# Hierarchy For All Packages

Package Hierarchies:

- edu.isi.ikcap.workflows.util.logging,
- edu.isi.pegasus.common.credential,
- edu.isi.pegasus.common.credential.impl,
- edu.isi.pegasus.common.logging,
- edu.isi.pegasus.common.logging.format,
- edu.isi.pegasus.common.logging.logger,
- edu.isi.pegasus.common.util,
- edu.isi.pegasus.gridftp,
- edu.isi.pegasus.planner.catalog,
- edu.isi.pegasus.planner.catalog.classes,
- edu.isi.pegasus.planner.catalog.replica,
- edu.isi.pegasus.planner.catalog.replica.impl,
- edu.isi.pegasus.planner.catalog.site,
- edu.isi.pegasus.planner.catalog.site.classes,
- edu.isi.pegasus.planner.catalog.site.impl,
- edu.isi.pegasus.planner.catalog.site.impl.old,
- edu.isi.pegasus.planner.catalog.site.impl.old.classes,
- edu.isi.pegasus.planner.catalog.transformation,
- edu.isi.pegasus.planner.catalog.transformation.classes,
- edu.isi.pegasus.planner.catalog.transformation.client,
- edu.isi.pegasus.planner.catalog.transformation.impl,
- edu.isi.pegasus.planner.catalog.transformation.mapper,
- edu.isi.pegasus.planner.catalog.work,
- 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.common,
- edu.isi.pegasus.planner.dax,
- edu.isi.pegasus.planner.dax.examples,
- edu.isi.pegasus.planner.invocation,
- edu.isi.pegasus.planner.namespace,
- edu.isi.pegasus.planner.namespace.aggregator,
- edu.isi.pegasus.planner.parser,
- edu.isi.pegasus.planner.parser.dax,
- edu.isi.pegasus.planner.parser.pdax,
- edu.isi.pegasus.planner.parser.tokens,
- edu.isi.pegasus.planner.partitioner,
- edu.isi.pegasus.planner.partitioner.graph,
- edu.isi.pegasus.planner.provenance.pasoa,
- edu.isi.pegasus.planner.provenance.pasoa.pps,
- edu.isi.pegasus.planner.provenance.pasoa.producer,
- edu.isi.pegasus.planner.provisioner,
- edu.isi.pegasus.planner.ranking,
- edu.isi.pegasus.planner.refiner,
- edu.isi.pegasus.planner.refiner.cleanup,
- edu.isi.pegasus.planner.refiner.createdir,
- edu.isi.pegasus.planner.selector,
- edu.isi.pegasus.planner.selector.replica,
- edu.isi.pegasus.planner.selector.site,
- edu.isi.pegasus.planner.selector.site.heft,
- edu.isi.pegasus.planner.selector.transformation,
- edu.isi.pegasus.planner.transfer,
- edu.isi.pegasus.planner.transfer.implementation,
- edu.isi.pegasus.planner.transfer.mapper,
- edu.isi.pegasus.planner.transfer.mapper.impl,
- edu.isi.pegasus.planner.transfer.refiner,
- edu.isi.pegasus.planner.transfer.sls

## Class Hierarchy

- java.lang.Object
  - edu.isi.pegasus.common.credential.impl.Abstract (implements edu.isi.pegasus.common.credential.CredentialHandler)
    - edu.isi.pegasus.common.credential.impl.Irods (implements edu.isi.pegasus.common.credential.CredentialHandler)
    - edu.isi.pegasus.common.credential.impl.Proxy (implements edu.isi.pegasus.common.credential.CredentialHandler)
    - edu.isi.pegasus.common.credential.impl.S3CFG (implements edu.isi.pegasus.common.credential.CredentialHandler)
    - edu.isi.pegasus.common.credential.impl.Ssh (implements edu.isi.pegasus.common.credential.CredentialHandler)
  - edu.isi.pegasus.planner.catalog.transformation.impl.Abstract (implements edu.isi.pegasus.planner.catalog.TransformationCatalog)
    - edu.isi.pegasus.planner.catalog.transformation.impl.File (implements edu.isi.pegasus.planner.catalog.TransformationCatalog)
    - edu.isi.pegasus.planner.catalog.transformation.impl.Text (implements edu.isi.pegasus.planner.catalog.TransformationCatalog)
  - edu.isi.pegasus.planner.cluster.Abstract (implements edu.isi.pegasus.planner.cluster.Clusterer)
    - edu.isi.pegasus.planner.cluster.Vertical
  - edu.isi.pegasus.planner.cluster.aggregator.Abstract (implements edu.isi.pegasus.planner.cluster.JobAggregator)
    - edu.isi.pegasus.planner.cluster.aggregator.MPIExec
    - edu.isi.pegasus.planner.cluster.aggregator.SeqExec
  - edu.isi.pegasus.planner.code.generator.Abstract (implements edu.isi.pegasus.planner.code.CodeGenerator)
    - edu.isi.pegasus.planner.code.generator.condor.CondorGenerator
      - edu.isi.pegasus.planner.code.generator.HashedFile
    - edu.isi.pegasus.planner.code.generator.PBS
    - edu.isi.pegasus.planner.code.generator.PMC
    - edu.isi.pegasus.planner.code.generator.Shell
    - edu.isi.pegasus.planner.code.generator.Stork
  - edu.isi.pegasus.planner.code.generator.condor.style.Abstract (implements edu.isi.pegasus.planner.code.generator.condor.CondorStyle)
    - edu.isi.pegasus.planner.code.generator.condor.style.Condor
      - edu.isi.pegasus.planner.code.generator.condor.style.CondorC
      - edu.isi.pegasus.planner.code.generator.condor.style.CondorGlideinWMS
    - edu.isi.pegasus.planner.code.generator.condor.style.CondorG
    - edu.isi.pegasus.planner.code.generator.condor.style.CondorGlideIN
    - edu.isi.pegasus.planner.code.generator.condor.style.CreamCE
    - edu.isi.pegasus.planner.code.generator.condor.style.GLite
      - edu.isi.pegasus.planner.code.generator.condor.style.SSH
  - edu.isi.pegasus.planner.namespace.aggregator.Abstract (implements edu.isi.pegasus.planner.namespace.aggregator.Aggregator)
    - edu.isi.pegasus.planner.namespace.aggregator.MAX
    - edu.isi.pegasus.planner.namespace.aggregator.MIN
    - edu.isi.pegasus.planner.namespace.aggregator.Sum
    - edu.isi.pegasus.planner.namespace.aggregator.UniqueMerge
    - edu.isi.pegasus.planner.namespace.aggregator.Update
  - edu.isi.pegasus.planner.selector.site.Abstract (implements edu.isi.pegasus.planner.selector.SiteSelector)
    - edu.isi.pegasus.planner.selector.site.AbstractPerJob
      - edu.isi.pegasus.planner.selector.site.NonJavaCallout
      - edu.isi.pegasus.planner.selector.site.Random
      - edu.isi.pegasus.planner.selector.site.RoundRobin
    - edu.isi.pegasus.planner.selector.site.Group
