- getAllFileDescriptors(int, int) - Method in class edu.illinois.ncsa.file.service.FilesResource
-
get all file-descriptors
- getBean(Class<T>) - Static method in class edu.illinois.ncsa.domain.Persistence
-
- getBeanType() - Method in class edu.illinois.ncsa.domain.event.ObjectCreatedHandler
-
- getBeanType() - Method in class edu.illinois.ncsa.domain.event.ObjectRemovedHandler
-
- getBeanType() - Method in class edu.illinois.ncsa.domain.event.ObjectSelectedHandler
-
- getBeanType() - Method in class edu.illinois.ncsa.domain.event.ObjectUpdatedHandler
-
- getBlobs() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the set of blobs associated with the workflow too.
- getCancelQueue() - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Gets the value of the cancelQueue property.
- getCaptureStdErr() - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineImplementation
-
- getCaptureStdErr() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCToolImplementation
-
- getCaptureStdOut() - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineImplementation
-
- getCaptureStdOut() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCToolImplementation
-
- getChecksumValue(String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.FileUtils
-
Checksum using java.util.zip.
- getCommandArgs() - Method in class edu.illinois.ncsa.gondola.types.submission.StatusHandlerType
-
Gets the value of the commandArgs property.
- getCommandLineOptions() - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineImplementation
-
- getCommandLineOptions() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCToolImplementation
-
- getCommandPath() - Method in class edu.illinois.ncsa.gondola.types.submission.StatusHandlerType
-
Gets the value of the commandPath property.
- getContent() - Method in class edu.illinois.ncsa.gondola.types.service.ConnectionType
-
Gets the value of the content property.
- getContent() - Method in class edu.illinois.ncsa.gondola.types.service.DbcpType.Property
-
Gets the value of the content property.
- getContent() - Method in class edu.illinois.ncsa.gondola.types.submission.LineType
-
Gets the value of the content property.
- getContent() - Method in class edu.illinois.ncsa.gondola.types.submission.RegexType
-
Gets the value of the content property.
- getContributors() - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Return the set of PersonBeans that represents those that are contributors
to the workflow.
- getContributors() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the set of PersonBeans that represents those that are contributors
to the workflow tool.
- getContributors() - Method in class edu.illinois.ncsa.domain.Dataset
-
Return the set of PersonBeans that represents those that are contributors
to the artifact.
- getCreated() - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Return the date when the workflow was created.
- getCreateDate() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Return the date when the workflow step was created.
- getCreator() - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Return the PersonBean that is the creator of the execution
- getCreator() - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Return the PersonBean that is the creator of the workflow
- getCreator() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Return the PersonBean that is the creator of the workflow
- getCreator() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the PersonBean that is the creator of the workflow tool
- getCreator() - Method in class edu.illinois.ncsa.domain.Dataset
-
Return the PersonBean that is the creator of the artifact
- getCreatorId() - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Return the id of the creator of the execution
- getDAPLogFile(String, String, String) - Static method in class edu.illinois.ncsa.datawolf.service.utils.WorkflowUtil
-
- getDAPScript() - Static method in class edu.illinois.ncsa.datawolf.service.utils.WorkflowUtil
-
Create DataWolf tool shell script for calling SoftwareServers
- getDataId() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolData
-
Return the id of the workflow tool data.
- getDataset(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Returns the value for a specific dataset.
- getDataset(String) - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Returns the value for a specific dataset.
- getDataset(String) - Static method in class edu.illinois.ncsa.datawolf.service.client.DataWolfServiceClient
-
- getDataset(String) - Method in class edu.illinois.ncsa.datawolf.service.DatasetsResource
-
Get a dataset by Id
- getDatasets() - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- getDatasets() - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Returns a map fof all datasets to be used as inputs.
- getDatasets(int, int, String, String, boolean) - Method in class edu.illinois.ncsa.datawolf.service.DatasetsResource
-
Get all datasets
- getDatasets(int, int) - Method in class edu.illinois.ncsa.datawolf.service.LogFilesResource
-
Get all logfiles
- getDatasetZip(String) - Method in class edu.illinois.ncsa.datawolf.service.DatasetsResource
-
Get a dataset in zip with all other files by Id
- getDataURL() - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
- getDate() - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Return the date when the execution was created.
- getDate() - Method in class edu.illinois.ncsa.datawolf.domain.LogFile
-
Returns the date of when this log message was creaed.
- getDate() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the date when the workflow tool was created.
- getDate(long) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
Uses current system time if millis < 0.
- getDate() - Method in class edu.illinois.ncsa.domain.Dataset
-
Return the date when the artifact was created.
- getDateFromDateString(String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
Converts date-time String into Date object using the default formatter.
- getDateFromDateString(String, String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
Converts date-time String into Date object using the default formatter.
- getDateFromTimeString(String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
Uses current system time if timeString is null
.
- getDateString(Date) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
Converts Date object to String representation using the default
formatter.
- getDateString(Date, String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
Converts Date object to String representation using the given format
string.
- getDateString(long) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
Converts millisecond value to (default) formatted date string.
- getDateString(long, DateFormat) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
- getDateString(long, String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
- getDaysBetween(Calendar, Calendar) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
Calculates the number of days between two calendar days in a manner which
is independent of the Calendar type used.
- getDefaultDAOs() - Method in class edu.illinois.ncsa.datawolf.service.PersistenceModule
-
- getDescription() - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Return the description of the execution.
- getDescription() - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Return the description of the execution.
- getDescription() - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Return the description of the workflow.
- getDescription() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the description of the workflow tool.
- getDescription() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolData
-
Return the description of the workflow tool data.
- getDescription() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Return the description of the workflow parameter.
- getDescription() - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Dataset
-
Return the description of the dataset.
- getDescription() - Method in interface edu.illinois.ncsa.datawolf.executor.java.tool.JavaTool
-
Long textual description of the tool.
- getDescription() - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Return the description of the parameter.
- getDescription() - Method in class edu.illinois.ncsa.datawolf.tool.example.ShiftCharsTool
-
- getDescription() - Method in class edu.illinois.ncsa.domain.Dataset
-
Return the description of the artifact.
- getDriverClass() - Method in class edu.illinois.ncsa.gondola.types.service.ConnectionType
-
Gets the value of the driverClass property.
- getDrop() - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Gets the value of the drop property.
- getDTSShellScript() - Static method in class edu.illinois.ncsa.datawolf.service.utils.WorkflowUtil
-
Shell script to run DTS extractor
- getDTSTools(String, String, String) - Static method in class edu.illinois.ncsa.datawolf.service.utils.WorkflowUtil
-
Get list of DTS tools
- getEmail() - Method in class edu.illinois.ncsa.domain.Person
-
Gets the email of the person.
- getEntityManager() - Method in class edu.illinois.ncsa.jpa.dao.AbstractJPADao
-
- getEntityType() - Method in class edu.illinois.ncsa.jpa.dao.AbstractJPADao
-
- getEnv() - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineImplementation
-
- getEventType() - Method in class edu.illinois.ncsa.datawolf.domain.event.WorkflowToolChangedEvent
-
- getEventType() - Method in class edu.illinois.ncsa.datawolf.domain.event.WorkflowToolCreatedEvent
-
- getEventType() - Method in class edu.illinois.ncsa.datawolf.domain.event.WorkflowToolDeletedEvent
-
- getEventType() - Method in class edu.illinois.ncsa.datawolf.event.StepStateChangedEvent
-
- getEventType() - Method in interface edu.illinois.ncsa.domain.event.Event
-
- getEventType() - Method in class edu.illinois.ncsa.domain.event.ObjectCreatedEvent
-
- getEventType() - Method in class edu.illinois.ncsa.domain.event.ObjectRemovedEvent
-
- getEventType() - Method in class edu.illinois.ncsa.domain.event.ObjectSelectedEvent
-
- getEventType() - Method in class edu.illinois.ncsa.domain.event.ObjectUpdatedEvent
-
- getExecChannel() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHSession
-
The main purpose of the SSH connection: to do an exec.
