## Uses of Class
edu.isi.pegasus.planner.classes.Job

Packages that use Job
edu.isi.pegasus.planner.catalog.site.classes
edu.isi.pegasus.planner.catalog.site.impl.old
edu.isi.pegasus.planner.classes
edu.isi.pegasus.planner.client
edu.isi.pegasus.planner.cluster
edu.isi.pegasus.planner.cluster.aggregator
edu.isi.pegasus.planner.code
edu.isi.pegasus.planner.code.generator
edu.isi.pegasus.planner.code.generator.condor
edu.isi.pegasus.planner.code.generator.condor.style
edu.isi.pegasus.planner.code.gridstart
edu.isi.pegasus.planner.parser.dax
edu.isi.pegasus.planner.parser.pdax
edu.isi.pegasus.planner.refiner
edu.isi.pegasus.planner.refiner.cleanup
edu.isi.pegasus.planner.refiner.createdir
edu.isi.pegasus.planner.selector.site
edu.isi.pegasus.planner.selector.site.heft
edu.isi.pegasus.planner.transfer
edu.isi.pegasus.planner.transfer.implementation
edu.isi.pegasus.planner.transfer.refiner
edu.isi.pegasus.planner.transfer.sls

### Uses of Job in edu.isi.pegasus.planner.catalog.site.classes

Methods in edu.isi.pegasus.planner.catalog.site.classes with parameters of type Job
`java.lang.String` SiteStore.`getInternalWorkDirectory(Job job)` This determines the working directory on remote execution pool for a particular job.
`java.lang.String` SiteStore.`getInternalWorkDirectory(Job job, boolean onStagingSite)` This determines the working directory on remote execution pool or a staging site for a particular job.

### Uses of Job in edu.isi.pegasus.planner.catalog.site.impl.old

Methods in edu.isi.pegasus.planner.catalog.site.impl.old with parameters of type Job
`java.lang.String` PoolInfoProvider.`getExecPoolWorkDir(Job job)` This determines the working directory on remote execution pool for a particular job.

### Uses of Job in edu.isi.pegasus.planner.classes

Subclasses of Job in edu.isi.pegasus.planner.classes
`class` `AggregatedJob` This class holds all the specifics of an aggregated job.
`class` `DAGJob` This is a data class that stores the contents of the DAG job in a DAX conforming to schema 3.0 or higher.
`class` `DAXJob` This is a data class that stores the contents of the DAX job in a DAX conforming to schema 3.0 or higher.
`class` `TransferJob` This is a data class that stores the contents of the transfer job that transfers the data.

Methods in edu.isi.pegasus.planner.classes that return Job
`Job` AggregatedJob.`getConstituentJob(int index)` Returns a job from a particular position in the list of constituent jobs

Methods in edu.isi.pegasus.planner.classes that return types with arguments of type Job
`java.util.Iterator<Job>` AggregatedJob.`constituentJobsIterator()` Returns an iterator to the constituent jobs of the AggregatedJob.

Methods in edu.isi.pegasus.planner.classes with parameters of type Job
`void` AggregatedJob.`add(Job job)` Adds a job to the aggregated job.
`void` ADag.`add(Job job)` This adds a new job to the ADAG object.
`void` WorkflowMetrics.`decrement(Job job)` Decrement the metrics when on the basis of type of job being removed
`private void` WorkflowMetrics.`decrementJobMetrics(Job job)` Decrement the metrics when on the basis of type of job.
`private void` WorkflowMetrics.`decrementTaskMetrics(Job job)` Decrement the task metrics when on the basis of type of job.
`void` WorkflowMetrics.`increment(Job job)` Increment the metrics when on the basis of type of job.
`private void` WorkflowMetrics.`incrementJobMetrics(Job job)` Increment the metrics when on the basis of type of job.
`private void` WorkflowMetrics.`incrementTaskMetrics(Job job)` Increment the metrics when on the basis of type of job.
`void` Job.`mergeProfiles(Job job)` Merges profiles from another job to this job in a controlled fashion.
`boolean` ADag.`remove(Job job)` Removes a particular job from the workflow.

Constructors in edu.isi.pegasus.planner.classes with parameters of type Job
Constructor and Description
`AggregatedJob(Job job, int num)` The overloaded constructor.
`DAGJob(Job job)` The overloaded construct that constructs a DAG job by wrapping around the `Job` job.
`DAXJob(Job job)` The overloaded construct that constructs a DAX job by wrapping around the `Job` job.
`Job(Job job)` Overloaded constructor.
`TransferJob(Job job)` The overloaded construct that constructs a GRMS job by wrapping around the `Job` job.

### Uses of Job in edu.isi.pegasus.planner.client

Methods in edu.isi.pegasus.planner.client that return Job
`protected Job` CPlanner.`createNoOPJob(java.lang.String name)` It creates a NoOP job that runs on the submit host.

Methods in edu.isi.pegasus.planner.client with parameters of type Job
`protected void` CPlanner.`construct(Job job, java.lang.String key, java.lang.String value)` Constructs a condor variable in the condor profile namespace associated with the job.

### Uses of Job in edu.isi.pegasus.planner.cluster

Fields in edu.isi.pegasus.planner.cluster with type parameters of type Job
`protected java.util.Map<java.lang.String,Job>` Abstract.`mPartitionClusterMap` A Map that indexes the partition ID to the clustered job.
`protected java.util.Map<java.lang.String,Job>` Abstract.`mSubInfoMap` A Map to store all the job(Job) objects indexed by their logical ID found in the dax.

Methods in edu.isi.pegasus.planner.cluster that return Job
`protected Job` Abstract.`clusteredJob(Partition p)` Returns the job corresponding to a partition.
`protected Job` Abstract.`clusteredJob(java.lang.String id)` Returns the job corresponding to a partition.
`protected Job` Abstract.`getJob(java.lang.String id)` Returns the job object corresponding to the id of the job.

Methods in edu.isi.pegasus.planner.cluster that return types with arguments of type Job
`private java.util.List<java.util.List<Job>>` Horizontal.`bestFitBinPack(java.util.List<Job> jobs, double maxTime)` Perform best fit bin packing.
`private java.util.List<java.util.List<Job>>` Horizontal.`bestFitBinPack(java.util.List<Job> jobs, int maxBins)` Perform best fit bin packing.
`private java.util.Comparator<Job>` Horizontal.`getBinPackingComparator()` The comparator is used to sort a collection of jobs in decreasing order of their run times as specified by the Pegasus.JOB_RUN_TIME property.

Methods in edu.isi.pegasus.planner.cluster with parameters of type Job
`protected void` Abstract.`addJob(Job job)` Adds jobs to the internal map of jobs that is maintained by the clusterer.
`protected void` Abstract.`associate(Partition p, Job job)` Maps the partition to the corresponding clustered job.
`int[]` Horizontal.`getCollapseFactor(java.lang.String pool, Job job, int size)` Returns the collapse factor, that is used to chunk up the jobs of a particular type on a pool.
`private java.lang.String` Horizontal.`getRunTime(Job job)`
`private void` Horizontal.`updateReplacementTable(java.util.List jobs, Job mergedJob)` Updates the replacement table.