    - edu.isi.pegasus.planner.selector.site.Heft
  - edu.isi.pegasus.planner.transfer.implementation.Abstract (implements edu.isi.pegasus.planner.transfer.Implementation)
    - edu.isi.pegasus.planner.transfer.implementation.AbstractMultipleFTPerXFERJob (implements edu.isi.pegasus.planner.transfer.MultipleFTPerXFERJob)
      - edu.isi.pegasus.planner.transfer.implementation.GUC
        - edu.isi.pegasus.planner.transfer.implementation.TPTGUC
      - edu.isi.pegasus.planner.transfer.implementation.T2
      - edu.isi.pegasus.planner.transfer.implementation.Transfer
    - edu.isi.pegasus.planner.transfer.implementation.AbstractSingleFTPerXFERJob (implements edu.isi.pegasus.planner.transfer.SingleFTPerXFERJob)
      - edu.isi.pegasus.planner.transfer.implementation.Stork
  - edu.isi.pegasus.planner.transfer.mapper.impl.AbstractFileFactoryBasedMapper (implements edu.isi.pegasus.planner.transfer.mapper.OutputMapper)
    - edu.isi.pegasus.planner.transfer.mapper.impl.Flat
    - edu.isi.pegasus.planner.transfer.mapper.impl.Hashed
  - edu.isi.pegasus.planner.dax.AbstractJob
    - edu.isi.pegasus.planner.dax.DAG
    - edu.isi.pegasus.planner.dax.DAX
    - edu.isi.pegasus.planner.dax.Job
  - edu.isi.pegasus.common.logging.format.AbstractLogFormatter (implements edu.isi.pegasus.common.logging.LogFormatter)
    - edu.isi.pegasus.common.logging.format.Netlogger
    - edu.isi.pegasus.common.logging.format.Simple
  - edu.isi.pegasus.planner.transfer.AbstractRefiner (implements edu.isi.pegasus.planner.transfer.Refiner)
    - edu.isi.pegasus.planner.transfer.MultipleFTPerXFERJobRefiner
      - edu.isi.pegasus.planner.transfer.refiner.Basic
        - edu.isi.pegasus.planner.transfer.refiner.BalancedCluster
        - edu.isi.pegasus.planner.transfer.refiner.Bundle
          - edu.isi.pegasus.planner.transfer.refiner.Cluster
        - edu.isi.pegasus.planner.transfer.refiner.Chain
      - edu.isi.pegasus.planner.transfer.refiner.Empty
    - edu.isi.pegasus.planner.transfer.SingleFTPerXFERJobRefiner
  - edu.isi.pegasus.planner.refiner.createdir.AbstractStrategy (implements edu.isi.pegasus.planner.refiner.createdir.Strategy)
    - edu.isi.pegasus.planner.refiner.createdir.HourGlass
    - edu.isi.pegasus.planner.refiner.createdir.Minimal
    - edu.isi.pegasus.planner.refiner.createdir.Tentacles
  - edu.isi.pegasus.planner.catalog.site.classes.AbstractXMLPrintVisitor (implements edu.isi.pegasus.planner.catalog.site.classes.SiteDataVisitor)
    - edu.isi.pegasus.planner.catalog.site.classes.XML3PrintVisitor
    - edu.isi.pegasus.planner.catalog.site.classes.XML4PrintVisitor
  - edu.isi.pegasus.planner.dax.ADAG
  - edu.isi.pegasus.planner.catalog.site.classes.Adapter
  - edu.isi.pegasus.planner.selector.site.heft.Algorithm
  - edu.isi.pegasus.planner.catalog.transformation.classes.Arch (implements java.io.Serializable)
  - edu.isi.pegasus.planner.refiner.Authenticate
  - edu.isi.pegasus.planner.refiner.Authenticate.HostPort
  - edu.isi.pegasus.planner.transfer.refiner.BalancedCluster.BundleValue
  - edu.isi.pegasus.planner.transfer.refiner.BalancedCluster.PoolTransfer
  - edu.isi.pegasus.planner.transfer.refiner.BalancedCluster.TransferContainer
  - edu.isi.pegasus.common.util.Boolean
  - edu.isi.pegasus.planner.code.generator.Braindump
  - edu.isi.pegasus.planner.transfer.refiner.Bundle.BundleValue
  - edu.isi.pegasus.planner.transfer.refiner.Bundle.PoolTransfer
  - edu.isi.pegasus.planner.transfer.refiner.Bundle.TransferContainer
  - edu.isi.pegasus.planner.dax.CatalogType
    - edu.isi.pegasus.planner.dax.Executable
    - edu.isi.pegasus.planner.dax.File
  - edu.isi.pegasus.planner.transfer.refiner.Chain.SiteTransfer
  - edu.isi.pegasus.planner.transfer.refiner.Chain.TransferChain
  - org.griphyn.vdl.Chimera
    - edu.isi.pegasus.planner.invocation.Invocation (implements java.io.Serializable)
      - edu.isi.pegasus.planner.invocation.Architecture (implements edu.isi.pegasus.planner.invocation.HasText)
      - edu.isi.pegasus.planner.invocation.ArgEntry (implements edu.isi.pegasus.planner.invocation.HasText)
      - edu.isi.pegasus.planner.invocation.Arguments
        - edu.isi.pegasus.planner.invocation.ArgString (implements edu.isi.pegasus.planner.invocation.HasText)
        - edu.isi.pegasus.planner.invocation.ArgVector
      - edu.isi.pegasus.planner.invocation.CommandLine (implements edu.isi.pegasus.planner.invocation.HasText)
      - edu.isi.pegasus.planner.invocation.Data (implements edu.isi.pegasus.planner.invocation.HasText)
      - edu.isi.pegasus.planner.invocation.EnvEntry (implements edu.isi.pegasus.planner.invocation.HasText)
      - edu.isi.pegasus.planner.invocation.Environment
      - edu.isi.pegasus.planner.invocation.File (implements edu.isi.pegasus.planner.invocation.HasText)
        - edu.isi.pegasus.planner.invocation.Descriptor (implements edu.isi.pegasus.planner.invocation.HasDescriptor)
        - edu.isi.pegasus.planner.invocation.Regular (implements edu.isi.pegasus.planner.invocation.HasFilename)
        - edu.isi.pegasus.planner.invocation.Temporary (implements edu.isi.pegasus.planner.invocation.HasDescriptor, edu.isi.pegasus.planner.invocation.HasFilename)
          - edu.isi.pegasus.planner.invocation.Fifo
      - edu.isi.pegasus.planner.invocation.Ignore (implements edu.isi.pegasus.planner.invocation.HasText)
      - edu.isi.pegasus.planner.invocation.InvocationRecord
      - edu.isi.pegasus.planner.invocation.Job
      - edu.isi.pegasus.planner.invocation.JobStatus
        - edu.isi.pegasus.planner.invocation.JobStatusFailure (implements edu.isi.pegasus.planner.invocation.HasText)
        - edu.isi.pegasus.planner.invocation.JobStatusRegular