- getExecutable() - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineImplementation
-
- getExecutable() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCToolImplementation
-
- getExecute() - Method in class edu.illinois.ncsa.gondola.types.service.InitializeType
-
Gets the value of the execute property.
- getExecution() - Method in class edu.illinois.ncsa.datawolf.event.StepStateChangedEvent
-
- getExecution(String) - Static method in class edu.illinois.ncsa.datawolf.service.client.DataWolfServiceClient
-
- getExecution(String) - Method in class edu.illinois.ncsa.datawolf.service.ExecutionsResource
-
Get a execution by Id
- getExecutionId() - Method in class edu.illinois.ncsa.datawolf.domain.HPCJobInfo
-
Return the execution id assigned by the engine
- getExecutionId() - Method in class edu.illinois.ncsa.datawolf.domain.LogFile
-
- getExecutionId() - Method in class edu.illinois.ncsa.datawolf.Executor
-
Returns the id of the execution associated with this executor.
- getExecutions(int, int, String, boolean) - Method in class edu.illinois.ncsa.datawolf.service.ExecutionsResource
-
Get all executions
- getExecutions(String, int, int, boolean) - Method in class edu.illinois.ncsa.datawolf.service.WorkflowsResource
-
Get all executions by workflow id
- getExecutionsByEmail(String) - Static method in class edu.illinois.ncsa.datawolf.service.client.DataWolfServiceClient
-
- getExecutionsByEmail(String, int, int) - Static method in class edu.illinois.ncsa.datawolf.service.client.DataWolfServiceClient
-
- getExecutor() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the executor of the tool
- getExecutorName() - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineExecutor
-
- getExecutorName() - Method in class edu.illinois.ncsa.datawolf.Executor
-
Name of the executor.
- getExecutorName() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCExecutor
-
- getExecutorName() - Method in class edu.illinois.ncsa.datawolf.executor.java.JavaExecutor
-
- getExecutors() - Method in class edu.illinois.ncsa.datawolf.Engine
-
- getExecutors() - Method in class edu.illinois.ncsa.datawolf.service.ExecutorsResource
-
Get all available executors
- getExpression() - Method in class edu.illinois.ncsa.gondola.types.submission.ParserType
-
Gets the value of the expression property.
- getExtraLocalExecutor() - Method in class edu.illinois.ncsa.datawolf.Engine
-
The number of additional jobs that can be scheduled on the local
executor.
- getFile(URL) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.UriUtils
-
For local file conversion.
- getFile(String, String) - Method in class edu.illinois.ncsa.datawolf.service.DatasetsResource
-
get the file with given id
- getFile(String) - Static method in class edu.illinois.ncsa.file.service.client.FileServiceClient
-
- getFile(String) - Method in class edu.illinois.ncsa.file.service.FilesResource
-
get the file with given id
- getFileDescriptor(String, String) - Method in class edu.illinois.ncsa.datawolf.service.DatasetsResource
-
Get a FileDescriptor by dataset-Id and filedescriptor-id
- getFileDescriptor(String) - Static method in class edu.illinois.ncsa.file.service.client.FileServiceClient
-
- getFileDescriptor(String) - Method in class edu.illinois.ncsa.file.service.FilesResource
-
get a file-descriptor with given id
- getFileDescriptors() - Method in class edu.illinois.ncsa.domain.Dataset
-
Return the set of file descriptors associated with the dataset.
- getFilename() - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- getFilename() - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
If this dataset originated in a filesystem, or is intended to be stored
in a filesystem, what filename is/should be used? If not, will return
null.
- getFirstName() - Method in class edu.illinois.ncsa.domain.Person
-
Gets the first name of the person.
- getFlag() - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- getFlags(String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.handlers.JobInfoParser
-
Translates the string representation of the flags into the corresponding
Java int value.
- getFlags() - Method in class edu.illinois.ncsa.gondola.types.submission.RegexType
-
Gets the value of the flags property.
- getFolder() - Method in class edu.illinois.ncsa.domain.impl.FileStorageDisk
-
- getForm() - Method in class edu.illinois.ncsa.file.service.FilesResource
-
get a file-descriptor with given id
- getFormattedErrorString(String, Throwable) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.ExceptionUtils
-
- getFrom() - Method in class edu.illinois.ncsa.gondola.types.submission.ExpressionGroupTranslatorType
-
Gets the value of the from property.
- getGondolaLogFile() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCExecutor
-
- getGroup() - Method in class edu.illinois.ncsa.gondola.types.submission.ExpressionGroupTranslatorType
-
Gets the value of the group property.
- getHostCertDir() - Method in class edu.illinois.ncsa.gondola.types.service.MyProxyType
-
Gets the value of the hostCertDir property.
- getHpcFile(String, String) - Method in class edu.illinois.ncsa.datawolf.service.ExecutionsResource
-
- getID() - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Dataset
-
Return the id of the dataset.
- getID() - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Return the id of the parameter.
- getId() - Method in class edu.illinois.ncsa.domain.AbstractBean
-
Return the id of the bean.
- getId() - Method in class edu.illinois.ncsa.gondola.types.submission.IdListType
-
Gets the value of the id property.
- getId() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the id property.
- getImplementation() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the implementation of the tool
- getInfo() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHSession
-
- getInitialize() - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Gets the value of the initialize property.
- getInitializeQueue() - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Gets the value of the initializeQueue property.
- getInjector() - Method in class edu.illinois.ncsa.datawolf.service.GuiceContextListener
-
- getInput(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Returns a specific input.
- getInput(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the input associated with this id.
- getInputOutput() - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- getInputs() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Returns a map of inputs from the workflow step.
- getInputs() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the collection of datasets that are inputs to the tool.
- getInputs() - Method in interface edu.illinois.ncsa.datawolf.executor.java.tool.JavaTool
-
Retrieve list of inputs for the tool.
- getInputs() - Method in class edu.illinois.ncsa.datawolf.tool.example.ShiftCharsTool
-
- getInputsToolData() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Returns a map of id of step's input to the tool's data definition.
- getInstanceId() - Method in class edu.illinois.ncsa.gondola.types.submission.JobStatusType
-
Gets the value of the instanceId property.
- getInstanceId() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the instanceId property.
- getJdbcAccess() - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Gets the value of the jdbcAccess property.
- getJdbcConnection() - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Gets the value of the jdbcConnection property.
- getJdbcDbcp() - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Gets the value of the jdbcDbcp property.
- getJobId() - Method in class edu.illinois.ncsa.datawolf.domain.HPCJobInfo
-
Return the job id from the scheduler
- getJobId() - Method in class edu.illinois.ncsa.gondola.types.submission.JobStatusType
-
Gets the value of the jobId property.
- getJobIdGroup() - Method in class edu.illinois.ncsa.gondola.types.submission.ParserType
-
Gets the value of the jobIdGroup property.
- getJobIdParser() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the jobIdParser property.
- getJobStatus(String) - Method in interface edu.illinois.ncsa.gondola.ISubmissionEngine
-
- getJobStatus(IdListType) - Method in interface edu.illinois.ncsa.gondola.ISubmissionEngineImpl
-
- getJobStatus() - Method in class edu.illinois.ncsa.gondola.types.submission.JobStatusListType
-
Gets the value of the jobStatus property.
- getKey() - Method in class edu.illinois.ncsa.clowder.dao.AbstractClowderDao
-
- getKey(URI) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.UriUtils
-
- getLastName() - Method in class edu.illinois.ncsa.domain.Person
-
Gets the last name of the person.
- getLCSuffix(String, String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.StringUtils
-
- getLevels() - Method in class edu.illinois.ncsa.domain.impl.FileStorageDisk
-
- getLine() - Method in class edu.illinois.ncsa.gondola.types.submission.ScriptType
-
Gets the value of the line property.
- getLog() - Method in class edu.illinois.ncsa.datawolf.domain.LogFile
-
Returns the filedescriptor of the log message.
- getLog() - Method in class edu.illinois.ncsa.datawolf.Executor
-
Return any log information.