Method parameters in edu.isi.pegasus.planner.cluster with type arguments of type Job
`private java.util.List<java.util.List<Job>>` Horizontal.`bestFitBinPack(java.util.List<Job> jobs, double maxTime)` Perform best fit bin packing.
`private java.util.List<java.util.List<Job>>` Horizontal.`bestFitBinPack(java.util.List<Job> jobs, int maxBins)` Perform best fit bin packing.
`abstract void` Abstract.`determineInputOutputFiles(AggregatedJob job, java.util.List<Job> orderedJobs)` Determine the input and output files of the job on the basis of the order of the constituent jobs in the AggregatedJob.
`void` Vertical.`determineInputOutputFiles(AggregatedJob job, java.util.List<Job> orderedJobs)` Determine the input and output files of the job on the basis of the order of the constituent jobs in the AggregatedJob.
`protected java.lang.String` Abstract.`getLogicalNameForJobs(java.util.List<Job> jobs)` Returns the logical names for the jobs.
`protected java.lang.String` Vertical.`getLogicalNameForJobs(java.util.List<Job> jobs)` Returns null as for label based clustering we dont want the transformation name to be considered for constructing the name of the clustered jobs

### Uses of Job in edu.isi.pegasus.planner.cluster.aggregator

Methods in edu.isi.pegasus.planner.cluster.aggregator with parameters of type Job
`protected java.lang.String` Abstract.`getCommentString(Job job, int taskid)` Generates the comment string for the job .
`java.lang.String` MPIExec.`getCPURequirementsArgument(Job job)` Looks at the profile keys associated with the job to generate the argument string fragment containing the cpu required for the job.
`java.lang.String` MPIExec.`getExtraArguments(Job job)` Looks at the profile key for pegasus::pmc_task_arguments to determine if extra arguments are required for the task.
`java.lang.String` MPIExec.`getMemoryRequirementsArgument(Job job)` Looks at the profile keys associated with the job to generate the argument string fragment containing the memory required for the job.
`java.lang.String` MPIExec.`getPriorityArgument(Job job)` Looks at the profile keys associated with the job to generate the argument string fragment containing the priority to be associated for the job.
`protected TransformationCatalogEntry` Abstract.`getTCEntry(Job job)` Helper method to get an entry from the transformation catalog for an installed executable.
`JobAggregator` JobAggregatorInstanceFactory.`loadInstance(Job job)` Returns the appropriate handle to the JobAggregator that is to be used for a particular type of job.

### Uses of Job in edu.isi.pegasus.planner.code

Methods in edu.isi.pegasus.planner.code with parameters of type Job
`boolean` POSTScript.`construct(Job job, java.lang.String key)` Constructs the postscript that has to be invoked on the submit host after the job has executed on the remote end.
`boolean` GridStart.`enable(Job job, boolean isGlobusJob)` Enables a job to run on the grid.
`void` CodeGenerator.`generateCode(ADag dag, Job job)` Generates the code for a single job in the input format of the workflow executor being used.
`java.lang.String` GridStart.`getWorkerNodeDirectory(Job job)` Returns the directory in which the job executes on the worker node.
`GridStart` GridStartFactory.`loadGridStart(Job job, java.lang.String gridStartPath)` Loads the appropriate gridstart implementation for a job on the basis of the value of the GRIDSTART_KEY in the Pegasus namepsace.
`POSTScript` GridStartFactory.`loadPOSTScript(Job job, GridStart gridStart)` Loads the appropriate POST Script implementation for a job on the basis of the value of the Pegasus profile GRIDSTART_KEY, and the DAGMan profile POST_SCRIPT_KEY in the Pegasus namepsace.

### Uses of Job in edu.isi.pegasus.planner.code.generator

Methods in edu.isi.pegasus.planner.code.generator with parameters of type Job
`protected java.lang.String` Shell.`generateCallToCheckExitcode(Job job, java.lang.String prefix)` Generates a call to check_exitcode function that is used
`protected java.lang.String` Shell.`generateCallToExecuteJob(Job job, java.lang.String scratchDirectory, java.lang.String submitDirectory)` Generates a call to execute_job function , that is used to launch a job from the shell script.
`protected java.lang.String` Shell.`generateCallToExecutePostScript(Job job, java.lang.String directory)` Generates a call to execute_post_script function , that is used to launch a job from the shell script.
`void` PMC.`generateCode(ADag dag, Job job)` Generates the code for a single job in the input format of the workflow executor being used.
`void` Stork.`generateCode(ADag dag, Job job)` Generates the code for a single job in the Stork format.
`void` Braindump.`generateCode(ADag dag, Job job)` Method not implemented.
`void` MonitordNotify.`generateCode(ADag dag, Job job)` Not implemented
`void` DAXReplicaStore.`generateCode(ADag dag, Job job)` Not implemented
`void` PBS.`generateCode(ADag dag, Job job)` Generates the code for a single job in the input format of the workflow executor being used.
`void` Shell.`generateCode(ADag dag, Job job)` Generates the code for a single job in the input format of the workflow executor being used.
`void` Stampede.`generateCode(ADag dag, Job job)` Method not implemented.
`protected void` Stampede.`generateEventsForDAXTask(java.io.PrintWriter writer, ADag workflow, Job job)` Generates stampede events corresponding to jobs/tasks in the DAX
`protected void` Stampede.`generateEventsForExecutableJob(java.io.PrintWriter writer, ADag dag, Job job)` Generates stampede events corresponding to an executable job
`private java.lang.String` NetloggerJobMapper.`generateLogEvent(Job job, java.lang.String prefix)` Generates a log event message in the netlogger format for a job
`protected void` Stampede.`generateTaskMapEvents(java.io.PrintWriter writer, ADag dag, Job job)` Generates the task.map events that link the jobs in the DAX with the jobs in the executable workflow
`protected java.lang.String` Shell.`getExecutionDirectory(Job job)` Returns the directory in which a job should be executed.
`java.lang.String` Abstract.`getFileBaseName(Job job)` Returns the basename of the file to which the job is written to.
`java.lang.String` Stork.`getFileBaseName(Job job)` Returns the basename of the file to which the job is written to.
`private int` NetloggerJobMapper.`getTaskCount(Job job)` Returns the task count for a job.
`private int` Stampede.`getTaskCount(Job job)` Returns the task count for a job.
`java.io.PrintWriter` Abstract.`getWriter(Job job)` Returns an open stream to the file that is used for writing out the job information for the job.
`java.io.PrintWriter` HashedFile.`getWriter(Job job)` Returns an open stream to the file that is used for writing out the job information for the job.