        - edu.isi.pegasus.planner.invocation.JobStatusSignal (implements edu.isi.pegasus.planner.invocation.HasText)
        - edu.isi.pegasus.planner.invocation.JobStatusSuspend (implements edu.isi.pegasus.planner.invocation.HasText)
      - edu.isi.pegasus.planner.invocation.Machine
      - edu.isi.pegasus.planner.invocation.MachineInfo
        - edu.isi.pegasus.planner.invocation.Boot (implements edu.isi.pegasus.planner.invocation.HasText)
        - edu.isi.pegasus.planner.invocation.CPU (implements edu.isi.pegasus.planner.invocation.HasText)
        - edu.isi.pegasus.planner.invocation.Load
        - edu.isi.pegasus.planner.invocation.Proc
        - edu.isi.pegasus.planner.invocation.RAM
        - edu.isi.pegasus.planner.invocation.Stamp (implements edu.isi.pegasus.planner.invocation.HasText)
        - edu.isi.pegasus.planner.invocation.Swap
        - edu.isi.pegasus.planner.invocation.Task
        - edu.isi.pegasus.planner.invocation.Uname (implements edu.isi.pegasus.planner.invocation.HasText)
      - edu.isi.pegasus.planner.invocation.MachineSpecific
      - edu.isi.pegasus.planner.invocation.StatCall
      - edu.isi.pegasus.planner.invocation.StatInfo
      - edu.isi.pegasus.planner.invocation.Status
      - edu.isi.pegasus.planner.invocation.Usage
      - edu.isi.pegasus.planner.invocation.WorkingDir (implements edu.isi.pegasus.planner.invocation.HasText)
  - edu.isi.pegasus.planner.code.generator.condor.ClassADSGenerator
  - edu.isi.pegasus.planner.refiner.cleanup.Cleanup (implements edu.isi.pegasus.planner.refiner.cleanup.CleanupImplementation)
  - edu.isi.pegasus.planner.refiner.cleanup.CleanupFactory
  - edu.isi.pegasus.planner.refiner.cleanup.CleanupJobContent (implements edu.isi.pegasus.planner.partitioner.graph.GraphNodeContent)
  - edu.isi.pegasus.planner.catalog.transformation.client.Client
    - edu.isi.pegasus.planner.catalog.transformation.client.TCAdd
    - edu.isi.pegasus.planner.catalog.transformation.client.TCDelete
    - edu.isi.pegasus.planner.catalog.transformation.client.TCQuery
  - edu.isi.pegasus.planner.parser.tokens.CloseBrace (implements edu.isi.pegasus.planner.parser.tokens.Token)
  - edu.isi.pegasus.planner.parser.tokens.CloseParanthesis (implements edu.isi.pegasus.planner.parser.tokens.Token)
  - edu.isi.pegasus.planner.partitioner.ClustererCallback (implements edu.isi.pegasus.planner.partitioner.Callback)
  - edu.isi.pegasus.planner.cluster.ClustererFactory
  - edu.isi.pegasus.planner.code.CodeGeneratorFactory
  - edu.isi.pegasus.gridftp.Command
    - edu.isi.pegasus.gridftp.ListCommand
    - edu.isi.pegasus.gridftp.MakeDirectoryCommand
    - edu.isi.pegasus.gridftp.RemoveCommand
  - edu.isi.pegasus.common.util.CommonProperties (implements java.lang.Cloneable)
  - edu.isi.pegasus.planner.classes.CompoundTransformation
  - edu.isi.pegasus.planner.transfer.sls.Condor (implements edu.isi.pegasus.planner.transfer.SLS)
  - edu.isi.pegasus.planner.code.generator.condor.CondorQuoteParser
  - edu.isi.pegasus.planner.code.generator.condor.CondorStyleFactory
  - edu.isi.pegasus.common.util.CondorVersion
  - edu.isi.pegasus.common.util.CondorVersion.CondorVersionCallback (implements edu.isi.pegasus.common.util.StreamGobblerCallback)
  - edu.isi.pegasus.planner.catalog.site.classes.CreateSampleSiteCatalog
  - edu.isi.pegasus.planner.catalog.transformation.impl.CreateTCDatabase
  - edu.isi.pegasus.common.credential.CredentialHandlerFactory
  - edu.isi.pegasus.common.util.Currently
  - edu.isi.pegasus.planner.classes.Data (implements java.lang.Cloneable)
    - edu.isi.pegasus.planner.classes.ADag (implements edu.isi.pegasus.planner.partitioner.graph.Graph)
    - edu.isi.pegasus.planner.classes.AuthenticateRequest
    - edu.isi.pegasus.planner.classes.DagInfo
    - edu.isi.pegasus.planner.partitioner.graph.GraphNode
    - edu.isi.pegasus.planner.classes.Job (implements edu.isi.pegasus.planner.partitioner.graph.GraphNodeContent)
      - edu.isi.pegasus.planner.classes.AggregatedJob (implements edu.isi.pegasus.planner.partitioner.graph.Graph)
      - edu.isi.pegasus.planner.classes.DAGJob
      - edu.isi.pegasus.planner.classes.DAXJob
      - edu.isi.pegasus.planner.classes.TransferJob
    - edu.isi.pegasus.planner.classes.NameValue (implements java.lang.Comparable<T>)
    - edu.isi.pegasus.planner.classes.Notifications
    - edu.isi.pegasus.planner.partitioner.Partition
    - edu.isi.pegasus.planner.classes.PCRelation
    - edu.isi.pegasus.planner.classes.PegasusFile
      - edu.isi.pegasus.planner.classes.FileTransfer
    - edu.isi.pegasus.planner.classes.PlannerCache (implements java.lang.Cloneable)
    - edu.isi.pegasus.planner.classes.PlannerMetrics
    - edu.isi.pegasus.planner.classes.PlannerOptions (implements java.lang.Cloneable)
    - edu.isi.pegasus.planner.classes.Profile
    - edu.isi.pegasus.planner.classes.ReplicaLocation (implements java.lang.Cloneable)
    - edu.isi.pegasus.planner.classes.ReplicaStore (implements java.lang.Cloneable)
    - edu.isi.pegasus.planner.classes.WorkflowMetrics (implements java.lang.Cloneable)
  - edu.isi.pegasus.planner.catalog.work.Database (implements edu.isi.pegasus.planner.catalog.WorkCatalog)
  - org.griphyn.vdl.dbschema.DatabaseSchema (implements org.griphyn.vdl.dbschema.Catalog)
    - edu.isi.pegasus.planner.catalog.transformation.impl.Database (implements edu.isi.pegasus.planner.catalog.TransformationCatalog)
  - edu.isi.pegasus.planner.refiner.DataReuseEngine.BooleanBag (implements edu.isi.pegasus.planner.partitioner.graph.Bag)
  - edu.isi.pegasus.planner.parser.dax.DAX2CDAG (implements edu.isi.pegasus.planner.parser.dax.Callback)
  - edu.isi.pegasus.planner.parser.dax.DAX2Graph (implements edu.isi.pegasus.planner.parser.dax.Callback)
