WorkflowRun (SeqWare 1.1.2 API)

java.lang.Object
- net.sourceforge.seqware.common.security.PermissionsAware
- - net.sourceforge.seqware.common.model.WorkflowRun

All Implemented Interfaces:

Serializable, Comparable<WorkflowRun>, Annotatable<WorkflowRunAttribute>, FirstTierModel
```
public class WorkflowRun
extends PermissionsAware
implements Serializable, Comparable<WorkflowRun>, Annotatable<WorkflowRunAttribute>, FirstTierModel
```
WorkflowRun class.

Version:

$Id: $Id

Author:

boconnor

See Also:
Serialized Form

Field Summary

Fields
Modifier and Type Field and Description

static Set<String> USABLE_CONSTRAINTS
Lists the properties that can be used to easily filter this entity

Fields
Modifier and Type	Field and Description
`static Set<String>`	`USABLE_CONSTRAINTS` Lists the properties that can be used to easily filter this entity

Constructor Summary

Constructors
Constructor and Description

WorkflowRun()
Constructor for WorkflowRun.

Constructors
Constructor and Description
`WorkflowRun()` Constructor for WorkflowRun.

Method Summary

Methods
Modifier and Type	Method and Description
`static WorkflowRun`	`cloneToHibernate(WorkflowRun newWR)` cloneToHibernate.
`int`	`compareTo(Workflow that)` compareTo.
`int`	`compareTo(WorkflowRun that)`
`boolean`	`equals(Object other)`
`Set<WorkflowRunAttribute>`	`getAnnotations()` Get the annotations for this model
`String`	`getCommand()` Getter for the field `command`.
`Date`	`getCreateTimestamp()` Getter for the field `createTimestamp`.
`String`	`getCurrentWorkingDir()` Getter for the field `currentWorkingDir`.
`String`	`getDax()` Getter for the field `dax`.
`String`	`getHost()` Getter for the field `host`.
`String`	`getHtml()` Getter for the field `html`.
`String`	`getIniFile()` Getter for the field `iniFile`.
`Set<Integer>`	`getInputFileAccessions()`
`Boolean`	`getIsHasFile()` Getter for the field `isHasFile`.
`Boolean`	`getIsSelected()` Getter for the field `isSelected`.
`SortedSet<IUS>`	`getIus()` Getter for the field `ius`.
`String`	`getJsonEscapeName()` getJsonEscapeName.
`SortedSet<Lane>`	`getLanes()` Getter for the field `lanes`.
`String`	`getName()` Getter for the field `name`.
`SortedSet<Processing>`	`getOffspringProcessings()` Getter for the field `offspringProcessings`.
`Registration`	`getOwner()` Getter for the field `owner`.
`String`	`getOwnerUserName()`
`SortedSet<Processing>`	`getProcessings()` Getter for the field `processings`.
`SortedSet<Sample>`	`getSamples()` Getter for the field `samples`.
`String`	`getSeqwareRevision()` Getter for the field `seqwareRevision`.
`SortedSet<ShareWorkflowRun>`	`getSharedWorkflowRuns()` Getter for the field `sharedWorkflowRuns`.
`WorkflowRunStatus`	`getStatus()` Getter for the field `status`.
`String`	`getStatusCmd()` Getter for the field `statusCmd`.
`String`	`getStdErr()` Getter for the field `stdErr`.
`String`	`getStdOut()` Getter for the field `stdOut`.
`Integer`	`getSwAccession()` Getter for the field `swAccession`.
`String`	`getTemplate()` Getter for the field `template`.
`Date`	`getUpdateTimestamp()` Getter for the field `updateTimestamp`.
`String`	`getUserName()` Getter for the field `userName`.
`Workflow`	`getWorkflow()` Getter for the field `workflow`.
`Integer`	`getWorkflowAccession()`
`String`	`getWorkflowEngine()`
`Set<WorkflowRunAttribute>`	`getWorkflowRunAttributes()` Getter for the field `workflowRunAttributes`.
`Integer`	`getWorkflowRunId()` Getter for the field `workflowRunId`.
`SortedSet<WorkflowRunParam>`	`getWorkflowRunParams()` Getter for the field `workflowRunParams`.