### Uses of Job in edu.isi.pegasus.planner.code.generator.condor

Methods in edu.isi.pegasus.planner.code.generator.condor that return Job
`protected Job` SUBDAXGenerator.`constructDAGJob(Job subdaxJob, java.io.File directory, java.io.File subdaxDirectory, java.lang.String basenamePrefix)` Constructs a job that plans and submits the partitioned workflow, referred to by a Partition.
`protected Job` CondorGenerator.`constructDAGJob(java.lang.String name, java.lang.String directory, java.lang.String dagBasename)` Constructs a job that plans and submits the partitioned workflow, referred to by a Partition.
`Job` SUBDAXGenerator.`constructPegasusPlanPrescript(Job job, PlannerOptions options, java.lang.String rootUUID, java.lang.String properties, java.lang.String log)` Constructs the pegasus plan prescript for the subdax
`Job` SUBDAXGenerator.`generateCode(Job job)` Generates code for a job

Methods in edu.isi.pegasus.planner.code.generator.condor with parameters of type Job
`void` CondorStyle.`apply(Job job)` Apply a style to a job.
`protected void` CondorGenerator.`applyStyle(Job job, java.io.PrintWriter writer)` Applies a submit file style to the job, according to the fact whether the job has to be submitted directly to condor or to a remote jobmanager via CondorG and GRAM.
`protected Job` SUBDAXGenerator.`constructDAGJob(Job subdaxJob, java.io.File directory, java.io.File subdaxDirectory, java.lang.String basenamePrefix)` Constructs a job that plans and submits the partitioned workflow, referred to by a Partition.
`java.lang.String` SUBDAXGenerator.`constructDAGManKnobs(Job job)` Constructs Any extra arguments that need to be passed to dagman, as determined from the properties file.
`Job` SUBDAXGenerator.`constructPegasusPlanPrescript(Job job, PlannerOptions options, java.lang.String rootUUID, java.lang.String properties, java.lang.String log)` Constructs the pegasus plan prescript for the subdax
`protected java.io.File` SUBDAXGenerator.`constructPlannerPrescriptWrapper(Job dagJob, java.io.File directory, java.lang.String executable, java.lang.String arguments)` Construct a pegasus plan wrapper script that changes the directory in which pegasus-plan is launched.
`static void` ClassADSGenerator.`generate(java.io.PrintWriter writer, ADag dag, Job job)` Writes out the classads for a job to corresponding writer stream.
`void` CondorGenerator.`generateCode(ADag dag, Job job)` Generates the code (condor submit file) for a single job.
`Job` SUBDAXGenerator.`generateCode(Job job)` Generates code for a job
`protected int` CondorGenerator.`getJobPriority(Job job, int depth)` Computes the priority for a job based on job type and depth in the workflow
`java.util.Set<java.lang.String>` SUBDAXGenerator.`getParentsTransientRC(Job job)` Returns a set containing the paths to the parent dax jobs transient replica catalogs.
`private java.lang.String` CondorGenerator.`gridstart(java.io.PrintWriter writer, Job job, boolean isGlobusJob)` This function creates the stdio handling with and without gridstart.
`protected void` CondorGenerator.`handleCondorVarForJob(Job job)` It updates/adds the condor variables that are got through the Dax with the values specified in the properties file, pool config file or adds some variables internally.
`protected void` CondorGenerator.`handleEnvVarForJob(Job sinfo)` It updates/adds the environment variables that are got through the Dax with the values specified in the properties file, pool config file or adds some variables internally.
`protected void` CondorGenerator.`handleGlobusRSLForJob(Job sinfo)` It updates/adds the the Globus RSL parameters got through the dax that are in Job object.
`CondorStyle` CondorStyleFactory.`loadInstance(Job job)` This method loads the appropriate implementing CondorStyle as specified by the user at runtime.
`void` CondorGenerator.`populatePeriodicReleaseAndRemoveInJob(Job job)` Populates the periodic release and remove values in the job.

### Uses of Job in edu.isi.pegasus.planner.code.generator.condor.style

Methods in edu.isi.pegasus.planner.code.generator.condor.style with parameters of type Job
`void` CondorC.`apply(Job job)` Applies the CondorC style to the job.
`void` Condor.`apply(Job job)` Applies the condor style to the job.
`void` CondorGlideinWMS.`apply(Job job)`
`void` GLite.`apply(Job job)` Applies the gLite style to the job.
`void` SSH.`apply(Job job)` Applies the CREAM CE style to the job.
`void` CondorG.`apply(Job job)` Applies the globus style to the job.
`void` CondorGlideIN.`apply(Job job)` Applies the style to the job to be run in a condor glide in environment.
`void` CreamCE.`apply(Job job)` Applies the CREAM CE style to the job.
`protected void` Abstract.`applyCredentialsForJobSubmission(Job job)` Associates credentials required for job submission.
`protected void` Abstract.`applyCredentialsForLocalExec(Job job)` Examines the credential requirements for a job and adds appropiate transfer and environment directives for the credentials to be picked up for the local job
`protected void` Abstract.`applyCredentialsForRemoteExec(Job job)` Examines the credential requirements for a job and adds appropiate transfer and environment directives for the credentials to be staged and picked up by the job.
`protected void` Abstract.`complainForCredential(Job job, java.lang.String key, java.lang.String site)` Complain if a particular credential key is not found for a site
`protected java.lang.String` CondorC.`constructGridResource(Job job)` Constructs the grid_resource entry for the job.
`protected java.lang.String` SSH.`constructGridResource(Job job)` Constructs the grid_resource entry for the job.
`protected java.lang.String` CreamCE.`constructGridResource(Job job)` Constructs the grid_resource entry for the job.
`protected java.lang.String` Abstract.`errorMessage(Job job, java.lang.String style, java.lang.String universe)` Constructs an error message in case of style mismatch.
`protected java.lang.String` GLite.`getCERequirementsForJob(Job job)` Constructs the value for remote CE requirements expression for the job .
`protected java.lang.String` GLite.`missingKeyError(Job job, java.lang.String key)` Constructs an error message in case of style mismatch.
`private void` Condor.`wrapJobWithLocalPegasusLite(Job job)` Wraps the local universe jobs with a local Pegasus Lite wrapper to get around the Condor file IO bug for local universe job