    - edu.isi.pegasus.planner.parser.dax.DAX2LabelGraph
  - edu.isi.pegasus.planner.parser.dax.DAX2Metadata (implements edu.isi.pegasus.planner.parser.dax.Callback)
  - edu.isi.pegasus.planner.parser.dax.DAX2NewGraph (implements edu.isi.pegasus.planner.parser.dax.Callback)
  - edu.isi.pegasus.planner.parser.dax.DAXParser3.Arguments
  - edu.isi.pegasus.planner.parser.DAXParserFactory
  - edu.isi.pegasus.planner.code.generator.DAXReplicaStore (implements edu.isi.pegasus.planner.code.CodeGenerator)
  - edu.isi.pegasus.planner.partitioner.DAXWriter
    - edu.isi.pegasus.planner.partitioner.MultipleLook
    - edu.isi.pegasus.planner.partitioner.SingleLook
  - edu.isi.pegasus.planner.selector.replica.Default (implements edu.isi.pegasus.planner.selector.ReplicaSelector)
    - edu.isi.pegasus.planner.selector.replica.Regex
    - edu.isi.pegasus.planner.selector.replica.Restricted
  - org.xml.sax.helpers.DefaultHandler (implements org.xml.sax.ContentHandler, org.xml.sax.DTDHandler, org.xml.sax.EntityResolver, org.xml.sax.ErrorHandler)
    - edu.isi.pegasus.planner.client.DAXValidator
    - edu.isi.pegasus.planner.parser.InvocationParser
    - edu.isi.pegasus.planner.parser.Parser
      - edu.isi.pegasus.planner.parser.ConfigXmlParser
      - edu.isi.pegasus.planner.parser.dax.DAXParser2 (implements edu.isi.pegasus.planner.parser.dax.DAXParser)
      - edu.isi.pegasus.planner.parser.PDAXParser
      - edu.isi.pegasus.planner.parser.SiteCatalogXMLMetadataParser
      - edu.isi.pegasus.planner.parser.StackBasedXMLParser
        - edu.isi.pegasus.planner.parser.dax.DAXParser3 (implements edu.isi.pegasus.planner.parser.dax.DAXParser)
        - edu.isi.pegasus.planner.parser.SiteCatalogXMLParser3 (implements edu.isi.pegasus.planner.parser.SiteCatalogXMLParser)
        - edu.isi.pegasus.planner.parser.SiteCatalogXMLParser4 (implements edu.isi.pegasus.planner.parser.SiteCatalogXMLParser)
      - edu.isi.pegasus.planner.catalog.site.impl.XML2 (implements edu.isi.pegasus.planner.catalog.SiteCatalog)
  - edu.isi.pegasus.planner.refiner.createdir.DefaultImplementation (implements edu.isi.pegasus.planner.refiner.createdir.Implementation)
  - edu.isi.pegasus.common.util.DefaultStreamGobblerCallback (implements edu.isi.pegasus.common.util.StreamGobblerCallback)
  - edu.isi.pegasus.planner.dax.examples.Diamond
  - edu.isi.pegasus.planner.catalog.replica.impl.Directory (implements edu.isi.pegasus.planner.catalog.ReplicaCatalog)
  - edu.isi.pegasus.common.util.DynamicLoader
  - edu.isi.pegasus.planner.dax.Edge
  - edu.isi.pegasus.planner.provisioner.Edge
  - edu.isi.pegasus.planner.provenance.pasoa.pps.Empty (implements edu.isi.pegasus.planner.provenance.pasoa.PPS)
  - edu.isi.pegasus.planner.refiner.Engine
    - edu.isi.pegasus.planner.refiner.AuthenticateEngine
    - edu.isi.pegasus.planner.refiner.CleanupEngine
    - edu.isi.pegasus.planner.refiner.CreateDirectory
    - edu.isi.pegasus.planner.refiner.DataReuseEngine (implements edu.isi.pegasus.planner.refiner.Refiner)
    - edu.isi.pegasus.planner.refiner.DeployWorkerPackage
    - edu.isi.pegasus.planner.refiner.InterPoolEngine (implements edu.isi.pegasus.planner.refiner.Refiner)
    - edu.isi.pegasus.planner.refiner.MainEngine
    - edu.isi.pegasus.planner.refiner.NodeCollapser
    - edu.isi.pegasus.planner.refiner.RemoveDirectory
    - edu.isi.pegasus.planner.refiner.ReplicaCatalogBridge
    - edu.isi.pegasus.planner.refiner.TransferEngine
  - edu.isi.ikcap.workflows.util.logging.Escape
  - edu.isi.pegasus.common.util.Escape
  - edu.isi.pegasus.planner.provisioner.Estimator
  - edu.isi.ikcap.workflows.util.logging.EventLogMessage
  - edu.isi.pegasus.planner.parser.dax.ExampleDAXCallback (implements edu.isi.pegasus.planner.parser.dax.Callback)
  - edu.isi.pegasus.planner.client.Executable
    - edu.isi.pegasus.planner.client.CPlanner
    - edu.isi.pegasus.planner.client.PartitionDAX
    - edu.isi.pegasus.planner.client.PegasusGetSites
    - edu.isi.pegasus.planner.client.RankDAX
    - edu.isi.pegasus.planner.client.SCClient
    - edu.isi.pegasus.planner.client.TCClient
    - edu.isi.pegasus.planner.client.TCConverter
    - edu.isi.pegasus.planner.client.VDS2PegasusProperties
  - edu.isi.pegasus.gridftp.FileInfo (implements java.lang.Comparable<T>)
  - org.apache.log4j.spi.Filter (implements org.apache.log4j.spi.OptionHandler)
    - edu.isi.ikcap.workflows.util.logging.EventLogMessage.Log4jFilter
  - edu.isi.pegasus.common.util.FindExecutable
  - edu.isi.pegasus.planner.transfer.mapper.impl.Fixed (implements edu.isi.pegasus.planner.transfer.mapper.OutputMapper)
  - edu.isi.pegasus.planner.catalog.replica.impl.FlushedCache (implements edu.isi.pegasus.planner.catalog.ReplicaCatalog)
  - edu.isi.pegasus.planner.ranking.GetDAX
  - edu.isi.pegasus.planner.catalog.site.impl.old.classes.GlobusVersion
  - edu.isi.pegasus.planner.catalog.site.impl.old.classes.GridFTPBandwidth
  - edu.isi.pegasus.gridftp.GridFTPConnection
  - edu.isi.pegasus.gridftp.GridFTPConnection.StringBuilderDataSink (implements org.globus.ftp.DataSink)
  - edu.isi.pegasus.planner.catalog.site.impl.old.classes.GridFTPServer
  - edu.isi.pegasus.gridftp.GridFTPURL
  - edu.isi.pegasus.planner.code.GridStartFactory
  - edu.isi.pegasus.planner.selector.site.heft.HeftBag (implements edu.isi.pegasus.planner.partitioner.graph.Bag)
  - edu.isi.pegasus.planner.selector.site.heft.HeftGraphNodeComparator (implements java.util.Comparator<T>)
  - edu.isi.pegasus.planner.cluster.Horizontal (implements edu.isi.pegasus.planner.cluster.Clusterer, edu.isi.pegasus.planner.refiner.Refiner)
  - edu.isi.pegasus.planner.partitioner.Horizontal.GraphNodeComparator (implements java.util.Comparator<T>)