- getLog() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCToolImplementation
-
- getLogFile(String) - Method in class edu.illinois.ncsa.datawolf.service.LogFilesResource
-
Get a dataset by Id
- getLogfiles(String) - Method in class edu.illinois.ncsa.datawolf.service.ExecutionsResource
-
Get all logfiles belonging to the execution
- getLogfiles(String, String) - Method in class edu.illinois.ncsa.datawolf.service.ExecutionsResource
-
Get the logfile belonging to a single step of the execution
- getMaxBatchInsert() - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Gets the value of the maxBatchInsert property.
- getMd5sum() - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
- getMd5sumAsBigInteger() - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
Returns the md5sum as a string of length 32.
- getMd5sumAsBytes() - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
- getMetadataJsonLD(String, String, String) - Static method in class edu.illinois.ncsa.datawolf.service.utils.WorkflowUtil
-
Get metadata for file extraction from api/files/{file-id}/metadata.jsonld
- getMimeType() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolData
-
Return the mime type of the workflow tool data.
- getMimeType() - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
Return the mime type of the artifact.
- getMinutesBetween(Calendar, Calendar) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
Calculates the number of minutes between two dates in a manner which is
independent of the Calendar type used.
- getModules(ServletContext) - Method in class edu.illinois.ncsa.datawolf.service.GuiceContextListener
-
- getMyproxySettings() - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Gets the value of the myproxySettings property.
- getMyproxyUser() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the myproxyUser property.
- getName(URI) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.PathUtils
-
Derives name from uri.
- getName() - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Dataset
-
Return the name of the dataset.
- getName() - Method in interface edu.illinois.ncsa.datawolf.executor.java.tool.JavaTool
-
Return the name of the tool.
- getName() - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Return the name of the paraemter.
- getName() - Method in class edu.illinois.ncsa.datawolf.tool.example.ShiftCharsTool
-
- getName() - Method in class edu.illinois.ncsa.domain.Person
-
This will return the formatted name.
- getName() - Method in class edu.illinois.ncsa.gondola.types.service.DbcpType
-
Gets the value of the name property.
- getName() - Method in class edu.illinois.ncsa.gondola.types.service.DbcpType.Property
-
Gets the value of the name property.
- getNewState() - Method in class edu.illinois.ncsa.datawolf.event.StepStateChangedEvent
-
- getNormalizedPath(URI) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.PathUtils
-
- getOp() - Method in class edu.illinois.ncsa.gondola.types.submission.ExpressionGroupTranslatorType
-
Gets the value of the op property.
- getOptionId() - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- getOptions() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Return the list of options for this parameter.
- getOptions() - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Returns array with all allowable options.
- getOutput(String) - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
- getOutput(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Returns a specific output.
- getOutput(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the output associated with this id.
- getOutput(String) - Method in interface edu.illinois.ncsa.datawolf.executor.java.tool.JavaTool
-
Retrieve a specific output.
- getOutput(String) - Method in class edu.illinois.ncsa.datawolf.tool.example.ShiftCharsTool
-
- getOutputs() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Returns a map of outputs from the workflow step.
- getOutputs() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the collection of datasets that are outputs to the tool.
- getOutputs() - Method in interface edu.illinois.ncsa.datawolf.executor.java.tool.JavaTool
-
Retrieve list of outputs for the tool.
- getOutputs() - Method in class edu.illinois.ncsa.datawolf.tool.example.ShiftCharsTool
-
- getOutputsToolData() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Returns a map of id of step's output to the tool's data definition.
- getParameter(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Returns the value for a specific parameter.
- getParameter(String) - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Returns the value for a specific parameter.
- getParameter(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Returns a specific parameter.
- getParameter(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the parameter associated with this id.
- getParameterId() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Return the id of the workflow parameter.
- getParameters() - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- getParameters() - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Returs the map of all parameters.
- getParameters() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Returns a map of parameters from the workflow step.
- getParameters() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the collection of parameters of the tool.
- getParameters() - Method in interface edu.illinois.ncsa.datawolf.executor.java.tool.JavaTool
-
Retrieve list of parameters for the tool.
- getParameters() - Method in class edu.illinois.ncsa.datawolf.tool.example.ShiftCharsTool
-
- getParent(URI) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.PathUtils
-
Derives parent uri from uri.
- getParser() - Method in class edu.illinois.ncsa.gondola.types.submission.StatusHandlerType
-
Gets the value of the parser property.
- getPassphrase() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHInfo
-
- getPassword() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHInfo
-
- getPassword() - Method in class edu.illinois.ncsa.domain.Account
-
- getPassword() - Method in class edu.illinois.ncsa.gondola.types.service.ConnectionType
-
Gets the value of the password property.
- getPerson(String) - Method in class edu.illinois.ncsa.datawolf.service.PersonsResource
-
Get a dataset by Id
- getPerson() - Method in class edu.illinois.ncsa.domain.Account
-
- getPersonByEmail(String) - Static method in class edu.illinois.ncsa.datawolf.service.client.DataWolfServiceClient
-
- getPersons(int, int, String, boolean) - Method in class edu.illinois.ncsa.datawolf.service.PersonsResource
-
Get all users
- getPrefix(String, String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.StringUtils
-
- getPreviousVersion() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the previous version of the workflow tool.
- getProperties() - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- getProperty(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- getProperty() - Method in class edu.illinois.ncsa.gondola.types.service.DbcpType
-
Gets the value of the property property.
- getProxyMarginInMins() - Method in class edu.illinois.ncsa.gondola.types.service.MyProxyType
-
Gets the value of the proxyMarginInMins property.
- getProxyRefreshInMins() - Method in class edu.illinois.ncsa.gondola.types.service.MyProxyType
-
Gets the value of the proxyRefreshInMins property.
- getQueueRefreshInSecs() - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Gets the value of the queueRefreshInSecs property.
- getRandomizedId(String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.StringUtils
-
Returns an id with a pretty good chance of being unique, by appending to
the given prefix the date, host and a random long.
- getRandomizedId(String, boolean, boolean, boolean, boolean) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.StringUtils
-
Returns an id by appending to the given prefix the date, host and a
random long.
- getRedirect(HttpRequest, HttpResponse, HttpContext) - Method in class edu.illinois.ncsa.clowder.ClowderRedirectStrategy
-
- getRelativePath(URI, URI) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.PathUtils
-
Determines the relative path of the second URI with respect to the first.
- getRelativePath(URI, URI, boolean) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.PathUtils
-
Determines the relative path of the second URI with respect to the first.
- getRemoteLog() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCExecutor
-
- getRemoteLog() - Method in class edu.illinois.ncsa.datawolf.RemoteExecutor
-
Checks the remote server for any log messages.
- getRequestedDao(Class<T>, String) - Method in class edu.illinois.ncsa.datawolf.service.PersistenceModule
-
- getResource(String) - Method in class edu.illinois.ncsa.datawolf.executor.java.DisposeClassLoader
-
Find the resource with the given name.
- getResourceAsStream(String) - Method in class edu.illinois.ncsa.datawolf.executor.java.DisposeClassLoader
-
Find the resource with the given name, and return an input stream that
can be used for reading it.
- getScript() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the script property.
- getSelectedBean() - Method in class edu.illinois.ncsa.domain.event.ObjectRemovedEvent
-
- getSelectedBean() - Method in class edu.illinois.ncsa.domain.event.ObjectSelectedEvent
-
- getSelectedBean() - Method in class edu.illinois.ncsa.domain.event.ObjectUpdatedEvent
-
- getSelectedBeans() - Method in class edu.illinois.ncsa.domain.event.ObjectCreatedEvent
-
- getSequenceId(String, long) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.StringUtils
-
Appends a sequence suffix to the base.
- getServer() - Method in class edu.illinois.ncsa.clowder.dao.AbstractClowderDao
-
- getServer() - Method in class edu.illinois.ncsa.clowder.impl.FileStorageClowder
-
- getServerUri() - Method in class edu.illinois.ncsa.gondola.types.service.MyProxyType
-
Gets the value of the serverUri property.
- getServiceUserHome() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the serviceUserHome property.
- getSize() - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
Returns the size of the blob, this is -2 if there is no blob associated
or the size has not been computed.