### Uses of Job in edu.isi.pegasus.planner.code.gridstart

Methods in edu.isi.pegasus.planner.code.gridstart with parameters of type Job
`private void` Kickstart.`addCleanupPostScript(Job job, java.util.List files)` Adds a /bin/rm post constituentJob to kickstart that removes the files passed.
`private void` PegasusLite.`associateCredentials(Job job, java.util.Collection<FileTransfer> files)` Associates credentials with the job corresponding to the files that are being transferred.
`boolean` NoPOSTScript.`construct(Job job, java.lang.String key)` Constructs the postscript that has to be invoked on the submit host after the job has executed on the remote end.
`boolean` NetloggerPostScript.`construct(Job job, java.lang.String key)` Constructs the postscript that has to be invoked on the submit host after the job has executed on the remote end.
`boolean` PegasusExitCode.`construct(Job job, java.lang.String key)` Constructs the postscript that has to be invoked on the submit host after the job has executed on the remote end.
`boolean` UserPOSTScript.`construct(Job job, java.lang.String key)` Constructs the postscript that has to be invoked on the submit host after the job has executed on the remote end.
`private void` PegasusLite.`construct(Job job, java.lang.String key, java.lang.String value)` Constructs a condor variable in the condor profile namespace associated with the job.
`private void` Kickstart.`construct(Job job, java.lang.String key, java.lang.String value)` Constructs a condor variable in the condor profile namespace associated with the constituentJob.
`private void` NoGridStart.`construct(Job job, java.lang.String key, java.lang.String value)` Constructs a condor variable in the condor profile namespace associated with the job.
`protected java.lang.String` Kickstart.`constructCleanupJob(Job job, java.lang.String workerNodeTmp)` Constructs a kickstart setup constituentJob
`protected java.lang.String` Kickstart.`constructPREJob(Job job, java.lang.String headNodeURLPrefix, java.lang.String headNodeDirectory, java.lang.String workerNodeDirectory, java.lang.String slsFile)` Constructs the prejob that fetches sls file, and then invokes transfer again.
`protected java.lang.String` Kickstart.`constructSetupJob(Job job, java.lang.String workerNodeTmp)` Constructs a kickstart setup constituentJob
`boolean` PegasusLite.`enable(Job job, boolean isGlobusJob)` Enables a job to run on the grid by launching it directly.
`boolean` Kickstart.`enable(Job job, boolean isGlobusJob)` Enables a constituentJob to run on the grid by launching it through kickstart.
`boolean` NoGridStart.`enable(Job job, boolean isGlobusJob)` Enables a job to run on the grid by launching it directly.
`protected boolean` Kickstart.`enable(Job job, boolean isGlobusJob, boolean stat, boolean addPostScript, boolean partOfClusteredJob)` Enables a constituentJob to run on the grid by launching it through kickstart.
`private void` PegasusLite.`enableForWorkerNodeExecution(Job job, boolean isGlobusJob)` Enables jobs for worker node execution.
`protected java.lang.String` Kickstart.`getDirectory(Job job)` Returns the directory in which the job should run.
`protected java.lang.String` NoGridStart.`getDirectory(Job job)` Returns the directory in which the job should run.
`private java.lang.String` PegasusLite.`getDirectoryKey(Job job)` Returns the directory that is associated with the job to specify the directory in which the job needs to run
`private java.lang.String` Kickstart.`getDirectoryKey(Job job)` Returns the exectionSiteDirectory that is associated with the constituentJob to specify the exectionSiteDirectory in which the constituentJob needs to run
`private java.lang.String` NoGridStart.`getDirectoryKey(Job job)` Returns the directory that is associated with the job to specify the directory in which the job needs to run
`java.lang.String` PegasusLite.`getWorkerNodeDirectory(Job job)` Returns the directory in which the job executes on the worker node.
`java.lang.String` Kickstart.`getWorkerNodeDirectory(Job job)` Returns the exectionSiteDirectory in which the constituentJob executes on the worker node.
`java.lang.String` NoGridStart.`getWorkerNodeDirectory(Job job)` Returns the directory in which the job executes on the worker node.
`protected java.lang.String` NoGridStart.`handleTransferOfExecutable(Job job)` It changes the paths to the executable depending on whether we want to transfer the executable or not.
`protected java.lang.String` Kickstart.`handleTransferOfExecutable(Job job, java.lang.String path)` It changes the paths to the executable depending on whether we want to transfer the executable or not.
`private boolean` PegasusLite.`removeDirectoryKey(Job job)` Returns a boolean indicating whether to remove remote directory information or not from the job.
`private boolean` NoGridStart.`removeDirectoryKey(Job job)` Returns a boolean indicating whether to remove remote directory information or not from the job.
`protected boolean` Kickstart.`requiresToSetDirectory(Job job)` Returns a boolean indicating whether we need to set the directory for the job or not.
`protected boolean` NoGridStart.`requiresToSetDirectory(Job job)` Returns a boolean indicating whether we need to set the directory for the job or not.
`private boolean` Kickstart.`useInvoke(Job job, java.lang.String executable, java.lang.StringBuffer args)` Triggers the creation of the kickstart input file, that contains the the remote executable and the arguments with which it has to be invoked.
`protected java.io.File` PegasusLite.`wrapJobWithPegasusLite(Job job, boolean isGlobusJob)` Generates a seqexec input file for the job.

### Uses of Job in edu.isi.pegasus.planner.parser.dax

Fields in edu.isi.pegasus.planner.parser.dax declared as Job
`private Job` DAXParser2.`mCurrentJobSubInfo` Holds information regarding the current job being parsed.

Fields in edu.isi.pegasus.planner.parser.dax with type parameters of type Job
`private java.util.Map<java.lang.String,Job>` DAX2CDAG.`mFileCreationMap` Map to track a LFN with the job that creates the file corresponding to the LFN.

Methods in edu.isi.pegasus.planner.parser.dax with parameters of type Job
`void` ExampleDAXCallback.`cbJob(Job job)` Callback for the job from section 2 jobs.
`void` DAX2Metadata.`cbJob(Job job)` Callback for the job from section 2 jobs.
`void` DAX2LabelGraph.`cbJob(Job job)` This constructs a graph node for the job and ends up storing it in the internal map.
`void` DAX2CDAG.`cbJob(Job job)` Callback for the job from section 2 jobs.
`void` DAX2Graph.`cbJob(Job job)` This constructs a graph node for the job and ends up storing it in the internal map.
`void` DAX2NewGraph.`cbJob(Job job)` This constructs a graph node for the job and ends up storing it in the internal map.
`void` Callback.`cbJob(Job job)` Callback for the job from section 4: Job's, DAX's or Dag's that list a JOB or DAX or DAG .
`protected java.lang.String` DAXParser3.`constructJobID(Job j)` Returns the id for a job
`private TransformationCatalogEntry` DAXParser2.`constructTCEntryFromJobHints(Job job)` Constructs a TC entry object from the contents of a job.
`private void` DAXParser2.`handleJobTagStart(Job job)` Invoked when the starting of the job element is got.

### Uses of Job in edu.isi.pegasus.planner.parser.pdax

Methods in edu.isi.pegasus.planner.parser.pdax that return Job
`protected Job` PDAX2MDAG.`constructDAGJob(Partition partition, java.io.File directory, java.lang.String dax)` Constructs a job that plans and submits the partitioned workflow, referred to by a Partition.
`protected Job` PDAX2MDAG.`getJob(java.lang.String id)` Returns the job that has been constructed for a particular partition.

Methods in edu.isi.pegasus.planner.parser.pdax with parameters of type Job
`protected java.lang.String` PDAX2MDAG.`getBasenamePrefix(Job job)` Returns the basename prefix of a dagman (usually) related file for a a job that submits nested dagman.
`protected java.lang.String` PDAX2MDAG.`getCacheFilePath(Job job)` Returns the full path to a cache file that corresponds for one partition.
`protected void` PDAX2MDAG.`setPrescript(Job job, java.lang.String daxURL, java.lang.String log)` Sets the prescript that ends up calling to the default wrapper that introduces retry into Pegasus for a particular job.
`protected void` PDAX2MDAG.`setPrescript(Job job, java.lang.String daxURL, java.lang.String log, java.lang.String namespace, java.lang.String name, java.lang.String version)` Sets the prescript that ends up calling to the default wrapper that introduces retry into Pegasus for a particular job.

### Uses of Job in edu.isi.pegasus.planner.refiner

Fields in edu.isi.pegasus.planner.refiner with type parameters of type Job
`private java.util.List<Job>` DataReuseEngine.`mAllDeletedJobs` List of all deleted jobs during workflow reduction.
`private java.util.List<Job>` TransferEngine.`mDeletedJobs` Holds all the jobs deleted by the reduction algorithm.