  - edu.isi.pegasus.planner.cluster.Horizontal.JobComparator (implements java.util.Comparator<T>)
  - edu.isi.pegasus.planner.parser.tokens.Identifier (implements edu.isi.pegasus.planner.parser.tokens.Token)
  - edu.isi.pegasus.planner.transfer.implementation.ImplementationFactory
  - edu.isi.pegasus.planner.provenance.pasoa.producer.InMemory (implements edu.isi.pegasus.planner.provenance.pasoa.XMLProducer)
  - edu.isi.pegasus.planner.refiner.cleanup.InPlace (implements edu.isi.pegasus.planner.refiner.cleanup.CleanupStrategy)
  - edu.isi.pegasus.planner.dax.Invoke
  - edu.isi.pegasus.planner.parser.IVPTest
  - edu.isi.pegasus.planner.parser.IVSElement
  - edu.isi.pegasus.planner.catalog.replica.impl.JDBCRC (implements edu.isi.pegasus.planner.catalog.ReplicaCatalog)
  - edu.isi.pegasus.planner.cluster.aggregator.JobAggregatorFactory
  - edu.isi.pegasus.planner.cluster.aggregator.JobAggregatorInstanceFactory
  - edu.isi.pegasus.planner.catalog.site.impl.old.classes.JobManager
  - edu.isi.pegasus.planner.code.gridstart.Kickstart (implements edu.isi.pegasus.planner.code.GridStart)
  - edu.isi.pegasus.planner.partitioner.graph.LabelBag (implements edu.isi.pegasus.planner.partitioner.graph.Bag)
  - edu.isi.pegasus.planner.selector.replica.Local (implements edu.isi.pegasus.planner.selector.ReplicaSelector)
  - edu.isi.ikcap.workflows.util.logging.LogEvent (implements edu.isi.ikcap.workflows.util.logging.LoggingKeys)
  - edu.isi.pegasus.common.logging.LogFormatterFactory
  - edu.isi.pegasus.common.logging.LoggingKeys
  - edu.isi.pegasus.common.logging.LogManager
    - edu.isi.pegasus.common.logging.logger.Default
    - edu.isi.pegasus.common.logging.logger.Log4j
  - edu.isi.pegasus.common.logging.LogManagerFactory
  - edu.isi.pegasus.planner.catalog.site.impl.old.classes.LRC
  - edu.isi.pegasus.planner.partitioner.graph.MapGraph (implements edu.isi.pegasus.planner.partitioner.graph.Graph)
  - edu.isi.pegasus.planner.partitioner.graph.MapGraph.BottomUpIterator (implements java.util.Iterator<E>)
  - edu.isi.pegasus.planner.partitioner.graph.MapGraph.MapGraphIterator (implements java.util.Iterator<E>)
  - edu.isi.pegasus.planner.catalog.transformation.Mapper
    - edu.isi.pegasus.planner.catalog.transformation.mapper.All
    - edu.isi.pegasus.planner.catalog.transformation.mapper.Installed
    - edu.isi.pegasus.planner.catalog.transformation.mapper.Staged
    - edu.isi.pegasus.planner.catalog.transformation.mapper.Submit
  - edu.isi.pegasus.planner.catalog.site.impl.old.MdsQuery
  - edu.isi.pegasus.planner.dax.MetaData
  - edu.isi.pegasus.planner.code.generator.Metrics
  - edu.isi.pegasus.planner.code.generator.MonitordNotify (implements edu.isi.pegasus.planner.code.CodeGenerator)
  - edu.isi.pegasus.planner.catalog.replica.impl.MRC (implements edu.isi.pegasus.planner.catalog.ReplicaCatalog)
  - edu.isi.pegasus.planner.partitioner.MultipleLook.MyCallBackHandler (implements org.griphyn.vdl.euryale.Callback)
  - edu.isi.pegasus.planner.namespace.Namespace
    - edu.isi.pegasus.planner.namespace.Condor
    - edu.isi.pegasus.planner.namespace.Dagman
    - edu.isi.pegasus.planner.namespace.ENV
    - edu.isi.pegasus.planner.namespace.Globus
    - edu.isi.pegasus.planner.namespace.Hints
    - edu.isi.pegasus.planner.namespace.Pegasus
    - edu.isi.pegasus.planner.namespace.Selector
    - edu.isi.pegasus.planner.namespace.Stat
  - edu.isi.pegasus.planner.namespace.Namespace.EmptyIterator (implements java.util.Iterator<E>)
  - edu.isi.pegasus.common.logging.format.NetloggerEvent (implements edu.isi.pegasus.common.logging.Event)
  - edu.isi.pegasus.planner.code.generator.NetloggerJobMapper
  - edu.isi.pegasus.planner.code.gridstart.NetloggerPostScript (implements edu.isi.pegasus.planner.code.POSTScript)
  - edu.isi.pegasus.planner.catalog.transformation.classes.NMI2VDSSysInfo
  - edu.isi.pegasus.planner.provisioner.Node
  - edu.isi.pegasus.planner.code.gridstart.NoGridStart (implements edu.isi.pegasus.planner.code.GridStart)
  - edu.isi.pegasus.planner.code.gridstart.NoPOSTScript (implements edu.isi.pegasus.planner.code.POSTScript)
  - edu.isi.pegasus.planner.provisioner.OccupationDiagram
  - edu.isi.pegasus.planner.provisioner.OccupationDiagram.NodeComp (implements java.util.Comparator<T>)
  - edu.isi.pegasus.planner.parser.tokens.OpenBrace (implements edu.isi.pegasus.planner.parser.tokens.Token)
  - edu.isi.pegasus.planner.parser.tokens.OpenParanthesis (implements edu.isi.pegasus.planner.parser.tokens.Token)
  - edu.isi.pegasus.planner.catalog.transformation.classes.Os (implements java.io.Serializable)
  - edu.isi.pegasus.planner.catalog.site.impl.OSGMM (implements edu.isi.pegasus.planner.catalog.SiteCatalog)
  - edu.isi.pegasus.planner.catalog.site.impl.OSGMM.ListCallback (implements edu.isi.pegasus.common.util.StreamGobblerCallback)
  - edu.isi.pegasus.planner.transfer.mapper.OutputMapperFactory
  - edu.isi.pegasus.planner.parser.ParserStackElement
  - edu.isi.pegasus.planner.partitioner.Partitioner
    - edu.isi.pegasus.planner.partitioner.BFS
      - edu.isi.pegasus.planner.partitioner.Horizontal
    - edu.isi.pegasus.planner.partitioner.Label
    - edu.isi.pegasus.planner.partitioner.One2One
    - edu.isi.pegasus.planner.partitioner.Whole
  - edu.isi.pegasus.planner.partitioner.PartitionerFactory
  - edu.isi.pegasus.planner.dax.Patterns
  - edu.isi.pegasus.planner.parser.pdax.PDAX2MDAG (implements edu.isi.pegasus.planner.parser.pdax.Callback)
  - edu.isi.pegasus.planner.parser.pdax.PDAX2MDAG.GrepCallback (implements edu.isi.pegasus.common.util.StreamGobblerCallback)
  - edu.isi.pegasus.planner.parser.pdax.PDAXCallbackFactory
  - edu.isi.pegasus.planner.partitioner.PDAXWriter