- getSpaces(int) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.StringUtils
-
- getSshHome() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHInfo
-
- getStackTrace(Throwable) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.ExceptionUtils
-
Redirects a stack trace into a String.
- getStackTrace(Throwable) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.StringUtils
-
Deprecated.
use ExceptionUtils
- getStandardError() - Method in class edu.illinois.ncsa.datawolf.domain.HPCJobInfo
-
Return the standard error from the job execution
- getStandardOutput() - Method in class edu.illinois.ncsa.datawolf.domain.HPCJobInfo
-
Return the standard output from the job execution
- getState() - Method in class edu.illinois.ncsa.datawolf.Executor
-
Return current state of the execution.
- getState(String) - Static method in class edu.illinois.ncsa.datawolf.service.client.DataWolfServiceClient
-
- getState(String) - Method in class edu.illinois.ncsa.datawolf.service.ExecutionsResource
-
Get the state all steps in an execution
- getState() - Method in class edu.illinois.ncsa.gondola.types.submission.JobStatusType
-
Gets the value of the state property.
- getStatusHandler() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the statusHandler property.
- getStatusRefreshInSecs() - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Gets the value of the statusRefreshInSecs property.
- getStderr() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.handlers.JobInfoParser
-
- getStderrError() - Method in class edu.illinois.ncsa.gondola.types.submission.ErrorHandlerType
-
Gets the value of the stderrError property.
- getStderrWarn() - Method in class edu.illinois.ncsa.gondola.types.submission.ErrorHandlerType
-
Gets the value of the stderrWarn property.
- getStdoutError() - Method in class edu.illinois.ncsa.gondola.types.submission.ErrorHandlerType
-
Gets the value of the stdoutError property.
- getStdoutWarn() - Method in class edu.illinois.ncsa.gondola.types.submission.ErrorHandlerType
-
Gets the value of the stdoutWarn property.
- getStep(String) - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Retrieve a specific step from the workflow.
- getStep() - Method in class edu.illinois.ncsa.datawolf.event.StepStateChangedEvent
-
- getStep(String, String) - Method in class edu.illinois.ncsa.datawolf.service.WorkflowsResource
-
Get a workflow step associated with a workflow
- getStepEnd(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Returns the end time of the step with the given id, or null if the step
has not ended.
- getStepId() - Method in class edu.illinois.ncsa.datawolf.domain.LogFile
-
- getStepId() - Method in class edu.illinois.ncsa.datawolf.Executor
-
Returns the id of the step associated with this executor.
- getStepQueued(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Returns the queued time of the step with the given id, or null if the
step has not been queued.
- getSteps() - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Retrieve the list of steps of a workflow.
- getSteps(String) - Method in class edu.illinois.ncsa.datawolf.Engine
-
- getSteps(String) - Method in class edu.illinois.ncsa.datawolf.service.WorkflowsResource
-
Get steps associated with a workflow
- getStepsEnd() - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- getStepsQueued() - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- getStepsStart() - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- getStepStart(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Returns the start time of the step with the given id, or null if the step
has not been started.
- getStepState(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Returns the state for a specific step.
- getStepState() - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- getSubmissionTemplate(String, String) - Method in class edu.illinois.ncsa.datawolf.service.ExecutionsResource
-
- getSubmitErrorHandler() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the submitErrorHandler property.
- getSubmitPath() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the submitPath property.
- getSubmitQueue() - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Gets the value of the submitQueue property.
- getSuffix(String, String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.StringUtils
-
- getTargetUri() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the targetUri property.
- getTargetUser() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the targetUser property.
- getTargetUserHome() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the targetUserHome property.
- getTemplate() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCToolImplementation
-
- getTerminatePath() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the terminatePath property.
- getTimeInMillis(long) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
Uses current system time if millis < 0.
- getTimeInMillis(String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
Uses current system time if dateTime is null
.
- getTimeInMillis(String, String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
Uses current system time if dateTime is null
.
- getTimeout() - Method in class edu.illinois.ncsa.datawolf.Engine
-
Return the timout the engine will wait when no steps are ready to be
executed, or executing before it declares the workflow aborted.
- getTitle() - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Return the title of the execution.
- getTitle() - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Return the title of the execution.
- getTitle() - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Return the title of the workflow.
- getTitle() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Return the title of the workflow step.
- getTitle() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the title of the workflow tool.
- getTitle() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolData
-
Return the title of the workflow tool data.
- getTitle() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Return the title of the workflow parameter.
- getTitle() - Method in class edu.illinois.ncsa.domain.Dataset
-
Return the title of the artifact.
- getTo() - Method in class edu.illinois.ncsa.gondola.types.submission.ExpressionGroupTranslatorType
-
Gets the value of the to property.
- getToken(String) - Method in class edu.illinois.ncsa.clowder.dao.AbstractClowderDao
-
- getToken() - Method in class edu.illinois.ncsa.domain.Account
-
- getTokenArray(String, String[], boolean, boolean) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.StringUtils
-
- getTool() - Method in class edu.illinois.ncsa.datawolf.domain.event.WorkflowToolChangedEvent
-
- getTool() - Method in class edu.illinois.ncsa.datawolf.domain.event.WorkflowToolCreatedEvent
-
- getTool() - Method in class edu.illinois.ncsa.datawolf.domain.event.WorkflowToolDeletedEvent
-
- getTool() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Return the tool for the workflow step.
- getToolClassName() - Method in class edu.illinois.ncsa.datawolf.executor.java.JavaToolImplementation
-
- getTranslator() - Method in class edu.illinois.ncsa.gondola.types.submission.ParserType
-
Gets the value of the translator property.
- getType() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Return the type of the workflow parameter.
- getType() - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- getType() - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Dataset
-
Return the type of the dataset.
- getType() - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Return the type of the parameter.
- getType() - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Gets the value of the type property.
- getUpdateQueue() - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Gets the value of the updateQueue property.
- getUri(String, String, int, String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.UriUtils
-
Constructs the uri string and creates a URI object.
- getUri(String, String, String, int, String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.UriUtils
-
Constructs the uri string and creates a URI object.
- getUri(String, URI) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.UriUtils
-
Constructs new uri from old, swapping out the old scheme for the new.
- getUri(URI, String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.UriUtils
-
Constructs new uri from old, updating path.
- getUri(URL) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.UriUtils
-
Constructs the uri from the url using protocol, host, port and path.
- getURI(File) - Method in class edu.illinois.ncsa.datawolf.executor.java.DisposeClassLoader
-
Get URL.
- getURIName(String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.PathUtils
-
Path is parsed using '/' as separator.
- getURIName(URI) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.PathUtils
-
Derives name from uri; calls overloaded method.
- getURIParent(String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.PathUtils
-
- getURL(File, boolean) - Method in class edu.illinois.ncsa.datawolf.executor.java.DisposeClassLoader
-
Get URL.
- getUser() - Method in class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHInfo
-
- getUser() - Method in class edu.illinois.ncsa.gondola.types.service.ConnectionType
-
Gets the value of the user property.
- getUserid() - Method in class edu.illinois.ncsa.domain.Account
-
- getValue() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Return the value of the workflow parameter.
- getValue() - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- getValue() - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Return the value of the parameter.
- getVersion() - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Return the version of the workflow tool.
- getVersion() - Method in interface edu.illinois.ncsa.datawolf.executor.java.tool.JavaTool
-
Return the version number of the tool.
- getVersion() - Method in class edu.illinois.ncsa.datawolf.tool.example.ShiftCharsTool
-
- getWorkerPool() - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Gets the value of the workerPool property.
- getWorkers() - Static method in class edu.illinois.ncsa.datawolf.LocalExecutor
-
- getWorkflow(String) - Static method in class edu.illinois.ncsa.datawolf.service.client.DataWolfServiceClient
-
- getWorkflow(String) - Method in class edu.illinois.ncsa.datawolf.service.WorkflowsResource
-
Get a workflow by Id
- getWorkflowId() - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Return the workflow that was executed.
- getWorkflowId() - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Return the workflow that was executed.