Methods in edu.isi.pegasus.planner.refiner that return Job
`Job` ReplicaCatalogBridge.`makeRCRegNode(java.lang.String regJobName, Job job, java.util.Collection files)` It constructs the Job object for the registration node, which registers the materialized files on the output pool in the RLS.
`Job` RemoveDirectory.`makeRemoveDirJob(java.lang.String site, java.lang.String jobName)` It creates a remove directory job that creates a directory on the remote pool using the perl executable that Gaurang wrote.
`Job` RemoveDirectory.`makeRemoveDirJob(java.lang.String site, java.lang.String jobName, java.util.List<java.lang.String> files)` It creates a remove directory job that creates a directory on the remote pool using the perl executable that Gaurang wrote.
`protected Job` DeployWorkerPackage.`makeUntarJob(java.lang.String site, java.lang.String jobName, java.lang.String wpBasename)` It creates a untar job , that untars the worker package that is staged by the setup transfer job.

Methods in edu.isi.pegasus.planner.refiner that return types with arguments of type Job
`java.util.List<Job>` DataReuseEngine.`getDeletedJobs()` This returns all the jobs deleted from the workflow after the reduction algorithm has run.
`java.util.List<Job>` DataReuseEngine.`getDeletedLeafJobs()` This returns all the deleted jobs that happen to be leaf nodes.

Methods in edu.isi.pegasus.planner.refiner with parameters of type Job
`protected void` Engine.`complainForHeadNodeURLPrefix(java.lang.String refiner, java.lang.String site, FileServerType.OPERATION operation, Job job)` Complains for head node url prefix not specified
`private void` TransferEngine.`complainForScratchFileServer(Job job, FileServerType.OPERATION operation, java.lang.String site)` Complains for a missing head node file server on a site for a job
`private FileTransfer` TransferEngine.`constructFileTX(PegasusFile pf, Job job, java.lang.String destSiteHandle, java.lang.String path, boolean localTransfer)` Constructs the FileTransfer object on the basis of the transiency information.
`private java.lang.String` RemoveDirectory.`getAssociatedCreateDirSite(Job job)` Returns the associated site that job is dependant on.
`private java.util.Vector` TransferEngine.`getDeletedFileTX(java.lang.String pool, Job job)` This gets the file transfer objects corresponding to the location of files found in the replica mechanism, and transfers it to the output pool asked by the user.
`private void` TransferEngine.`getFilesFromRC(Job job, java.util.Collection searchFiles)` It looks up the RCEngine Hashtable to lookup the locations for the files and add nodes to transfer them.
`private java.util.Vector` TransferEngine.`getFileTX(java.lang.String destPool, Job job, boolean localTransfer)` This gets the Vector of FileTransfer objects for the files which have to be transferred to an one destination pool.
`private java.util.Collection<FileTransfer>[]` TransferEngine.`getInterpoolFileTX(Job job, java.util.Collection<GraphNode> parents)` This gets the Vector of FileTransfer objects for all the files which have to be transferred to the destination pool in case of Interpool transfers.
`java.lang.String` TransferEngine.`getStagingSite(Job job)` Returns the staging site to be used for a job.
`java.lang.String` InterPoolEngine.`getStagingSite(Job job)` Returns the staging site to be used for a job.
`private java.lang.String` TransferEngine.`getURLOnSharedScratch(SiteCatalogEntry entry, Job job, FileServerType.OPERATION operation, java.lang.String lfn)` Returns a URL on the shared scratch of the staging site
`private void` InterPoolEngine.`handleDependantExecutables(Job job)` Handles the dependant executables that need to be staged.
`private boolean` InterPoolEngine.`incorporateHint(Job job, java.lang.String key)` It incorporates a hint in the namespace to the job.
`private boolean` InterPoolEngine.`incorporateProfiles(Job job)` Incorporates the profiles from the various sources into the job.
`protected void` InterPoolEngine.`logRefinerAction(Job job)` Logs the action taken by the refiner on a job as a XML fragment in the XML Producer.
`private void` TransferEngine.`logRemoval(Job job, PegasusFile file, java.lang.String prefix, boolean removed)` Helped method for logging removal message.
`Job` ReplicaCatalogBridge.`makeRCRegNode(java.lang.String regJobName, Job job, java.util.Collection files)` It constructs the Job object for the registration node, which registers the materialized files on the output pool in the RLS.
`private void` TransferEngine.`processParents(Job job, java.util.Collection<GraphNode> parents)` It processes a nodes parents and determines if nodes are to be added or not.
`private TransformationCatalogEntry` InterPoolEngine.`selectTCEntry(java.util.List entries, Job job, java.lang.String selector)` Calls out to the transformation selector to select an entry from a list of valid transformation catalog entries.
`private void` TransferEngine.`trackInCaches(Job job)` Tracks the files created by a job in the both the planner and workflow cache The planner cache stores the put URL's and the GET URL is stored in the workflow cache.

Constructor parameters in edu.isi.pegasus.planner.refiner with type arguments of type Job
Constructor and Description
`TransferEngine(ADag reducedDag, PegasusBag bag, java.util.List<Job> deletedJobs, java.util.List<Job> deletedLeafJobs)` Overloaded constructor.
`TransferEngine(ADag reducedDag, PegasusBag bag, java.util.List<Job> deletedJobs, java.util.List<Job> deletedLeafJobs)` Overloaded constructor.

### Uses of Job in edu.isi.pegasus.planner.refiner.cleanup

Methods in edu.isi.pegasus.planner.refiner.cleanup that return Job
`Job` Cleanup.`createCleanupJob(java.lang.String id, java.util.List files, Job job)` Creates a cleanup job that removes the files from remote working directory.
`Job` RM.`createCleanupJob(java.lang.String id, java.util.List files, Job job)` Creates a cleanup job that removes the files from remote working directory.
`Job` CleanupImplementation.`createCleanupJob(java.lang.String id, java.util.List files, Job job)` Creates a cleanup job that removes the files from remote working directory.

Methods in edu.isi.pegasus.planner.refiner.cleanup with parameters of type Job
`Job` Cleanup.`createCleanupJob(java.lang.String id, java.util.List files, Job job)` Creates a cleanup job that removes the files from remote working directory.
`Job` RM.`createCleanupJob(java.lang.String id, java.util.List files, Job job)` Creates a cleanup job that removes the files from remote working directory.
`Job` CleanupImplementation.`createCleanupJob(java.lang.String id, java.util.List files, Job job)` Creates a cleanup job that removes the files from remote working directory.
`protected java.lang.String` InPlace.`generateCleanupID(Job job)` Returns the identifier that is to be assigned to cleanup job.
`protected java.lang.String` InPlace.`getSiteForCleanup(Job job)` Returns site to be used for the cleanup algorithm.

### Uses of Job in edu.isi.pegasus.planner.refiner.createdir

Methods in edu.isi.pegasus.planner.refiner.createdir that return Job
`Job` DefaultImplementation.`makeCreateDirJob(java.lang.String site, java.lang.String name, java.lang.String directoryURL)` It creates a make directoryURL job that creates a directoryURL on the remote pool using the perl executable that Gaurang wrote.
`Job` Implementation.`makeCreateDirJob(java.lang.String site, java.lang.String name, java.lang.String directoryURL)` It creates a make directory job that creates a directory on the remote pool using the perl executable that Gaurang wrote.
`Job` HourGlass.`makeDummyConcatJob(ADag dag)` It creates a dummy concat job that is run at the local submit host.