  - edu.isi.pegasus.planner.classes.PegasusBag (implements edu.isi.pegasus.planner.partitioner.graph.Bag)
  - edu.isi.pegasus.planner.common.PegasusConfiguration
  - edu.isi.pegasus.planner.code.gridstart.PegasusExitCode (implements edu.isi.pegasus.planner.code.POSTScript)
  - edu.isi.pegasus.planner.code.gridstart.PegasusExitCodeEncode
  - edu.isi.pegasus.gridftp.PegasusGridFTP
  - edu.isi.pegasus.planner.code.gridstart.PegasusLite (implements edu.isi.pegasus.planner.code.GridStart)
  - edu.isi.pegasus.planner.common.PegasusProperties (implements java.lang.Cloneable)
  - edu.isi.pegasus.common.util.PegasusURL
  - edu.isi.pegasus.planner.common.PegRandom
  - edu.isi.pegasus.planner.dax.PFN
  - edu.isi.pegasus.planner.dax.examples.Pipeline
  - edu.isi.pegasus.planner.catalog.site.impl.old.classes.PoolConfig
  - edu.isi.pegasus.planner.catalog.site.impl.old.PoolInfoProvider
    - edu.isi.pegasus.planner.catalog.site.impl.old.Abstract
      - edu.isi.pegasus.planner.catalog.site.impl.old.Text
      - edu.isi.pegasus.planner.catalog.site.impl.old.XML
  - edu.isi.pegasus.planner.catalog.site.impl.old.PoolMode
  - edu.isi.pegasus.planner.provenance.pasoa.pps.PPSFactory
  - edu.isi.pegasus.planner.selector.site.heft.Processor
  - edu.isi.pegasus.planner.dax.Profile
  - edu.isi.pegasus.common.util.ProfileParser
  - edu.isi.pegasus.planner.catalog.classes.Profiles
  - edu.isi.pegasus.planner.parser.tokens.QuotedString (implements edu.isi.pegasus.planner.parser.tokens.Token)
  - edu.isi.pegasus.planner.ranking.Rank
  - edu.isi.pegasus.planner.ranking.Ranking (implements java.lang.Comparable<T>)
  - edu.isi.pegasus.planner.refiner.ReduceEdges
  - edu.isi.pegasus.planner.transfer.refiner.RefinerFactory
  - edu.isi.pegasus.planner.catalog.replica.impl.Regex (implements edu.isi.pegasus.planner.catalog.ReplicaCatalog)
  - edu.isi.pegasus.planner.selector.replica.Regex.Rank (implements java.lang.Comparable<T>)
  - edu.isi.pegasus.planner.transfer.RemoteTransfer
  - edu.isi.pegasus.planner.transfer.RemoteTransfer.TransferState
  - edu.isi.pegasus.planner.transfer.mapper.impl.Replica (implements edu.isi.pegasus.planner.transfer.mapper.OutputMapper)
  - edu.isi.pegasus.planner.catalog.replica.ReplicaCatalogEntry (implements edu.isi.pegasus.planner.catalog.classes.CatalogEntry, java.lang.Cloneable)
  - edu.isi.pegasus.planner.catalog.replica.ReplicaFactory
  - edu.isi.pegasus.planner.selector.replica.ReplicaSelectorFactory
  - edu.isi.pegasus.planner.refiner.cleanup.RM (implements edu.isi.pegasus.planner.refiner.cleanup.CleanupImplementation)
  - edu.isi.pegasus.planner.selector.site.RoundRobin.NameValue
  - edu.isi.pegasus.planner.common.RunDirectoryFilenameFilter (implements java.io.FilenameFilter)
  - edu.isi.pegasus.planner.parser.pdax.RunDirectoryFilenameFilter (implements java.io.FilenameFilter)
  - edu.isi.pegasus.planner.code.generator.SendMetrics (implements java.util.concurrent.Callable<V>)
  - edu.isi.pegasus.planner.code.generator.SendMetricsResult
  - edu.isi.pegasus.common.util.Separator
  - edu.isi.pegasus.common.util.Separator2Test
  - edu.isi.pegasus.common.util.SeparatorTest
  - ShowProperties
  - edu.isi.pegasus.common.logging.format.SimpleEvent (implements edu.isi.pegasus.common.logging.Event)
  - edu.isi.pegasus.planner.catalog.replica.impl.SimpleFile (implements edu.isi.pegasus.planner.catalog.ReplicaCatalog)
  - edu.isi.pegasus.planner.partitioner.SingleLook.MyCallBackHandler (implements org.griphyn.vdl.euryale.Callback)
  - edu.isi.pegasus.planner.selector.site.heft.Site
  - edu.isi.pegasus.planner.parser.tokens.SiteCatalogReservedWord (implements edu.isi.pegasus.planner.parser.tokens.Token)
  - edu.isi.pegasus.planner.parser.SiteCatalogTextParser
  - edu.isi.pegasus.planner.parser.SiteCatalogTextScanner
  - edu.isi.pegasus.planner.parser.SiteCatalogXMLParserFactory
  - edu.isi.pegasus.planner.catalog.site.classes.SiteData (implements java.lang.Cloneable)
    - edu.isi.pegasus.planner.catalog.site.classes.AbstractSiteData
      - edu.isi.pegasus.planner.catalog.site.classes.Connection
      - edu.isi.pegasus.planner.catalog.site.classes.DirectoryLayout
        - edu.isi.pegasus.planner.catalog.site.classes.Directory
        - edu.isi.pegasus.planner.catalog.site.classes.LocalDirectory
        - edu.isi.pegasus.planner.catalog.site.classes.SharedDirectory
        - edu.isi.pegasus.planner.catalog.site.classes.WorkerSharedDirectory
      - edu.isi.pegasus.planner.catalog.site.classes.FileServerType
        - edu.isi.pegasus.planner.catalog.site.classes.FileServer
      - edu.isi.pegasus.planner.catalog.site.classes.FileSystemType
        - edu.isi.pegasus.planner.catalog.site.classes.InternalMountPoint
      - edu.isi.pegasus.planner.catalog.site.classes.GridGateway
      - edu.isi.pegasus.planner.catalog.site.classes.HeadNodeFS
      - edu.isi.pegasus.planner.catalog.site.classes.ReplicaCatalog
      - edu.isi.pegasus.planner.catalog.site.classes.SiteCatalogEntry
      - edu.isi.pegasus.planner.catalog.site.classes.SiteCatalogEntry3
      - edu.isi.pegasus.planner.catalog.site.classes.SiteStore
      - edu.isi.pegasus.planner.catalog.site.classes.StorageType
        - edu.isi.pegasus.planner.catalog.site.classes.HeadNodeScratch
        - edu.isi.pegasus.planner.catalog.site.classes.HeadNodeStorage
        - edu.isi.pegasus.planner.catalog.site.classes.WorkerNodeScratch
        - edu.isi.pegasus.planner.catalog.site.classes.WorkerNodeStorage
      - edu.isi.pegasus.planner.catalog.site.classes.WorkerNodeFS
  - edu.isi.pegasus.planner.catalog.site.SiteFactory
  - edu.isi.pegasus.planner.catalog.site.impl.old.SiteFactory
  - edu.isi.pegasus.planner.catalog.site.impl.old.classes.SiteInfo