- getWorkflowJson(String) - Static method in class edu.illinois.ncsa.datawolf.service.client.DataWolfServiceClient
-
- getWorkflows(int, int, String, boolean) - Method in class edu.illinois.ncsa.datawolf.service.WorkflowsResource
-
Get all workflows
- getWorkflowTool(String) - Method in class edu.illinois.ncsa.datawolf.service.WorkflowToolsResource
-
Get a workflow tool by Id
- getWorkflowTools(int, int, boolean, String) - Method in class edu.illinois.ncsa.datawolf.service.WorkflowToolsResource
-
Get all workflow tools
- getWorkflowToolZip(String) - Method in class edu.illinois.ncsa.datawolf.service.WorkflowToolsResource
-
Export a workflow tool by id
- getWorkflowZip(String) - Method in class edu.illinois.ncsa.datawolf.service.WorkflowsResource
-
Get a workflow by Id
- getWorkingDir() - Method in class edu.illinois.ncsa.datawolf.domain.HPCJobInfo
-
Return the working directory for the job on the remote machine
- getWorkingDirectory() - Method in class edu.illinois.ncsa.gondola.types.submission.JobStatusType
-
Gets the value of the workingDirectory property.
- getX509Certificate() - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Gets the value of the x509Certificate property.
- group - Variable in class edu.illinois.ncsa.gondola.types.submission.ExpressionGroupTranslatorType
-
- GT - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- GT - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- GTGT - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- GTGT - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- GTLT - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- GTLT - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- GuiceContextListener - Class in edu.illinois.ncsa.datawolf.service
-
- GuiceContextListener() - Constructor for class edu.illinois.ncsa.datawolf.service.GuiceContextListener
-
- save(T) - Method in class edu.illinois.ncsa.clowder.dao.AbstractClowderDao
-
- save(Dataset) - Method in class edu.illinois.ncsa.clowder.dao.DatasetClowderDao
-
- save(T) - Method in interface edu.illinois.ncsa.domain.dao.IDao
-
- save(T) - Method in class edu.illinois.ncsa.jpa.dao.AbstractJPADao
-
- sb - Variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.OutputPipe
-
- SC - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- SC - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- sCHAR - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- sCHAR - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- SCRIPT - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- SCRIPT - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- script - Variable in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
- ScriptType - Class in edu.illinois.ncsa.gondola.types.submission
-
Java class for script-type complex type.
- ScriptType() - Constructor for class edu.illinois.ncsa.gondola.types.submission.ScriptType
-
- sDOUBLE - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- sDOUBLE - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- serialize(Date, JsonGenerator, SerializerProvider) - Method in class edu.illinois.ncsa.domain.jackson.JsonDateSerializer
-
- SERV_XSD - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- SERV_XSD - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- SERVER - Static variable in class edu.illinois.ncsa.datawolf.service.client.DataWolfServiceClient
-
- SERVER - Static variable in class edu.illinois.ncsa.file.service.client.FileServiceClient
-
- serverUri - Variable in class edu.illinois.ncsa.gondola.types.service.MyProxyType
-
- ServiceType - Class in edu.illinois.ncsa.gondola.types.service
-
Java class for service-type complex type.
- ServiceType() - Constructor for class edu.illinois.ncsa.gondola.types.service.ServiceType
-
- serviceUserHome - Variable in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
- setAllowEmpty(boolean) - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Set to true if the parameter should not be shown to the user.
- setAllowNull(boolean) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Sets whether or not the workflow parameter can be empty.
- setAlways(Boolean) - Method in class edu.illinois.ncsa.gondola.types.service.InitializeType
-
Sets the value of the always property.
- setAppend(boolean) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.util.OutputPipe
-
- setBlobs(Set<FileDescriptor>) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Set the set of blobs associated with the workflow tool.
- setBuffer(boolean) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.util.OutputPipe
-
- setCancelQueue(int) - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Sets the value of the cancelQueue property.
- setCaptureStdErr(String) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineImplementation
-
- setCaptureStdErr(String) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCToolImplementation
-
- setCaptureStdOut(String) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineImplementation
-
- setCaptureStdOut(String) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCToolImplementation
-
- setCommandArgs(String) - Method in class edu.illinois.ncsa.gondola.types.submission.StatusHandlerType
-
Sets the value of the commandArgs property.
- setCommandline(boolean) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- setCommandLineOptions(List<CommandLineOption>) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineImplementation
-
- setCommandLineOptions(List<CommandLineOption>) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCToolImplementation
-
- setCommandPath(String) - Method in class edu.illinois.ncsa.gondola.types.submission.StatusHandlerType
-
Sets the value of the commandPath property.
- setContent(String) - Method in class edu.illinois.ncsa.gondola.types.service.ConnectionType
-
Sets the value of the content property.
- setContent(String) - Method in class edu.illinois.ncsa.gondola.types.service.DbcpType.Property
-
Sets the value of the content property.
- setContent(String) - Method in class edu.illinois.ncsa.gondola.types.submission.LineType
-
Sets the value of the content property.
- setContent(String) - Method in class edu.illinois.ncsa.gondola.types.submission.RegexType
-
Sets the value of the content property.
- setContributors(List<Person>) - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Set the set of PersonBeans that represents those that contributed to the
workflow.
- setContributors(Set<Person>) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Set the set of PersonBeans that represents those that contributed to the
workflow tool.
- setContributors(List<Person>) - Method in class edu.illinois.ncsa.domain.Dataset
-
Set the set of PersonBeans that represents those that contributed to the
artifact.
- setCreated(Date) - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Sets the date when the workflow was created.
- setCreateDate(Date) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Sets the date when the workflow step was created.
- setCreator(Person) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Sets the PersonBean that represents the creator of the execution.
- setCreator(Person) - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Sets the PersonBean that represents the creator of the workflow.
- setCreator(Person) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Sets the PersonBean that represents the creator of the workflow.
- setCreator(Person) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Sets the PersonBean that represents the creator of the workflow tool.
- setCreator(Person) - Method in class edu.illinois.ncsa.domain.Dataset
-
Sets the PersonBean that represents the creator of the artifact.
- setCreatorId(String) - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Sets the the id that represents the creator of the execution.
- setDataId(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolData
-
Sets the id of the workflow tool data
- setDataset(String, String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Sets the dataset associated with that specific uuid.
- setDataset(String, String) - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Sets the dataset associated with that specific uuid.
- setDatasets(Map<String, String>) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- setDatasets(Map<String, String>) - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
- setDataURL(String) - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
- setDate(Date) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Sets the date when the execution was created.
- setDate(Date) - Method in class edu.illinois.ncsa.datawolf.domain.LogFile
-
Sets the date of the log message.
- setDate(Date) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Sets the date when the workflow tool was created.
- setDate(Date) - Method in class edu.illinois.ncsa.domain.Dataset
-
Sets the date when the artifact was created.
- setDeleteAfterSubmit(Boolean) - Method in class edu.illinois.ncsa.gondola.types.submission.ScriptType
-
Sets the value of the deleteAfterSubmit property.
- setDeleted(boolean) - Method in class edu.illinois.ncsa.domain.AbstractBean
-
Should the bean be assumed to be deleted.
- setDescription(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Sets the description of the execution
- setDescription(String) - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Sets the description of the execution
- setDescription(String) - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Sets the description of the workflow
- setDescription(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Sets the description of the workflow tool
- setDescription(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolData
-
Sets the description of the workflow tool data
- setDescription(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Sets the description of the workflow parameter.
- setDescription(String) - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Dataset
-
Set the description of the dataset.
- setDescription(String) - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Set the description of the parameter.
- setDescription(String) - Method in class edu.illinois.ncsa.domain.Dataset
-
Sets the description of the artifact
- setDriverClass(String) - Method in class edu.illinois.ncsa.gondola.types.service.ConnectionType
-
Sets the value of the driverClass property.
- setDrop(DropType) - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Sets the value of the drop property.
- setEmail(String) - Method in class edu.illinois.ncsa.domain.Person
-
Sets the email of the person.