Methods in edu.isi.pegasus.planner.refiner.createdir with parameters of type Job
`boolean` Minimal.`addDependency(Job job)`
`private void` HourGlass.`construct(Job job, java.lang.String key, java.lang.String value)` Constructs a condor variable in the condor profile namespace associated with the job.
`private java.lang.String` Minimal.`getAssociatedCreateDirSite(Job job)` Returns the associated site that job is dependant on.
`private void` HourGlass.`introduceRootDependencies(ADag dag, Job newRoot)` It traverses through the root jobs of the dag and introduces a new super root node to it.

### Uses of Job in edu.isi.pegasus.planner.selector.site

Methods in edu.isi.pegasus.planner.selector.site with parameters of type Job
`private void` Group.`insert(Job job)` Inserts the job into the group map.
`abstract void` AbstractPerJob.`mapJob(Job job, java.util.List sites)` Maps a job in the workflow to the various grid sites.
`void` RoundRobin.`mapJob(Job job, java.util.List sites)` Maps a job in the workflow to an execution site.
`void` Random.`mapJob(Job job, java.util.List sites)` Maps a job in the workflow to an execution site.
`void` NonJavaCallout.`mapJob(Job job, java.util.List sites)` Calls out to the external site selector.
`private boolean` NonJavaCallout.`parseStdOut(Job job, java.lang.String s)` Extracts the chosen site from the site selector's answer.
`private java.io.File` NonJavaCallout.`prepareInputFile(Job job, java.util.List pools)` Writes job knowledge into the temporary file passed to the external site selector.

### Uses of Job in edu.isi.pegasus.planner.selector.site.heft

Methods in edu.isi.pegasus.planner.selector.site.heft with parameters of type Job
`protected float` Algorithm.`calculateAverageComputeTime(Job job)` Returns the average compute time in seconds for a job.
`protected int` Algorithm.`getExpectedRuntime(Job job, TransformationCatalogEntry entry)` Return expected runtime.
`protected double` Algorithm.`getExpectedRuntimeFromAC(Job job, TransformationCatalogEntry entry)` Return expected runtime from the AC only if the process catalog is initialized.
`java.lang.String` Algorithm.`mapJob2ExecPool(Job job, java.util.List pools)` The call out to the site selector to determine on what pool the job should be scheduled.

### Uses of Job in edu.isi.pegasus.planner.transfer

Methods in edu.isi.pegasus.planner.transfer that return Job
`Job` Implementation.`createSetXBitJob(Job computeJob, java.util.Collection<FileTransfer> execFiles, int transferClass, int xbitIndex)` Adds the dirmanager job to the workflow, that do a chmod on the files being staged.

Methods in edu.isi.pegasus.planner.transfer with parameters of type Job
`void` Refiner.`addInterSiteTXNodes(Job job, java.util.Collection files, boolean localTransfer)` Adds the inter pool transfer nodes that are required for transferring the output files of the parents to the jobs execution site.
`void` Refiner.`addJob(Job job)` Add a new job to the workflow being refined.
`boolean` Implementation.`addSetXBitJobs(Job computeJob, java.lang.String txJobName, java.util.Collection execFiles, int transferClass, int xbitIndex)` Adds the dirmanager job to the workflow, that do a chmod on the files being staged.
`void` AbstractRefiner.`addStageInXFERNodes(Job job, java.util.Collection<FileTransfer> files)` Default behaviour to preserve backward compatibility when the stage in and symbolic link jobs were not separated.
`void` Refiner.`addStageInXFERNodes(Job job, java.util.Collection<FileTransfer> files, java.util.Collection<FileTransfer> symLinkFiles)` Adds the stage in transfer nodes which transfer the input files for a job, from the location returned from the replica catalog to the job's execution pool.
`void` AbstractRefiner.`addStageInXFERNodes(Job job, java.util.Collection<FileTransfer> files, java.util.Collection<FileTransfer> symlinkFiles)` Default behaviour to preserve backward compatibility when the stage in and symbolic link jobs were not separated.
`void` Refiner.`addStageOutXFERNodes(Job job, java.util.Collection files, ReplicaCatalogBridge rcb, boolean localTransfer)` Adds the stageout transfer nodes, that stage data to an output site specified by the user.
`void` Refiner.`addStageOutXFERNodes(Job job, java.util.Collection files, ReplicaCatalogBridge rcb, boolean localTransfer, boolean deletedLeaf)` Adds the stageout transfer nodes, that stage data to an output site specified by the user.
`Job` Implementation.`createSetXBitJob(Job computeJob, java.util.Collection<FileTransfer> execFiles, int transferClass, int xbitIndex)` Adds the dirmanager job to the workflow, that do a chmod on the files being staged.
`TransferJob` Implementation.`createTransferJob(Job job, java.lang.String site, java.util.Collection files, java.util.Collection execFiles, java.lang.String txJobName, int jobClass)` This constructs the Job object for the transfer node.
`java.util.Collection<FileTransfer>` SLS.`determineSLSInputTransfers(Job job, java.lang.String fileName, FileServer stagingSiteServer, java.lang.String stagingSiteDirectory, java.lang.String workerNodeDirectory)` Generates a second level staging file of the input files to the worker node directory.
`java.util.Collection<FileTransfer>` SLS.`determineSLSOutputTransfers(Job job, java.lang.String fileName, FileServer stagingSiteServer, java.lang.String stagingSiteDirectory, java.lang.String workerNodeDirectory)` Generates a second level staging file of the input files to the worker node directory.
`java.lang.String` SLS.`getSLSInputLFN(Job job)` Returns the LFN of sls input file.
`java.lang.String` SLS.`getSLSOutputLFN(Job job)` Returns the LFN of sls output file.
`java.lang.String` SLS.`invocationString(Job job, java.io.File slsFile)` Constructs a command line invocation for a job, with a given sls file.
`boolean` SLS.`modifyJobForWorkerNodeExecution(Job job, java.lang.String stagingSiteURLPrefix, java.lang.String stagingSitedirectory, java.lang.String workerNodeDirectory)` Modifies a compute job for second level staging.
`boolean` SLS.`needsSLSInputTransfers(Job job)` Returns a boolean indicating whether it will an input file for a job to do the transfers.
`boolean` SLS.`needsSLSOutputTransfers(Job job)` Returns a boolean indicating whether it will an output file for a job to do the transfers.

### Uses of Job in edu.isi.pegasus.planner.transfer.implementation

Methods in edu.isi.pegasus.planner.transfer.implementation that return Job
`Job` Abstract.`createNoOPJob(java.lang.String name)` It creates a NoOP job that runs on the submit host.
`protected Job` Abstract.`createSetXBitJob(java.util.Collection<FileTransfer> files, java.lang.String name, java.lang.String site)` Creates a dirmanager job, that does a chmod on the file being staged.
`protected Job` Abstract.`createSetXBitJob(FileTransfer file, java.lang.String name)` Creates a dirmanager job, that does a chmod on the file being staged.
`Job` Abstract.`createSetXBitJob(Job computeJob, java.util.Collection<FileTransfer> execFiles, int transferClass, int xbitIndex)` Adds the dirmanager job to the workflow, that do a chmod on the files being staged.