`boolean`	`givesPermissionInternal(Registration registration, Set<Integer> considered)` Short-circuit permission checking by providing a set of entities that have already been checked
`int`	`hashCode()`
`void`	`setCommand(String command)` Setter for the field `command`.
`void`	`setCreateTimestamp(Date createTimestamp)` Setter for the field `createTimestamp`.
`void`	`setCurrentWorkingDir(String currentWorkingDir)` Setter for the field `currentWorkingDir`.
`void`	`setDax(String dax)` Setter for the field `dax`.
`void`	`setHost(String host)` Setter for the field `host`.
`void`	`setHtml(String html)` Setter for the field `html`.
`void`	`setIniFile(String iniFile)` Setter for the field `iniFile`.
`void`	`setInputFileAccessions(Set<Integer> inputFiles)`
`void`	`setIsHasFile(Boolean isHasFile)` Setter for the field `isHasFile`.
`void`	`setIsSelected(Boolean isSelected)` Setter for the field `isSelected`.
`void`	`setIus(SortedSet<IUS> ius)` Setter for the field `ius`.
`void`	`setLanes(SortedSet<Lane> lanes)` Setter for the field `lanes`.
`void`	`setName(String name)` Setter for the field `name`.
`void`	`setOffspringProcessings(SortedSet<Processing> offspringProcessings)` Setter for the field `offspringProcessings`.
`void`	`setOwner(Registration owner)` Setter for the field `owner`.
`void`	`setOwnerUserName(String ownerUserName)`
`void`	`setProcessings(SortedSet<Processing> processings)` Setter for the field `processings`.
`void`	`setSamples(SortedSet<Sample> samples)` Setter for the field `samples`.
`void`	`setSeqwareRevision(String seqwareRevision)` Setter for the field `seqwareRevision`.
`void`	`setSharedWorkflowRuns(SortedSet<ShareWorkflowRun> sharedWorkflowRuns)` Setter for the field `sharedWorkflowRuns`.
`void`	`setStatus(WorkflowRunStatus status)` Setter for the field `status`.
`void`	`setStatusCmd(String statusCmd)` Setter for the field `statusCmd`.
`void`	`setStdErr(String stdErr)` Setter for the field `stdErr`.
`void`	`setStdOut(String stdOut)` Setter for the field `stdOut`.
`void`	`setSwAccession(Integer swAccession)` Setter for the field `swAccession`.
`void`	`setTemplate(String template)` Setter for the field `template`.
`void`	`setUpdateTimestamp(Date updateTimestamp)` Setter for the field `updateTimestamp`.
`void`	`setUserName(String username)` Setter for the field `userName`.
`void`	`setWorkflow(Workflow workflow)` Setter for the field `workflow`.
`void`	`setWorkflowAccession(Integer workflowAccession)`
`void`	`setWorkflowEngine(String workflowEngine)`
`void`	`setWorkflowRunAttributes(Set<WorkflowRunAttribute> workflowRunAttributes)` Setter for the field `workflowRunAttributes`.
`void`	`setWorkflowRunId(Integer workflowRunId)` Setter for the field `workflowRunId`.
`void`	`setWorkflowRunParams(SortedSet<WorkflowRunParam> workflowRunParams)` Setter for the field `workflowRunParams`.
`String`	`toString()`

Methods inherited from class net.sourceforge.seqware.common.security.PermissionsAware
givesPermission, givesPermission

Methods inherited from class java.lang.Object
clone, finalize, getClass, notify, notifyAll, wait, wait, wait

- Field Detail
  - USABLE_CONSTRAINTS
```
public static final Set<String> USABLE_CONSTRAINTS
```
    Lists the properties that can be used to easily filter this entity
- Constructor Detail
  - WorkflowRun
```
public WorkflowRun()
```
    Constructor for WorkflowRun.
- Method Detail
  - compareTo
```
public int compareTo(Workflow that)
```
    compareTo.
    
    Parameters:
    that - a Workflow object.
    