  - edu.isi.pegasus.planner.catalog.site.classes.SiteInfo2SiteCatalogEntry
  - edu.isi.pegasus.planner.selector.site.SiteSelectorFactory
  - edu.isi.pegasus.planner.transfer.sls.SLSFactory
  - edu.isi.pegasus.planner.code.generator.Stampede (implements edu.isi.pegasus.planner.code.CodeGenerator)
  - edu.isi.pegasus.planner.code.generator.condor.SUBDAXGenerator
  - edu.isi.pegasus.planner.client.SubmitDirectoryFilenameFilter (implements java.io.FilenameFilter)
  - edu.isi.pegasus.planner.catalog.classes.SysInfo (implements java.lang.Cloneable)
  - edu.isi.pegasus.planner.catalog.transformation.client.TCFormatUtility
  - edu.isi.pegasus.planner.classes.TCMap
  - edu.isi.pegasus.planner.catalog.transformation.TCMode
  - edu.isi.pegasus.planner.catalog.transformation.client.TCQuery.LFNComparator (implements java.util.Comparator<T>)
  - edu.isi.pegasus.planner.parser.TestDAXParser
  - edu.isi.pegasus.common.logging.TestLogFormatter
  - edu.isi.pegasus.planner.namespace.TestNamespace
  - edu.isi.pegasus.planner.refiner.TestReduceEdges
  - edu.isi.pegasus.planner.catalog.replica.TestReplicaCatalog
  - edu.isi.pegasus.planner.catalog.site.TestSiteCatalog
  - edu.isi.pegasus.planner.catalog.site.impl.old.TestSiteCatalog
  - edu.isi.pegasus.planner.transfer.TestTPT
  - edu.isi.pegasus.planner.catalog.transformation.TestTransformationCatalog
  - edu.isi.pegasus.planner.catalog.site.TestVORSSiteCatalog
  - java.lang.Thread (implements java.lang.Runnable)
    - edu.isi.pegasus.planner.invocation.SimpleServerThread
    - edu.isi.pegasus.common.util.StreamGobbler
  - edu.isi.pegasus.planner.refiner.ThreadPool
  - edu.isi.pegasus.planner.refiner.ThreadPool.AuthenticateThread (implements java.lang.Runnable)
  - edu.isi.pegasus.planner.refiner.ThreadPool.ConditionVariable
  - java.lang.Throwable (implements java.io.Serializable)
    - java.lang.Exception
      - edu.isi.pegasus.planner.cluster.ClustererException
      - edu.isi.pegasus.planner.code.CodeGeneratorException
        - edu.isi.pegasus.planner.code.generator.condor.CondorStyleException
      - edu.isi.pegasus.planner.code.generator.condor.CondorQuoteParserException
      - edu.isi.pegasus.gridftp.GridFTPException
        - edu.isi.pegasus.gridftp.DirectoryNotEmptyException
        - edu.isi.pegasus.gridftp.DirectoryRemovalException
        - edu.isi.pegasus.gridftp.FileExistsException
        - edu.isi.pegasus.gridftp.NoSuchFileException
        - edu.isi.pegasus.gridftp.PermissionDeniedException
      - edu.isi.pegasus.common.util.ProfileParserException
      - java.lang.RuntimeException
        - edu.isi.pegasus.planner.catalog.CatalogException
          - edu.isi.pegasus.planner.catalog.replica.ReplicaCatalogException
          - edu.isi.pegasus.planner.catalog.site.SiteCatalogException
          - edu.isi.pegasus.planner.catalog.work.WorkCatalogException
        - edu.isi.pegasus.common.util.FactoryException
          - edu.isi.pegasus.planner.refiner.cleanup.CleanupFactoryException
          - edu.isi.pegasus.planner.cluster.ClustererFactoryException
          - edu.isi.pegasus.planner.code.CodeGeneratorFactoryException
          - edu.isi.pegasus.planner.code.generator.condor.CondorStyleFactoryException
          - edu.isi.pegasus.common.credential.CredentialHandlerFactoryException
          - edu.isi.pegasus.planner.parser.DAXParserFactoryException
          - edu.isi.pegasus.planner.code.GridStartFactoryException
          - edu.isi.pegasus.planner.cluster.aggregator.JobAggregatorFactoryException
          - edu.isi.pegasus.common.logging.LogFormatterFactoryException
          - edu.isi.pegasus.common.logging.LogManagerFactoryException
          - edu.isi.pegasus.planner.transfer.mapper.OutputMapperFactoryException
          - edu.isi.pegasus.planner.partitioner.PartitionerFactoryException
          - edu.isi.pegasus.planner.parser.pdax.PDAXCallbackFactoryException
          - edu.isi.pegasus.planner.provenance.pasoa.pps.PPSFactoryException
          - edu.isi.pegasus.planner.selector.replica.ReplicaSelectorFactoryException
          - edu.isi.pegasus.planner.parser.SiteCatalogXMLParserFactoryException
          - edu.isi.pegasus.planner.catalog.site.SiteFactoryException
          - edu.isi.pegasus.planner.catalog.site.impl.old.SiteFactoryException
          - edu.isi.pegasus.planner.selector.site.SiteSelectorFactoryException
          - edu.isi.pegasus.planner.transfer.sls.SLSFactoryException
          - edu.isi.pegasus.planner.transfer.implementation.TransferImplementationFactoryException
          - edu.isi.pegasus.planner.transfer.refiner.TransferRefinerFactoryException
          - edu.isi.pegasus.planner.catalog.transformation.TransformationFactoryException
          - edu.isi.pegasus.planner.catalog.work.WorkFactoryException
          - edu.isi.pegasus.planner.provenance.pasoa.producer.XMLProducerFactoryException
        - edu.isi.pegasus.planner.transfer.mapper.MapperException
        - edu.isi.pegasus.planner.parser.ScannerException
        - edu.isi.pegasus.planner.parser.SiteCatalogXMLMetadataParser.StopParserException
  - org.griphyn.vdl.toolkit.Toolkit
    - edu.isi.pegasus.planner.client.ExitCode
    - edu.isi.pegasus.planner.client.RCClient
    - edu.isi.pegasus.planner.invocation.SimpleServer
  - edu.isi.pegasus.planner.partitioner.Topological
  - edu.isi.pegasus.planner.partitioner.graph.TopologicalSortIterator (implements java.util.Iterator<E>)
  - edu.isi.pegasus.planner.transfer.TPT
  - edu.isi.pegasus.planner.transfer.TPT.TPTState
  - edu.isi.pegasus.planner.transfer.sls.Transfer (implements edu.isi.pegasus.planner.transfer.SLS)
  - edu.isi.pegasus.planner.dax.Transformation