Methods in edu.isi.pegasus.planner.transfer.implementation with parameters of type Job
`protected boolean` Abstract.`addSetXBitJobs(Job computeJob, Job txJob, java.util.Collection execFiles)` Adds the dirmanager to the workflow, that do a chmod on the files being staged.
`boolean` Abstract.`addSetXBitJobs(Job computeJob, java.lang.String txJobName, java.util.Collection execFiles, int transferClass)` Adds the dirmanager job to the workflow, that do a chmod on the files being staged.
`boolean` Abstract.`addSetXBitJobs(Job computeJob, java.lang.String txJobName, java.util.Collection execFiles, int transferClass, int xbitIndex)` Adds the dirmanager job to the workflow, that do a chmod on the files being staged.
`protected void` Abstract.`construct(Job job, java.lang.String key, java.lang.String value)` Constructs a condor variable in the condor profile namespace associated with the job.
`Job` Abstract.`createSetXBitJob(Job computeJob, java.util.Collection<FileTransfer> execFiles, int transferClass, int xbitIndex)` Adds the dirmanager job to the workflow, that do a chmod on the files being staged.
`TransferJob` Stork.`createTransferJob(Job job, FileTransfer file, java.util.Collection execFiles, java.lang.String txJobName, int jobClass)` Constructs a general transfer job that handles single transfers per transfer job.
`TransferJob` AbstractMultipleFTPerXFERJob.`createTransferJob(Job job, java.lang.String site, java.util.Collection files, java.util.Collection execFiles, java.lang.String txJobName, int jobClass)` Constructs a general transfer job that handles multiple transfers per transfer job.
`TransferJob` AbstractSingleFTPerXFERJob.`createTransferJob(Job job, java.lang.String site, java.util.Collection files, java.util.Collection execFiles, java.lang.String txJobName, int jobClass)` Constructs a general transfer job that handles single transfers per transfer job.
`TransferJob` AbstractSingleFTPerXFERJob.`createTransferJob(Job job, java.lang.String site, FileTransfer file, java.util.Collection execFiles, java.lang.String txJobName, int jobClass)` Constructs a general transfer job that handles single transfers per transfer job.

### Uses of Job in edu.isi.pegasus.planner.transfer.refiner

Fields in edu.isi.pegasus.planner.transfer.refiner with type parameters of type Job
`private java.util.Map<java.lang.String,Job>` Cluster.`mSyncJobMap` Maps the site name to the current synch job

Methods in edu.isi.pegasus.planner.transfer.refiner that return Job
`protected Job` Basic.`createRegistrationJob(java.lang.String regJobName, Job job, java.util.Collection files, ReplicaCatalogBridge rcb)` Creates the registration jobs, which registers the materialized files on the output site in the Replica Catalog.
`protected Job` Empty.`createRegistrationJob(java.lang.String regJobName, Job job, java.util.Collection files, ReplicaCatalogBridge rcb)` Creates the registration jobs, which registers the materialized files on the output site in the Replica Catalog.
`private Job` Cluster.`createSyncJobBetweenLevels(java.lang.String name)` It creates a NoOP synch job that runs on the submit host.
`Job` Cluster.`getSyncJob(java.lang.String site)` Returns the current synch job for a site.

Methods in edu.isi.pegasus.planner.transfer.refiner with parameters of type Job
`void` Basic.`addInterSiteTXNodes(Job job, java.util.Collection files, boolean localTransfer)` Adds the inter pool transfer nodes that are required for transferring the output files of the parents to the jobs execution site.
`void` Empty.`addInterSiteTXNodes(Job job, java.util.Collection files, boolean localTransfer)` Adds the inter pool transfer nodes that are required for transferring the output files of the parents to the jobs execution site.
`void` Basic.`addJob(Job job)` Add a new job to the workflow being refined.
`void` Empty.`addJob(Job job)` Add a new job to the workflow being refined.

`void`

BalancedCluster.`addStageInXFERNodes(Job job, boolean localTransfer, java.util.Collection files, int type, java.util.Map<java.lang.String,BalancedCluster.PoolTransfer> stageInMap, BalancedCluster.BundleValue bundleValue, Implementation implementation)`
Adds the stage in transfer nodes which transfer the input files for a job, from the location returned from the replica catalog to the job's execution pool.

