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From ramin...@apache.org
Subject [2/4] git commit: Merge branch 'master' of https://git-wip-us.apache.org/repos/asf/airavata
Date Thu, 28 Aug 2014 15:45:18 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/6c4471ad
Tree: http://git-wip-us.apache.org/repos/asf/airavata/tree/6c4471ad
Diff: http://git-wip-us.apache.org/repos/asf/airavata/diff/6c4471ad

Branch: refs/heads/master
Commit: 6c4471ada3585716426ff3ed1d8712b53e9b7126
Parents: b3775ec 36d0b76
Author: raminder <raminder@apache.org>
Authored: Mon Aug 25 12:00:17 2014 -0400
Committer: raminder <raminder@apache.org>
Committed: Mon Aug 25 12:00:17 2014 -0400

----------------------------------------------------------------------
 .../java-client-samples/pom.xml                 |   29 +-
 .../client/samples/CancelExperiments.java       |    2 -
 .../client/samples/CreateLaunchExperiment.java  |  145 +-
 .../samples/CreateLaunchExperimentUS3.java      |   80 +-
 .../samples/TestCreateLaunchExperiment.java     |   56 +-
 .../tools/RegisterSampleApplications.java       |   70 +-
 modules/airavata-client/pom.xml                 |    5 -
 .../airavata/client/AiravataAPIFactory.java     |   24 +-
 .../apache/airavata/client/AiravataClient.java  |  256 +-
 .../apache/airavata/client/api/AiravataAPI.java |    5 +-
 .../airavata/client/api/AiravataManager.java    |    6 +-
 .../org/apache/airavata/client/api/BaseAPI.java |    3 +-
 .../client/api/CredentialStoreManager.java      |   22 +-
 .../airavata/client/api/ExecutionManager.java   |  172 +-
 .../airavata/client/api/ProvenanceManager.java  |  938 +++---
 .../client/impl/AiravataManagerImpl.java        |  264 +-
 .../client/impl/ApplicationManagerImpl.java     |  525 ++--
 .../client/impl/CredentialStoreManagerImpl.java |   50 +-
 .../client/impl/ExecutionManagerImpl.java       |  366 ++-
 .../client/impl/PasswordCallBackImpl.java       |   78 +-
 .../client/impl/ProvenanceManagerImpl.java      | 1273 ++++----
 .../client/impl/WorkflowManagerImpl.java        |  365 +--
 .../client/tools/DocumentCreatorNew.java        |   34 +-
 .../client/tools/PeriodicExecutorThread.java    |    1 -
 .../client/airavata/AiravataClientTest.java     |   16 +-
 .../catalog/data/util/AppCatalogJPAUtils.java   |    1 +
 .../main/resources/airavata-client.properties   |    2 +-
 .../main/resources/airavata-server.properties   |    2 +-
 modules/distribution/client/java/pom.xml        |   10 -
 .../java/src/main/assembly/bin-assembly.xml     |    2 -
 modules/distribution/server/pom.xml             |   10 -
 .../server/src/main/assembly/bin-assembly.xml   |    2 -
 modules/gfac/airavata-gfac-service/pom.xml      |   25 +
 .../airavata/gfac/server/GfacServerHandler.java |   27 +-
 .../airavata/gfac/client/util/Initialize.java   |    9 +-
 .../gfac/bes/provider/impl/BESProvider.java     |   88 +-
 modules/gfac/gfac-core/pom.xml                  |   10 -
 .../apache/airavata/gfac/GFacConfiguration.java |   16 +-
 .../org/apache/airavata/gfac/Scheduler.java     |   10 -
 .../airavata/gfac/core/cpi/BetterGfacImpl.java  |   34 +-
 .../apache/airavata/gfac/core/cpi/GFacImpl.java | 1356 +++++----
 .../gfac/core/handler/AbstractHandler.java      |    4 +-
 .../handler/AbstractRecoverableHandler.java     |    4 +-
 .../core/handler/AppDescriptorCheckHandler.java |    5 -
 .../gfac/core/provider/AbstractProvider.java    |    3 +-
 .../provider/AbstractRecoverableProvider.java   |    3 +-
 .../airavata/gfac/core/utils/GFacUtils.java     |  303 +-
 .../apache/airavata/job/GFacConfigXmlTest.java  |   10 +-
 modules/gfac/gfac-ec2/pom.xml                   |    5 -
 .../apache/airavata/gfac/ec2/EC2Provider.java   |   18 +-
 .../airavata/gfac/ec2/EC2ProviderTest.java      |    6 +-
 .../impl/GramProviderTestWithMyProxyAuth.java   |    6 +-
 .../gsissh/provider/impl/GSISSHProvider.java    |    5 +-
 .../impl/GSISSHProviderTestWithMyProxyAuth.java |    6 +-
 .../gfac/services/impl/LocalProviderTest.java   |    2 +-
 modules/gfac/gfac-monitor/pom.xml               |   10 -
 .../handlers/GridPullMonitorHandler.java        |    5 +-
 .../handlers/GridPushMonitorHandler.java        |    4 +-
 .../monitor/impl/pull/qstat/HPCPullMonitor.java |   75 +-
 .../gfac/ssh/provider/impl/SSHProvider.java     |    3 +-
