicationDeploymentDescription.java       |    2 +-
 .../appdeployment/ApplicationModule.java        |    2 +-
 .../appcatalog/appdeployment/SetEnvPaths.java   |    2 +-
 .../ApplicationInterfaceDescription.java        |    2 +-
 .../appcatalog/computeresource/BatchQueue.java  |    2 +-
 .../computeresource/CloudJobSubmission.java     |    2 +-
 .../ComputeResourceDescription.java             |    2 +-
 .../computeresource/DataMovementInterface.java  |    2 +-
 .../computeresource/GlobusJobSubmission.java    |    2 +-
 .../computeresource/GridFTPDataMovement.java    |    2 +-
 .../computeresource/JobSubmissionInterface.java |    2 +-
 .../computeresource/LOCALDataMovement.java      |    2 +-
 .../computeresource/LOCALSubmission.java        |    2 +-
 .../computeresource/ResourceJobManager.java     |    2 +-
 .../computeresource/SCPDataMovement.java        |    2 +-
 .../computeresource/SSHJobSubmission.java       |    2 +-
 .../computeresource/UnicoreDataMovement.java    |    2 +-
 .../computeresource/UnicoreJobSubmission.java   |    2 +-
 .../ComputeResourcePreference.java              |    2 +-
 .../gatewayprofile/GatewayResourceProfile.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 +-
 .../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 +-
 .../org/apache/airavata/model/job/JobModel.java |    2 +-
 .../event/ExperimentStatusChangeEvent.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     |  112 +-
 .../model/messaging/event/TaskIdentifier.java   |    2 +-
 .../messaging/event/TaskOutputChangeEvent.java  |    2 +-
 .../messaging/event/TaskStatusChangeEvent.java  |    2 +-
 .../event/TaskStatusChangeRequestEvent.java     |    2 +-
 .../model/messaging/event/TaskSubmitEvent.java  |    2 +-
 .../messaging/event/TaskTerminateEvent.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/ProcessState.java     |   36 +-
 .../airavata/model/status/ProcessStatus.java    |    2 +-
 .../airavata/model/status/TaskStatus.java       |    2 +-
 .../model/task/DataStagingTaskModel.java        |    2 +-
 .../apache/airavata/model/task/TaskModel.java   |    2 +-
 .../airavata/model/workspace/Gateway.java       |    2 +-
 .../apache/airavata/model/workspace/Group.java  |    2 +-
 .../airavata/model/workspace/Project.java       |    2 +-
 .../apache/airavata/model/workspace/User.java   |    2 +-
 distribution/pom.xml                            |    9 +-
 .../gaussian/handler/GaussianHandler.java       |  326 ++---
 .../org/apache/airavata/gfac/core/GFac.java     |   10 +-
 .../apache/airavata/gfac/core/GFacUtils.java    |   44 +-
 .../SSHPublicKeyAuthentication.java             |    2 +-
 .../SSHPublicKeyFileAuthentication.java         |    2 +-
 .../gfac/core/context/JobExecutionContext.java  |  988 +++++++--------
 .../gfac/core/context/ProcessContext.java       |    6 +
 .../airavata/gfac/core/monitor/MonitorID.java   |   30 +-
 .../java/com/jcraft/jsch/GSSContextX509.java    |  205 ++++
 .../UserAuthGSSAPIWithMICGSSCredentials.java    |    1 -
 .../apache/airavata/gfac/impl/GFacWorker.java   |   47 +-
 .../gfac/impl/job/PBSJobConfiguration.java      |  112 +-
 .../gfac/impl/task/SSHJobSubmissionTask.java    |   26 +-
 .../handler/LocalDirectorySetupHandler.java     |  124 +-
 .../gfac/local/handler/LocalInputHandler.java   |  184 +--
 .../gfac/local/provider/impl/LocalProvider.java |  618 +++++-----
 .../gfac/local/utils/LocalProviderUtil.java     |  102 +-
 .../ssh/handler/AdvancedSCPInputHandler.java    |  454 +++----
 .../ssh/handler/AdvancedSCPOutputHandler.java   |  450 +++----