`void` Cluster.`addStageInXFERNodes(Job job, boolean localTransfer, java.util.Collection files, int jobType, java.util.Map<java.lang.String,Bundle.PoolTransfer> stageInMap, Bundle.BundleValue cValue, Implementation implementation)` Adds the stage in transfer nodes which transfer the input files for a job, from the location returned from the replica catalog to the job's execution pool.
`void` Bundle.`addStageInXFERNodes(Job job, boolean localTransfer, java.util.Collection files, int type, java.util.Map<java.lang.String,Bundle.PoolTransfer> stageInMap, Bundle.BundleValue bundleValue, Implementation implementation)` Adds the stage in transfer nodes which transfer the input files for a job, from the location returned from the replica catalog to the job's execution pool.
`void` Basic.`addStageInXFERNodes(Job job, java.util.Collection<FileTransfer> files, java.util.Collection<FileTransfer> symlinkFiles)` Adds the stage in transfer nodes which transfer the input files for a job, from the location returned from the replica catalog to the job's execution pool.
`void` Cluster.`addStageInXFERNodes(Job job, java.util.Collection<FileTransfer> files, java.util.Collection<FileTransfer> symlinkFiles)` Adds the stage in transfer nodes which transfer the input files for a job, from the location returned from the replica catalog to the job's execution pool.
`void` Bundle.`addStageInXFERNodes(Job job, java.util.Collection<FileTransfer> files, java.util.Collection<FileTransfer> symlinkFiles)` Adds the stage in transfer nodes which transfer the input files for a job, from the location returned from the replica catalog to the job's execution pool.
`void` BalancedCluster.`addStageInXFERNodes(Job job, java.util.Collection<FileTransfer> files, java.util.Collection<FileTransfer> symlinkFiles)` Adds the stage in transfer nodes which transfer the input files for a job, from the location returned from the replica catalog to the job's execution pool.
`void` Empty.`addStageInXFERNodes(Job job, java.util.Collection<FileTransfer> files, java.util.Collection<FileTransfer> symlinkFiles)` Adds the stage in transfer nodes which transfer the input files for a job, from the location returned from the replica catalog to the job's execution pool.
`void` Basic.`addStageInXFERNodes(Job job, java.util.Collection<FileTransfer> files, java.lang.String prefix, Implementation implementation)` Adds the stage in transfer nodes which transfer the input files for a job, from the location returned from the replica catalog to the job's execution pool.
`void` Empty.`addStageInXFERNodes(Job job, java.util.Collection<FileTransfer> files, java.lang.String prefix, Implementation implementation)` Adds the stage in transfer nodes which transfer the input files for a job, from the location returned from the replica catalog to the job's execution pool.
`void` Basic.`addStageOutXFERNodes(Job job, java.util.Collection files, ReplicaCatalogBridge rcb, boolean localTransfer)` Adds the stageout transfer nodes, that stage data to an output site specified by the user.
`void` Empty.`addStageOutXFERNodes(Job job, java.util.Collection files, ReplicaCatalogBridge rcb, boolean localTransfer)` Adds the stageout transfer nodes, that stage data to an output site specified by the user.
`void` Basic.`addStageOutXFERNodes(Job job, java.util.Collection files, ReplicaCatalogBridge rcb, boolean localTransfer, boolean deletedLeaf)` Adds the stageout transfer nodes, that stage data to an output site specified by the user.
`void` Bundle.`addStageOutXFERNodes(Job job, java.util.Collection files, ReplicaCatalogBridge rcb, boolean localTransfer, boolean deletedLeaf)` Adds the stageout transfer nodes, that stage data to an output site specified by the user.
`void` BalancedCluster.`addStageOutXFERNodes(Job job, java.util.Collection files, ReplicaCatalogBridge rcb, boolean localTransfer, boolean deletedLeaf)` Adds the stageout transfer nodes, that stage data to an output site specified by the user.
`void` Empty.`addStageOutXFERNodes(Job job, java.util.Collection files, ReplicaCatalogBridge rcb, boolean localTransfer, boolean deletedLeaf)` Adds the stageout transfer nodes, that stage data to an output site specified by the user.
`protected void` Cluster.`constructCondorKey(Job job, java.lang.String key, java.lang.String value)` Constructs a condor variable in the condor profile namespace associated with the job.
`protected Job` Basic.`createRegistrationJob(java.lang.String regJobName, Job job, java.util.Collection files, ReplicaCatalogBridge rcb)` Creates the registration jobs, which registers the materialized files on the output site in the Replica Catalog.
`protected Job` Empty.`createRegistrationJob(java.lang.String regJobName, Job job, java.util.Collection files, ReplicaCatalogBridge rcb)` Creates the registration jobs, which registers the materialized files on the output site in the Replica Catalog.
`int` Bundle.BundleValue.`determine(Implementation implementation, Job job)` Determines the bundle factor for a particular site on the basis of the stage in bundle value associcated with the underlying transfer transformation in the transformation catalog.
`int` BalancedCluster.BundleValue.`determine(Implementation implementation, Job job)` Determines the bundle factor for a particular site on the basis of the stage in bundle value associcated with the underlying transfer transformation in the transformation catalog.
`protected java.lang.String` Cluster.`getComputeJobBundleValue(Job job)` Returns the bundle value associated with a compute job as a String.
`protected java.lang.String` Bundle.`getComputeJobBundleValue(Job job)` Returns the bundle value associated with a compute job as a String.
`protected java.lang.String` BalancedCluster.`getComputeJobBundleValue(Job job)` Returns the bundle value associated with a compute job as a String.
`protected int` Basic.`getJobPriority(Job job)` Returns the priority associated with a job based on the condor profile key priority .
`protected void` Basic.`logRefinerAction(Job computeJob, Job txJob, java.util.Collection files, java.lang.String type)` Records the refiner action into the Provenace Store as a XML fragment.

Method parameters in edu.isi.pegasus.planner.transfer.refiner with type arguments of type Job
`protected java.util.Map<java.lang.String,Bundle.PoolTransfer>` Cluster.`resetStageInMap(java.util.Map<java.lang.String,Bundle.PoolTransfer> stageInMap, Implementation implementation, java.util.Map<java.lang.String,Job> transientSynchJobMap, int jobType, boolean createChildSyncJob, boolean localTransfer)` Resets the stage in map and adds the stage in jobs for each site per level.

### Uses of Job in edu.isi.pegasus.planner.transfer.sls

Methods in edu.isi.pegasus.planner.transfer.sls with parameters of type Job
`protected void` Transfer.`complainForHeadNodeURLPrefix(Job job, java.lang.String site)` Complains for head node url prefix not specified
`java.util.Collection<FileTransfer>` Condor.`determineSLSInputTransfers(Job job, java.lang.String fileName, FileServer stagingSiteServer, java.lang.String stagingSiteDirectory, java.lang.String workerNodeDirectory)` Generates a second level staging file of the input files to the worker node directory.
`java.util.Collection<FileTransfer>` Transfer.`determineSLSInputTransfers(Job job, java.lang.String fileName, FileServer stagingSiteServer, java.lang.String stagingSiteDirectory, java.lang.String workerNodeDirectory)` Generates a second level staging file of the input files to the worker node directory.
`java.util.Collection<FileTransfer>` Condor.`determineSLSOutputTransfers(Job job, java.lang.String fileName, FileServer stagingSiteServer, java.lang.String stagingSiteDirectory, java.lang.String workerNodeDirectory)` Generates a second level staging file of the input files to the worker node directory.
`java.util.Collection<FileTransfer>` Transfer.`determineSLSOutputTransfers(Job job, java.lang.String fileName, FileServer stagingSiteServer, java.lang.String stagingSiteDirectory, java.lang.String workerNodeDirectory)` Generates a second level staging file of the input files to the worker node directory.
`java.lang.String` Condor.`getSLSInputLFN(Job job)` Returns the LFN of sls input file.
`java.lang.String` Transfer.`getSLSInputLFN(Job job)` Returns the LFN of sls input file.
`java.lang.String` Condor.`getSLSOutputLFN(Job job)` Returns the LFN of sls output file.
`java.lang.String` Transfer.`getSLSOutputLFN(Job job)` Returns the LFN of sls output file.
`java.lang.String` Condor.`invocationString(Job job, java.io.File slsFile)` Constructs a command line invocation for a job, with a given sls file.
`java.lang.String` Transfer.`invocationString(Job job, java.io.File slsFile)` Constructs a command line invocation for a job, with a given sls file.
`boolean` Condor.`modifyJobForFirstLevelStaging(Job job, java.lang.String submitDir, java.lang.String slsInputLFN, java.lang.String slsOutputLFN)` Modifies a job for the first level staging to headnode.This is to add any files that needs to be staged to the head node for a job specific to the SLS implementation.
`boolean` Condor.`modifyJobForWorkerNodeExecution(Job job, java.lang.String stagingSiteURLPrefix, java.lang.String stagingSiteDirectory, java.lang.String workerNodeDirectory)` Modifies a compute job for second level staging.
`boolean` Transfer.`modifyJobForWorkerNodeExecution(Job job, java.lang.String stagingSiteURLPrefix, java.lang.String stagingSitedirectory, java.lang.String workerNodeDirectory)` Modifies a compute job for second level staging.
`boolean` Condor.`needsSLSInputTransfers(Job job)` Returns a boolean indicating whether it will an input file for a job to do the transfers.
`boolean` Transfer.`needsSLSInputTransfers(Job job)` Returns a boolean indicating whether it will an input file for a job to do the transfers.
`boolean` Condor.`needsSLSOutputTransfers(Job job)` Returns a boolean indicating whether it will an output file for a job to do the transfers.
`boolean` Transfer.`needsSLSOutputTransfers(Job job)` Returns a boolean indicating whether it will an output file for a job to do the transfers.