- setEnabled(boolean) - Method in class edu.illinois.ncsa.datawolf.service.AuthenticationInterceptor
-
- setEnv(Map<String, String>) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineImplementation
-
- setError(boolean) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.util.OutputPipe
-
- setExecutable(String) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineImplementation
-
- setExecutable(String) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCToolImplementation
-
- setExecutionId(String) - Method in class edu.illinois.ncsa.datawolf.domain.HPCJobInfo
-
Sets the execution id assigned by the engine for the workflow
- setExecutionId(String) - Method in class edu.illinois.ncsa.datawolf.domain.LogFile
-
- setExecutor(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Sets the executor of the tool.
- setExecutors(Set<Executor>) - Method in class edu.illinois.ncsa.datawolf.Engine
-
- setExpression(RegexType) - Method in class edu.illinois.ncsa.gondola.types.submission.ParserType
-
Sets the value of the expression property.
- setExtraLocalExecutor(int) - Method in class edu.illinois.ncsa.datawolf.Engine
-
Sets the number of additional jobs that can be scheduled.
- setFile(File) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.util.OutputPipe
-
- setFileDescriptors(List<FileDescriptor>) - Method in class edu.illinois.ncsa.domain.Dataset
-
Set the set of file descriptors associated with the dataset.
- setFilename(String) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- setFilename(String) - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
If this dataset originated in a filesystem, or is intended to be stored
in a filesystem, what filename is/should be used? If not, set to null.
- setFirstName(String) - Method in class edu.illinois.ncsa.domain.Person
-
Sets the first name of the person.
- setFlag(String) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- setFlags(String) - Method in class edu.illinois.ncsa.gondola.types.submission.RegexType
-
Sets the value of the flags property.
- setFolder(String) - Method in class edu.illinois.ncsa.domain.impl.FileStorageDisk
-
- setFrom(String) - Method in class edu.illinois.ncsa.gondola.types.submission.ExpressionGroupTranslatorType
-
Sets the value of the from property.
- setGroup(Integer) - Method in class edu.illinois.ncsa.gondola.types.submission.ExpressionGroupTranslatorType
-
Sets the value of the group property.
- setHidden(boolean) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Sets whether or not the workflow parameter should be shown to the user.
- setHidden(boolean) - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Set to true if the parameter should not be shown to the user.
- setHostCertDir(String) - Method in class edu.illinois.ncsa.gondola.types.service.MyProxyType
-
Sets the value of the hostCertDir property.
- setID(String) - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Dataset
-
Set the id of the dataset.
- setID(String) - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Set the id of the parameter.
- setId(String) - Method in class edu.illinois.ncsa.domain.AbstractBean
-
Sets the id of the bean.
- setId(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the id property.
- setImplementation(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Sets the implementation of the tool.
- setInfo(SSHInfo) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHSession
-
- setInitialize(InitializeType) - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Sets the value of the initialize property.
- setInitializeQueue(int) - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Sets the value of the initializeQueue property.
- setInjector(Injector) - Static method in class edu.illinois.ncsa.domain.Persistence
-
- setInput(WorkflowToolData, String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Maps the input of the tool to a specific output generated in another
step.
- setInput(String, String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Maps the input of the tool to a specific output generated in another
step.
- setInput(String, InputStream) - Method in interface edu.illinois.ncsa.datawolf.executor.java.tool.JavaTool
-
Set a specific input.
- setInput(String, InputStream) - Method in class edu.illinois.ncsa.datawolf.tool.example.ShiftCharsTool
-
- setInputOutput(CommandLineOption.InputOutput) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- setInputs(Map<String, String>) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
- setInputs(List<WorkflowToolData>) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Set the list of datasets that make up the inputs to the tool.
- setInstanceId(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobStatusType
-
Sets the value of the instanceId property.
- setInstanceId(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the instanceId property.
- setJdbcAccess(AccessType) - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Sets the value of the jdbcAccess property.
- setJdbcConnection(ConnectionType) - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Sets the value of the jdbcConnection property.
- setJdbcDbcp(DbcpType) - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Sets the value of the jdbcDbcp property.
- setJobId(String) - Method in class edu.illinois.ncsa.datawolf.domain.HPCJobInfo
-
Sets the job id assigned by the scheduler
- setJobId(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobStatusType
-
Sets the value of the jobId property.
- setJobIdGroup(int) - Method in class edu.illinois.ncsa.gondola.types.submission.ParserType
-
Sets the value of the jobIdGroup property.
- setJobIdParser(ParserType) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the jobIdParser property.
- setJobInformation(Execution, WorkflowStep) - Method in class edu.illinois.ncsa.datawolf.Executor
-
Set the job information for this executor.
- setJoinStdOutStdErr(boolean) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineImplementation
-
- setLastName(String) - Method in class edu.illinois.ncsa.domain.Person
-
Sets the last name of the person.
- setLevels(int) - Method in class edu.illinois.ncsa.domain.impl.FileStorageDisk
-
- setLocalExecutorThreads(int) - Method in class edu.illinois.ncsa.datawolf.Engine
-
- setLog(FileDescriptor) - Method in class edu.illinois.ncsa.datawolf.domain.LogFile
-
Sets the filedescriptor of the log message.
- setLog(String) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCToolImplementation
-
- setLog(boolean) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.util.OutputPipe
-
- setLog(String) - Method in class edu.illinois.ncsa.datawolf.Executor
-
Sets the log to the message.
- setLog(Boolean) - Method in class edu.illinois.ncsa.gondola.types.submission.LineType
-
Sets the value of the log property.
- setMaxBatchInsert(Integer) - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Sets the value of the maxBatchInsert property.
- setMd5sum(String) - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
- setMd5sum(byte[]) - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
- setMd5sum(BigInteger) - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
- setMimeType(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolData
-
Sets the mime type of the workflow tool data
- setMimeType(String) - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
Sets the mime type of the artifact
- setMyproxySettings(MyProxyType) - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Sets the value of the myproxySettings property.
- setMyproxyUser(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the myproxyUser property.
- setName(String) - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Dataset
-
Set the name of the dataset.
- setName(String) - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Set the name of the parameter.
- setName(String, String) - Method in class edu.illinois.ncsa.domain.Person
-
Single function to set both first and last name of the person.
- setName(String) - Method in class edu.illinois.ncsa.gondola.types.service.DbcpType.Property
-
Sets the value of the name property.
- setName(String) - Method in class edu.illinois.ncsa.gondola.types.service.DbcpType
-
Sets the value of the name property.
- setOnExit(Boolean) - Method in class edu.illinois.ncsa.gondola.types.service.DropType
-
Sets the value of the onExit property.
- setOp(String) - Method in class edu.illinois.ncsa.gondola.types.submission.ExpressionGroupTranslatorType
-
Sets the value of the op property.
- setOptionId(String) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- setOptions(List<String>) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Sets the list of options this parameter can be.
- setOptions(String...) - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Sets an array with all allowable options.
- setOutputs(Map<String, String>) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
- setOutputs(List<WorkflowToolData>) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Set the list of datasets that make up the outputs to the tool.
- setParameter(String, String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Sets the value for the specific parameter.
- setParameter(String, String) - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Sets the value for the specific parameter.
- setParameter(String, String) - Method in interface edu.illinois.ncsa.datawolf.executor.java.tool.JavaTool
-
Set a specific parameter.
- setParameter(String, String) - Method in class edu.illinois.ncsa.datawolf.tool.example.ShiftCharsTool
-
- setParameterId(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Sets the id of the workflow parameter.
- setParameters(Map<String, String>) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- setParameters(Map<String, String>) - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
- setParameters(Map<String, String>) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
- setParameters(List<WorkflowToolParameter>) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Sets the collection of parameters of the tool.
- setParser(ParserType) - Method in class edu.illinois.ncsa.gondola.types.submission.StatusHandlerType
-
Sets the value of the parser property.
- setPassword(String) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHInfo
-
- setPassword(String) - Method in class edu.illinois.ncsa.domain.Account
-
- setPassword(String) - Method in class edu.illinois.ncsa.gondola.types.service.ConnectionType
-
Sets the value of the password property.