 .../gfac/ssh/handler/NewSSHOutputHandler.java   |  156 +--
 .../ssh/handler/SSHDirectorySetupHandler.java   |  238 ++--
 .../gfac/ssh/handler/SSHInputHandler.java       |  386 +++---
 .../gfac/ssh/handler/SSHOutputHandler.java      |  510 ++++----
 .../gfac/ssh/provider/impl/SSHProvider.java     |  946 +++++++--------
 .../airavata/gfac/ssh/util/GFACSSHUtils.java    | 1124 +++++++++---------
 .../airavata/gfac/ssh/util/HandleOutputs.java   |  192 +--
 .../apache/airavata/gfac/server/GfacServer.java |    4 +-
 .../orchestrator/cpi/OrchestratorService.java   |  314 ++---
 .../cpi/orchestrator_cpi_serviceConstants.java  |    2 +-
 .../core/validator/JobMetadataValidator.java    |    9 +-
 .../validator/impl/BatchQueueValidator.java     |   14 +-
 .../impl/ExperimentStatusValidator.java         |   12 +-
 .../airavata/orchestrator/cpi/Orchestrator.java |   20 +-
 .../cpi/impl/SimpleOrchestratorImpl.java        |  104 +-
 .../orchestrator/orchestrator-service/pom.xml   |    5 -
 .../server/OrchestratorServerHandler.java       |  577 ++++-----
 .../orchestrator/util/DataModelUtils.java       |    4 +-
 .../OrchestratorServerThreadPoolExecutor.java   |    6 +-
 .../engine/interpretor/WorkflowInterpreter.java |   28 +-
 .../engine/invoker/WorkflowInputUtil.java       |    2 +-
 .../model/component/ComponentDataPort.java      |    2 +-
 .../amazon/InstanceComponentDataPort.java       |    2 +-
 .../component/dynamic/DynamicComponentPort.java |    2 +-
 .../component/ws/WSComponentApplication.java    |    6 +-
 .../ws/WSComponentApplicationParameter.java     |    3 +-
 .../model/component/ws/WSComponentPort.java     |    2 +-
 .../airavata/workflow/model/graph/DataPort.java |    2 +-
 .../airavata/workflow/model/graph/EPRPort.java  |    2 +-
 .../model/graph/amazon/InstanceDataPort.java    |    2 +-
 .../model/graph/dynamic/DynamicPort.java        |    2 +-
 .../model/graph/system/ConstantNode.java        |    2 +-
 .../model/graph/system/DifferedInputNode.java   |    2 +-
 .../model/graph/system/EndBlockNode.java        |    2 +-
 .../model/graph/system/EndDoWhileNode.java      |    2 +-
 .../model/graph/system/EndForEachNode.java      |    2 +-
 .../workflow/model/graph/system/EndifNode.java  |    2 +-
 .../workflow/model/graph/system/OutputNode.java |    2 +-
 .../model/graph/system/ParameterNode.java       |    3 +-
 .../model/graph/system/SystemDataPort.java      |    3 +-
 .../workflow/model/graph/system/SystemNode.java |    3 +-
 .../workflow/model/graph/ws/WSPort.java         |    2 +-
 .../workflow/model/wf/WorkflowInput.java        |    3 +-
 .../core/dag/nodes/WorkflowInputNode.java       |    2 +-
 .../core/dag/nodes/WorkflowInputNodeImpl.java   |    2 +-
 .../core/dag/nodes/WorkflowOutputNode.java      |    2 +-
 .../core/dag/nodes/WorkflowOutputNodeImpl.java  |    2 +-
 .../airavata/workflow/core/dag/port/InPort.java |    2 +-
 .../workflow/core/dag/port/InputPortIml.java    |    2 +-
 .../workflow/core/dag/port/OutPort.java         |    2 +-
 .../workflow/core/dag/port/OutPortImpl.java     |    2 +-
 .../core/parser/AiravataWorkflowParser.java     |   16 +-
 .../core/parser/AiravataWorkflowParserTest.java |    6 +-
 pom.xml                                         |    8 +-
 .../airavata-api/messaging_events.thrift        |    2 +-
 .../airavata-api/status_models.thrift           |    6 +
 .../orchestrator.cpi.service.thrift             |    8 +-
 151 files changed, 5121 insertions(+), 4389 deletions(-)
----------------------------------------------------------------------



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