  - edu.isi.pegasus.planner.catalog.transformation.TransformationCatalogEntry (implements edu.isi.pegasus.planner.catalog.classes.CatalogEntry)
  - edu.isi.pegasus.planner.parser.tokens.TransformationCatalogReservedWord (implements edu.isi.pegasus.planner.parser.tokens.Token)
  - edu.isi.pegasus.planner.parser.TransformationCatalogTextParser
  - edu.isi.pegasus.planner.parser.TransformationCatalogTextScanner
  - edu.isi.pegasus.planner.catalog.transformation.TransformationFactory
  - edu.isi.pegasus.planner.selector.TransformationSelector
    - edu.isi.pegasus.planner.selector.transformation.Installed
    - edu.isi.pegasus.planner.selector.transformation.Random
    - edu.isi.pegasus.planner.selector.transformation.RoundRobin
    - edu.isi.pegasus.planner.selector.transformation.Staged
    - edu.isi.pegasus.planner.selector.transformation.Submit
  - edu.isi.pegasus.planner.catalog.transformation.classes.TransformationStore
  - edu.isi.pegasus.planner.common.UserOptions
  - edu.isi.pegasus.planner.code.gridstart.UserPOSTScript (implements edu.isi.pegasus.planner.code.POSTScript)
  - edu.isi.pegasus.planner.catalog.transformation.classes.VDSSysInfo
  - edu.isi.pegasus.planner.catalog.classes.VDSSysInfo2NMI
  - edu.isi.pegasus.common.util.Version
  - edu.isi.pegasus.planner.client.VersionNumber
  - edu.isi.pegasus.planner.catalog.site.impl.old.classes.WorkDir
  - edu.isi.pegasus.planner.catalog.work.WorkFactory
  - edu.isi.pegasus.planner.partitioner.WriterCallback (implements edu.isi.pegasus.planner.partitioner.Callback)
  - edu.isi.pegasus.planner.catalog.site.impl.XML (implements edu.isi.pegasus.planner.catalog.SiteCatalog)
  - edu.isi.pegasus.planner.parser.XMLErrorHandler (implements org.xml.sax.ErrorHandler)
  - edu.isi.pegasus.common.util.XMLOutput
  - edu.isi.pegasus.planner.provenance.pasoa.producer.XMLProducerFactory
  - edu.isi.pegasus.common.util.XMLWriter

## Interface Hierarchy

- edu.isi.pegasus.planner.namespace.aggregator.Aggregator
- edu.isi.pegasus.planner.partitioner.graph.Bag
- edu.isi.pegasus.planner.parser.dax.Callback
- edu.isi.pegasus.planner.parser.pdax.Callback
- edu.isi.pegasus.planner.partitioner.Callback
- edu.isi.pegasus.planner.catalog.Catalog
  - edu.isi.pegasus.planner.catalog.ReplicaCatalog
  - edu.isi.pegasus.planner.catalog.SiteCatalog
  - edu.isi.pegasus.planner.catalog.TransformationCatalog
  - edu.isi.pegasus.planner.catalog.WorkCatalog
- edu.isi.pegasus.planner.catalog.classes.CatalogEntry
- edu.isi.pegasus.planner.refiner.cleanup.CleanupImplementation
- edu.isi.pegasus.planner.refiner.cleanup.CleanupStrategy
- java.lang.Cloneable
  - edu.isi.pegasus.common.logging.Event
- edu.isi.pegasus.planner.cluster.Clusterer
- edu.isi.pegasus.planner.code.CodeGenerator
- edu.isi.pegasus.planner.code.generator.condor.CondorStyle
- edu.isi.pegasus.common.credential.CredentialHandler
- edu.isi.pegasus.planner.parser.dax.DAXParser
- edu.isi.pegasus.planner.partitioner.graph.GraphNodeContent
  - edu.isi.pegasus.planner.partitioner.graph.Graph
- edu.isi.pegasus.planner.code.GridStart
- edu.isi.pegasus.planner.invocation.HasDescriptor
- edu.isi.pegasus.planner.invocation.HasFilename
- edu.isi.pegasus.planner.invocation.HasText
- edu.isi.pegasus.planner.refiner.createdir.Implementation
- edu.isi.pegasus.planner.transfer.Implementation
- edu.isi.pegasus.planner.cluster.JobAggregator
- edu.isi.pegasus.common.logging.LogFormatter
- edu.isi.ikcap.workflows.util.logging.LoggingKeys
- edu.isi.pegasus.planner.transfer.mapper.Mapper
- edu.isi.pegasus.planner.transfer.MultipleFTPerXFERJob
- edu.isi.pegasus.planner.transfer.mapper.OutputMapper
- edu.isi.pegasus.planner.code.POSTScript
- edu.isi.pegasus.planner.provenance.pasoa.PPS
- edu.isi.pegasus.planner.refiner.Refiner
  - edu.isi.pegasus.planner.transfer.Refiner
- edu.isi.pegasus.planner.selector.ReplicaSelector
- edu.isi.pegasus.planner.transfer.SingleFTPerXFERJob
- edu.isi.pegasus.planner.parser.SiteCatalogXMLParser
- edu.isi.pegasus.planner.catalog.site.classes.SiteDataVisitor
- edu.isi.pegasus.planner.selector.SiteSelector
- edu.isi.pegasus.planner.transfer.SLS
- edu.isi.pegasus.planner.refiner.createdir.Strategy
- edu.isi.pegasus.common.util.StreamGobblerCallback
- edu.isi.pegasus.planner.parser.tokens.Token
- edu.isi.pegasus.planner.provenance.pasoa.XMLProducer

## Enum Hierarchy

- java.lang.Object
  - java.lang.Enum<E> (implements java.lang.Comparable<T>, java.io.Serializable)
    - edu.isi.pegasus.common.credential.CredentialHandler.TYPE
    - edu.isi.pegasus.planner.catalog.site.classes.Directory.TYPE
    - edu.isi.pegasus.planner.dax.Executable.ARCH
    - edu.isi.pegasus.planner.dax.Executable.OS
    - edu.isi.pegasus.planner.dax.File.LINK
    - edu.isi.pegasus.planner.dax.File.TRANSFER
    - edu.isi.pegasus.planner.catalog.site.classes.FileServerType.OPERATION
    - edu.isi.pegasus.planner.catalog.site.classes.GridGateway.JOB_TYPE
    - edu.isi.pegasus.planner.catalog.site.classes.GridGateway.SCHEDULER_TYPE
    - edu.isi.pegasus.planner.catalog.site.classes.GridGateway.TYPE
    - edu.isi.pegasus.planner.dax.Invoke.WHEN
    - edu.isi.pegasus.planner.classes.PegasusFile.LINKAGE
    - edu.isi.pegasus.planner.common.PegasusProperties.CLEANUP_SCOPE
    - edu.isi.pegasus.planner.classes.PlannerOptions.CLEANUP_OPTIONS
    - edu.isi.pegasus.planner.dax.Profile.NAMESPACE
    - edu.isi.pegasus.planner.catalog.classes.Profiles.NAMESPACES
    - edu.isi.pegasus.planner.catalog.classes.SysInfo.Architecture
    - edu.isi.pegasus.planner.catalog.classes.SysInfo.OS
    - edu.isi.pegasus.planner.catalog.transformation.classes.TCType
    - edu.isi.pegasus.planner.catalog.site.classes.XML3PrintVisitor.DirectoryTypes