 .../services/impl/BigRed2TestWithSSHAuth.java   |    6 +-
 .../impl/SSHProviderTestWithSSHAuth.java        |    6 +-
 .../integration/AbstractIntegrationTest.java    |   22 +-
 .../apache/airavata/integration/BaseCaseIT.java |   96 +-
 .../airavata/integration/DataRetrievalIT.java   |   24 +-
 .../airavata/integration/ForEachCaseIT.java     |  134 +-
 .../integration/PasswordCallbackImpl.java       |   78 +-
 .../SingleAppIntegrationTestBase.java           |    2 +-
 .../WorkflowIntegrationTestBase.java            |  341 +--
 .../integration/WorkflowSamplesCaseIT.java      |  162 +-
 .../server/OrchestratorServerHandler.java       |   38 +-
 .../client/OrchestratorClientFactoryTest.java   |   26 +-
 .../orchestrator/client/util/Initialize.java    |    7 +-
 modules/orchestrator/orchestrator-core/pom.xml  |   10 +-
 .../core/OrchestratorConfiguration.java         |   12 -
 .../core/context/OrchestratorContext.java       |   11 -
 .../core/impl/GFACEmbeddedJobSubmitter.java     |    6 +-
 .../core/impl/GFACServiceJobSubmitter.java      |    2 -
 .../core/utils/OrchestratorUtils.java           |   25 +-
 .../cpi/impl/AbstractOrchestrator.java          |   98 +-
 .../cpi/impl/SimpleOrchestratorImpl.java        |   10 +-
 .../orchestrator/core/BaseOrchestratorTest.java |   38 +-
 .../orchestrator/core/NewOrchestratorTest.java  |   21 -
 .../orchestrator/core/util/Initialize.java      |    9 +-
 modules/registry/airavata-jpa-registry/pom.xml  |    5 -
 .../registry/jpa/JPAResourceAccessor.java       |   49 -
 .../persistance/registry/jpa/ResourceUtils.java |    2 +-
 .../registry/jpa/impl/AiravataJPARegistry.java  | 2838 ------------------
 ...avataRegistryConnectionDataProviderImpl.java |   42 -
 .../jpa/resources/ExperimentDataRetriever.java  |  543 ----
 .../registry/jpa/resources/UserResource.java    |    7 +-
 .../registry/jpa/AbstractResourceTest.java      |    2 +-
 .../registry/jpa/util/Initialize.java           |    9 +-
 modules/registry/pom.xml                        |    1 -
 modules/registry/registry-api/pom.xml           |   80 -
 .../registry/api/AiravataExperiment.java        |   73 -
 .../registry/api/AiravataRegistry2.java         |   65 -
 .../AiravataRegistryConnectionDataProvider.java |   29 -
 .../registry/api/AiravataRegistryFactory.java   |  140 -
 .../registry/api/AiravataSubRegistry.java       |   97 -
 .../airavata/registry/api/AiravataUser.java     |   48 -
 .../registry/api/ConfigurationRegistry.java     |   59 -
 .../registry/api/CredentialRegistry.java        |   69 -
 .../airavata/registry/api/DataRegistry.java     |   50 -
 .../registry/api/DescriptorRegistry.java        |   74 -
 .../airavata/registry/api/ExecutionErrors.java  |   33 -
 .../apache/airavata/registry/api/Gateway.java   |   47 -
 .../registry/api/OrchestratorRegistry.java      |  120 -
 .../airavata/registry/api/PasswordCallback.java |   25 -
 .../airavata/registry/api/ProjectsRegistry.java |   50 -
 .../registry/api/ProvenanceRegistry.java        |  528 ----
 .../registry/api/PublishedWorkflowRegistry.java |   45 -
 .../airavata/registry/api/ResourceMetadata.java |   70 -
 .../airavata/registry/api/UserRegistry.java     |   39 -
 .../registry/api/UserWorkflowRegistry.java      |   43 -
 .../airavata/registry/api/WorkspaceProject.java |   95 -
 .../AiravataRegUninitializedException.java      |   32 -
 .../DeploymentDescriptionRetrieveException.java |   35 -
 .../GatewayNotRegisteredException.java          |   32 -
 .../HostDescriptionRetrieveException.java       |   33 -
 .../RegAPIVersionIncompatibleException.java     |   39 -
 .../RegAccessorInstantiateException.java        |   32 -
 .../exception/RegAccessorInvalidException.java  |   32 -
 .../exception/RegAccessorNotFoundException.java |   32 -
 .../RegAccessorUndefinedException.java          |   40 -
 .../registry/api/exception/RegException.java    |   39 -
 .../exception/RegistrySettingsException.java    |   37 -
 .../RegistrySettingsLoadException.java          |   38 -
 .../ServiceDescriptionRetrieveException.java    |   35 -
 .../UnimplementedRegOperationException.java     |   32 -
 .../UnknownRegConnectionDataException.java      |   36 -
 .../UnspecifiedRegistrySettingsException.java   |   30 -
 .../DescriptorAlreadyExistsException.java       |   34 -