- setPerson(Person) - Method in class edu.illinois.ncsa.domain.Account
-
- setPreviousVersion(WorkflowTool) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Sets the previous version of the workflow tool.
- setProperties(Map<String, String>) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- setProperty(String, String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- setProxyMarginInMins(int) - Method in class edu.illinois.ncsa.gondola.types.service.MyProxyType
-
Sets the value of the proxyMarginInMins property.
- setProxyRefreshInMins(int) - Method in class edu.illinois.ncsa.gondola.types.service.MyProxyType
-
Sets the value of the proxyRefreshInMins property.
- setQueueRefreshInSecs(int) - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Sets the value of the queueRefreshInSecs property.
- setScript(ScriptType) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the script property.
- setServerUri(String) - Method in class edu.illinois.ncsa.gondola.types.service.MyProxyType
-
Sets the value of the serverUri property.
- setServiceUserHome(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the serviceUserHome property.
- setSize(long) - Method in class edu.illinois.ncsa.domain.FileDescriptor
-
Sets the size of the blob, this can be set to -2 if there is no blob
associated with this dataset.
- setSplit(Boolean) - Method in class edu.illinois.ncsa.gondola.types.submission.RegexType
-
Sets the value of the split property.
- setSshHome(File) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHInfo
-
- setStandardError(String) - Method in class edu.illinois.ncsa.datawolf.domain.HPCJobInfo
-
Sets the standard error for the job execution
- setStandardOutput(String) - Method in class edu.illinois.ncsa.datawolf.domain.HPCJobInfo
-
Sets the standard output from the job execution
- setState(Execution.State) - Method in class edu.illinois.ncsa.datawolf.Executor
-
Sets the state of the job.
- setState(JobStateType) - Method in class edu.illinois.ncsa.gondola.types.submission.JobStatusType
-
Sets the value of the state property.
- setStatusHandler(StatusHandlerType) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the statusHandler property.
- setStatusRefreshInSecs(int) - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Sets the value of the statusRefreshInSecs property.
- setStderr(Boolean) - Method in class edu.illinois.ncsa.gondola.types.submission.ParserType
-
Sets the value of the stderr property.
- setStepEnd(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Sets the the the end time of the given step with the id to now().
- setStepEnd(String, Long) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- setStepId(String) - Method in class edu.illinois.ncsa.datawolf.domain.LogFile
-
- setStepQueued(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Sets the the the queued time of the given step with the id to now().
- setStepQueued(String, Long) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- setSteps(List<WorkflowStep>) - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Set the list of steps of a workflow.
- setStepsEnd(Map<String, Long>) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- setStepsQueued(Map<String, Long>) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- setStepsStart(Map<String, Long>) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- setStepStart(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Sets the the the start time of the given step with the id to now().
- setStepStart(String, Long) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- setStepState(String, Execution.State) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Sets the state of the specific step in the workflow.
- setStepState(Map<String, Execution.State>) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- setStoreLog(boolean) - Method in class edu.illinois.ncsa.datawolf.Executor
-
Should the logfiles be stored in the database.
- setStoreLogs(boolean) - Method in class edu.illinois.ncsa.datawolf.Engine
-
Should the logfiles be stored in the database.
- setSubmitErrorHandler(ErrorHandlerType) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the submitErrorHandler property.
- setSubmitPath(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the submitPath property.
- setSubmitQueue(int) - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Sets the value of the submitQueue property.
- setSupportsRelationalConstraints(Boolean) - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Sets the value of the supportsRelationalConstraints property.
- setTargetUri(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the targetUri property.
- setTargetUser(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the targetUser property.
- setTargetUserHome(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the targetUserHome property.
- setTempFolder(File) - Method in interface edu.illinois.ncsa.datawolf.executor.java.tool.JavaTool
-
Sets the temp folder.
- setTempFolder(File) - Method in class edu.illinois.ncsa.datawolf.tool.example.ShiftCharsTool
-
- setTemplate(String) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCToolImplementation
-
- setTerminatePath(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the terminatePath property.
- setTimeout(int) - Method in class edu.illinois.ncsa.datawolf.Engine
-
Sets the timeout for a workflow in seconds.
- setTitle(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Sets the title of the execution
- setTitle(String) - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Sets the title of the execution
- setTitle(String) - Method in class edu.illinois.ncsa.datawolf.domain.Workflow
-
Sets the title of the workflow
- setTitle(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Sets the title of the workflow step.
- setTitle(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Sets the title of the workflow tool
- setTitle(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolData
-
Sets the title of the workflow tool data
- setTitle(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Sets the title of the workflow parameter.
- setTitle(String) - Method in class edu.illinois.ncsa.domain.Dataset
-
Sets the title of the artifact
- setTo(JobStateType) - Method in class edu.illinois.ncsa.gondola.types.submission.ExpressionGroupTranslatorType
-
Sets the value of the to property.
- setToken(String) - Method in class edu.illinois.ncsa.domain.Account
-
Associate a token with a user account
- setTool(WorkflowTool) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowStep
-
Sets the tool for the workflow step.
- setToolClassName(String) - Method in class edu.illinois.ncsa.datawolf.executor.java.JavaToolImplementation
-
- setToTime(Calendar, int, int) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
- setToTime(Date, int, int) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.DateUtils
-
- setType(WorkflowToolParameter.ParameterType) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Sets the type of the workflow parameter.
- setType(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Deprecated.
see setType(ParameterType type)
- setType(CommandLineOption.Type) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- setType(String) - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Dataset
-
Set the type of the dataset.
- setType(Parameter.ParameterType) - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Set the type of the parameter.
- setType(String) - Method in class edu.illinois.ncsa.gondola.types.service.AccessType
-
Sets the value of the type property.
- setUpdateQueue(int) - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Sets the value of the updateQueue property.
- setUser(String) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHInfo
-
- setUser(String) - Method in class edu.illinois.ncsa.gondola.types.service.ConnectionType
-
Sets the value of the user property.
- setUserid(String) - Method in class edu.illinois.ncsa.domain.Account
-
- setValue(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowToolParameter
-
Sets the value of the workflow parameter.
- setValue(String) - Method in class edu.illinois.ncsa.datawolf.executor.commandline.CommandLineOption
-
- setValue(String) - Method in class edu.illinois.ncsa.datawolf.executor.java.tool.Parameter
-
Set the value of the parameter.
- setVersion(String) - Method in class edu.illinois.ncsa.datawolf.domain.WorkflowTool
-
Sets the version of the workflow tool.
- setWorkDir(File) - Method in class edu.illinois.ncsa.datawolf.executor.java.DisposeClassLoader
-
Change the work directory.
- setWorkerPool(int) - Method in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
Sets the value of the workerPool property.
- setWorkers(int) - Static method in class edu.illinois.ncsa.datawolf.LocalExecutor
-
- setWorkflow(Workflow) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
Sets the workflow that is executed.
- setWorkflowId(String) - Method in class edu.illinois.ncsa.datawolf.domain.Execution
-
- setWorkflowId(String) - Method in class edu.illinois.ncsa.datawolf.domain.Submission
-
Sets the workflow that is executed.
- setWorkingDir(String) - Method in class edu.illinois.ncsa.datawolf.domain.HPCJobInfo
-
Sets the working directory for the job on the remote machine
- setWorkingDirectory(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobStatusType
-
Sets the value of the workingDirectory property.
- setX509Certificate(String) - Method in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
Sets the value of the x509Certificate property.
- sFLOAT - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- sFLOAT - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- ShiftCharsTool - Class in edu.illinois.ncsa.datawolf.tool.example
-
Simple test java tool.
- ShiftCharsTool() - Constructor for class edu.illinois.ncsa.datawolf.tool.example.ShiftCharsTool
-
- showMessage(String) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHInfo
-
- SHRT - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- SHRT - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- sINT - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- sINT - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- sLONG - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- sLONG - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- source - Variable in class edu.illinois.ncsa.datawolf.executor.java.ResourceEntry
-
URL source from where the object was loaded.
- SP - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- SP - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- SP_EQ_SP - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- SP_EQ_SP - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- SPESC - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- SPESC - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- split - Variable in class edu.illinois.ncsa.gondola.types.submission.RegexType
-
- SSH - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- SSH - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- SSHInfo - Class in edu.illinois.ncsa.datawolf.executor.hpc.ssh
-
- SSHInfo() - Constructor for class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHInfo
-
- SSHInfo(URI) - Constructor for class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHInfo
-
- sSHORT - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- sSHORT - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- SSHSession - Class in edu.illinois.ncsa.datawolf.executor.hpc.ssh
-
Manages the JSch Session object by checking for connection and trying to
reconnect whenever a channel is retrieved.
- SSHSession(Session) - Constructor for class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHSession
-
- SSHSession(URI) - Constructor for class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHSession
-
- SSHSession(URI, SSHInfo) - Constructor for class edu.illinois.ncsa.datawolf.executor.hpc.ssh.SSHSession
-
- SshUtils - Class in edu.illinois.ncsa.datawolf.executor.hpc.util
-
Methods associated with Ssh (= jcraft.JSch implementation).
- startExecution(String) - Static method in class edu.illinois.ncsa.datawolf.service.client.DataWolfServiceClient
-
- startExecution(String) - Method in class edu.illinois.ncsa.datawolf.service.ExecutionsResource
-
Start a execution
- startJob() - Method in class edu.illinois.ncsa.datawolf.Executor
-
The job is ready to be executed.
- startJob() - Method in class edu.illinois.ncsa.datawolf.LocalExecutor
-
- startJob() - Method in class edu.illinois.ncsa.datawolf.RemoteExecutor
-
- state - Variable in class edu.illinois.ncsa.gondola.types.submission.JobStatusType
-
- statusHandler - Variable in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
- StatusHandlerType - Class in edu.illinois.ncsa.gondola.types.submission
-
Java class for status-handler-type complex type.
- StatusHandlerType() - Constructor for class edu.illinois.ncsa.gondola.types.submission.StatusHandlerType
-
- statusRefreshInSecs - Variable in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
- stderr - Variable in class edu.illinois.ncsa.gondola.types.submission.ParserType
-
- stderrError - Variable in class edu.illinois.ncsa.gondola.types.submission.ErrorHandlerType
-
- stderrWarn - Variable in class edu.illinois.ncsa.gondola.types.submission.ErrorHandlerType
-
- stdoutError - Variable in class edu.illinois.ncsa.gondola.types.submission.ErrorHandlerType
-
- stdoutWarn - Variable in class edu.illinois.ncsa.gondola.types.submission.ErrorHandlerType
-
- stepStateChange(StepStateChangedEvent) - Method in interface edu.illinois.ncsa.datawolf.event.StepStateChangedHandler
-
- StepStateChangedEvent - Class in edu.illinois.ncsa.datawolf.event
-
- StepStateChangedEvent(WorkflowStep, Execution, Execution.State) - Constructor for class edu.illinois.ncsa.datawolf.event.StepStateChangedEvent
-
- StepStateChangedHandler - Interface in edu.illinois.ncsa.datawolf.event
-
- stop(String, String...) - Method in class edu.illinois.ncsa.datawolf.Engine
-
Stops a particular step from being executed, and removes it from the
list.
- stop(String) - Method in class edu.illinois.ncsa.datawolf.Engine
-
Stops all steps in a execution from being executed, and removes it from
the
list.
- stopAll() - Method in class edu.illinois.ncsa.datawolf.Engine
-
Stop all steps from executing.
- stopJob() - Method in class edu.illinois.ncsa.datawolf.executor.java.JavaExecutor
-
- stopJob() - Method in class edu.illinois.ncsa.datawolf.Executor
-
The job should be stopped.
- stopJob() - Method in class edu.illinois.ncsa.datawolf.LocalExecutor
-
- stopJob() - Method in class edu.illinois.ncsa.datawolf.RemoteExecutor
-
- storeFile(InputStream) - Method in class edu.illinois.ncsa.clowder.impl.FileStorageClowder
-
- storeFile(String, InputStream) - Method in class edu.illinois.ncsa.clowder.impl.FileStorageClowder
-
- storeFile(FileDescriptor, InputStream) - Method in class edu.illinois.ncsa.clowder.impl.FileStorageClowder
-
- storeFile(FileDescriptor, String, InputStream) - Method in class edu.illinois.ncsa.clowder.impl.FileStorageClowder
-
- storeFile(String, String, InputStream) - Method in class edu.illinois.ncsa.clowder.impl.FileStorageClowder
-
- storeFile(InputStream) - Method in interface edu.illinois.ncsa.domain.FileStorage
-
Store file in file storage system
- storeFile(String, InputStream) - Method in interface edu.illinois.ncsa.domain.FileStorage
-
Store file in file storage system
- storeFile(FileDescriptor, InputStream) - Method in interface edu.illinois.ncsa.domain.FileStorage
-
Store file in file storage system
- storeFile(String, String, InputStream) - Method in interface edu.illinois.ncsa.domain.FileStorage
-
Store file in file storage system
- storeFile(InputStream) - Method in class edu.illinois.ncsa.domain.impl.FileStorageDisk
-
- storeFile(String, InputStream) - Method in class edu.illinois.ncsa.domain.impl.FileStorageDisk
-
- storeFile(FileDescriptor, InputStream) - Method in class edu.illinois.ncsa.domain.impl.FileStorageDisk
-
- storeFile(String, String, InputStream) - Method in class edu.illinois.ncsa.domain.impl.FileStorageDisk
-
- STREAM_BUFFER_SIZE - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- STREAM_BUFFER_SIZE - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- streamConsumer(InputStreamReader, boolean, StringBuffer) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.SystemUtils
-
Creates thread which consumes the stream by reading and appending to
buffer
- stringToDecimal(String) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.StringUtils
-
- StringUtils - Class in edu.illinois.ncsa.datawolf.executor.hpc.util
-
Convenience wrappers around some Java String functionality.
- SUBM_XSD - Static variable in class edu.illinois.ncsa.datawolf.executor.hpc.util.NonNLSConstants
-
- SUBM_XSD - Static variable in class edu.illinois.ncsa.gondola.NonNLSConstants
-
- Submission - Class in edu.illinois.ncsa.datawolf.domain
-
Used for submission of a workflow to the datawolf service.
- Submission() - Constructor for class edu.illinois.ncsa.datawolf.domain.Submission
-
Create a new instance of the execution.
- SubmissionDao - Interface in edu.illinois.ncsa.datawolf.domain.dao
-
- SubmissionJPADao - Class in edu.illinois.ncsa.datawolf.jpa.dao
-
- SubmissionJPADao(Provider<EntityManager>) - Constructor for class edu.illinois.ncsa.datawolf.jpa.dao.SubmissionJPADao
-
- submit(Submission) - Static method in class edu.illinois.ncsa.datawolf.service.client.DataWolfServiceClient
-
- submit(String) - Method in interface edu.illinois.ncsa.gondola.ISubmissionEngine
-
- submit(JobSubmissionType) - Method in interface edu.illinois.ncsa.gondola.ISubmissionEngineImpl
-
- submitErrorHandler - Variable in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
- submitPath - Variable in class edu.illinois.ncsa.gondola.types.submission.JobSubmissionType
-
- submitQueue - Variable in class edu.illinois.ncsa.gondola.types.service.ServiceType
-
- submitRemoteJob(File) - Method in class edu.illinois.ncsa.datawolf.executor.hpc.HPCExecutor
-
- submitRemoteJob(File) - Method in class edu.illinois.ncsa.datawolf.RemoteExecutor
-
Submit the job to the remote server.
- supportsRelationalConstraints - Variable in class edu.illinois.ncsa.gondola.types.service.AccessType
-
- sync(File) - Static method in class edu.illinois.ncsa.datawolf.executor.hpc.util.FileUtils
-
- SystemUtils - Class in edu.illinois.ncsa.datawolf.executor.hpc.util
-
- SystemUtils() - Constructor for class edu.illinois.ncsa.datawolf.executor.hpc.util.SystemUtils
-