 .../DescriptorDoesNotExistsException.java       |   34 -
 .../gateway/InsufficientDataException.java      |   34 -
 .../gateway/MalformedDescriptorException.java   |   34 -
 ...PublishedWorkflowAlreadyExistsException.java |   34 -
 ...PublishedWorkflowDoesNotExistsException.java |   34 -
 .../ApplicationJobAlreadyExistsException.java   |   34 -
 .../ApplicationJobDoesNotExistsException.java   |   34 -
 .../ExperimentAlreadyExistsException.java       |   34 -
 .../ExperimentDoesNotExistsException.java       |   34 -
 .../worker/ExperimentLazyLoadedException.java   |   34 -
 .../InvalidApplicationJobIDException.java       |   34 -
 .../UserWorkflowAlreadyExistsException.java     |   34 -
 .../UserWorkflowDoesNotExistsException.java     |   34 -
 .../WorkflowInstanceAlreadyExistsException.java |   34 -
 .../WorkflowInstanceDoesNotExistsException.java |   34 -
 ...kflowInstanceNodeAlreadyExistsException.java |   34 -
 ...kflowInstanceNodeDoesNotExistsException.java |   34 -
 .../WorkspaceProjectAlreadyExistsException.java |   34 -
 .../WorkspaceProjectDoesNotExistsException.java |   34 -
 .../registry/api/impl/ExperimentDataImpl.java   |  221 --
 .../api/impl/WorkflowExecutionDataImpl.java     |  182 --
 .../api/orchestrator/OrchestratorData.java      |  113 -
 .../orchestrator/impl/OrchestratorDataImpl.java |  112 -
 .../registry/api/util/RegistryConstants.java    |   36 -
 .../registry/api/util/RegistrySettings.java     |  127 -
 .../registry/api/util/RegistryUtils.java        |  124 -
 .../registry/api/util/WebServiceUtil.java       |  202 --
 .../registry/api/workflow/ApplicationJob.java   |  295 --
 .../workflow/ApplicationJobExecutionError.java  |   67 -
 .../api/workflow/ApplicationJobStatusData.java  |   63 -
 .../registry/api/workflow/ExecutionError.java   |  103 -
 .../registry/api/workflow/ExperimentData.java   |  123 -
 .../api/workflow/ExperimentExecutionError.java  |   40 -
 .../api/workflow/ExperimentMetadata.java        |   49 -
 .../registry/api/workflow/ExperimentName.java   |   49 -
 .../registry/api/workflow/ExperimentUser.java   |   48 -
 .../registry/api/workflow/InputData.java        |   34 -
 .../api/workflow/NodeExecutionData.java         |  236 --
 .../api/workflow/NodeExecutionError.java        |   58 -
 .../api/workflow/NodeExecutionStatus.java       |   78 -
 .../registry/api/workflow/OutputData.java       |   34 -
 .../api/workflow/WorkflowExecution.java         |   69 -
 .../api/workflow/WorkflowExecutionData.java     |  118 -
 .../api/workflow/WorkflowExecutionError.java    |   49 -
 .../api/workflow/WorkflowExecutionStatus.java   |  128 -
 .../registry/api/workflow/WorkflowIOData.java   |   58 -
 .../api/workflow/WorkflowInstanceNode.java      |   67 -
 .../workflow/WorkflowInstanceNodePortData.java  |   89 -
 .../api/workflow/WorkflowNodeGramData.java      |   83 -
 .../api/workflow/WorkflowNodeIOData.java        |  114 -
 .../registry/api/workflow/WorkflowNodeType.java |   84 -
 .../api/workflow/WorkflowRunTimeData.java       |   90 -
 modules/registry/registry-cpi/pom.xml           |    5 +
 .../registry/cpi/utils/RegistrySettings.java    |  127 +
 modules/test-suite/pom.xml                      |    6 -
 modules/workflow-model/workflow-engine/pom.xml  |   12 -
 .../WorkflowInterpreterConfiguration.java       |    2 -
 modules/ws-messenger/messagebox/pom.xml         |    5 -
 modules/ws-messenger/messagebroker/pom.xml      |    5 -
 modules/xbaya-gui/pom.xml                       |    5 -
 .../xbaya/registry/PasswordCallbackImpl.java    |   78 +-
 .../ui/experiment/LaunchApplicationWindow.java  |  400 +++
 .../airavata/xbaya/ui/menues/RunMenuItem.java   |    9 +-
 pom.xml                                         |    2 +-
 samples/java-client/experiment/pom.xml          |   22 -
 tools/registry-tool/pom.xml                     |    5 -
 199 files changed, 4487 insertions(+), 14200 deletions(-)
----------------------------------------------------------------------


http://git-wip-us.apache.org/repos/asf/airavata/blob/6c4471ad/airavata-api/airavata-client-sdks/java-client-samples/src/main/java/org/apache/airavata/client/samples/CreateLaunchExperimentUS3.java
----------------------------------------------------------------------


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