    Returns:
    a int.
  - toString
```
public String toString()
```
    Overrides:
    
    toString in class Object
  - equals
```
public boolean equals(Object other)
```
    Overrides:
    
    equals in class Object
    
    Parameters:
    other -
  - hashCode
```
public int hashCode()
```
    Overrides:
    
    hashCode in class Object
  - getTemplate
```
public String getTemplate()
```
    Getter for the field template.
    
    Returns:
    a String object.
  - setTemplate
```
public void setTemplate(String template)
```
    Setter for the field template.
    
    Parameters:
    template - a String object.
  - getCommand
```
public String getCommand()
```
    Getter for the field command.
    
    Returns:
    a String object.
  - setCommand
```
public void setCommand(String command)
```
    Setter for the field command.
    
    Parameters:
    command - a String object.
  - getWorkflowRunId
```
public Integer getWorkflowRunId()
```
    Getter for the field workflowRunId.
    
    Returns:
    a Integer object.
  - setWorkflowRunId
```
public void setWorkflowRunId(Integer workflowRunId)
```
    Setter for the field workflowRunId.
    
    Parameters:
    workflowRunId - a Integer object.
  - getWorkflow
```
public Workflow getWorkflow()
```
    Getter for the field workflow.
    
    Returns:
    a Workflow object.
  - setWorkflow
```
public void setWorkflow(Workflow workflow)
```
    Setter for the field workflow.
    
    Parameters:
    workflow - a Workflow object.
  - getSwAccession
```
public Integer getSwAccession()
```
    Getter for the field swAccession.
    
    Specified by:
    
    getSwAccession in interface FirstTierModel
    
    Returns:
    a Integer object.
  - setSwAccession
```
public void setSwAccession(Integer swAccession)
```
    Setter for the field swAccession.
    
    Parameters:
    swAccession - a Integer object.
  - getName
```
public String getName()
```
    Getter for the field name.
    
    Returns:
    a String object.
  - getJsonEscapeName
```
public String getJsonEscapeName()
```
    getJsonEscapeName.
    
    Returns:
    a String object.
  - setName
```
public void setName(String name)
```
    Setter for the field name.
    
    Parameters:
    name - a String object.
  - getCreateTimestamp
```
public Date getCreateTimestamp()
```
    Getter for the field createTimestamp.
    
    Returns:
    a Date object.
  - setCreateTimestamp
```
public void setCreateTimestamp(Date createTimestamp)
```
    Setter for the field createTimestamp.
    
    Parameters:
    createTimestamp - a Date object.
  - getUpdateTimestamp
```
public Date getUpdateTimestamp()
```
    Getter for the field updateTimestamp.
    
    Returns:
    a Date object.
  - setUpdateTimestamp
```
public void setUpdateTimestamp(Date updateTimestamp)
```
    Setter for the field updateTimestamp.
    
    Parameters:
    updateTimestamp - a Date object.
  - getOwner
```
public Registration getOwner()
```
    Getter for the field owner.
    
    Returns:
    a Registration object.
  - setOwner
```
public void setOwner(Registration owner)
```
    Setter for the field owner.
    
    Parameters:
    owner - a Registration object.
  - getProcessings
```
public SortedSet<Processing> getProcessings()
```
    Getter for the field processings.
    
    Returns:
    a SortedSet object.
  - setProcessings
```
public void setProcessings(SortedSet<Processing> processings)
```
    Setter for the field processings.
    
    Parameters:
    processings - a SortedSet object.
  - getOffspringProcessings
```
public SortedSet<Processing> getOffspringProcessings()
```
    Getter for the field offspringProcessings.
    
    Returns:
    a SortedSet object.
  - setOffspringProcessings
```
public void setOffspringProcessings(SortedSet<Processing> offspringProcessings)
```
    Setter for the field offspringProcessings.
    
    Parameters:
    offspringProcessings - a SortedSet object.
  - getSamples
```
public SortedSet<Sample> getSamples()
```
    Getter for the field samples.
    
    Returns:
    a SortedSet object.
  - setSamples
```
public void setSamples(SortedSet<Sample> samples)
```
    Setter for the field samples.
    
    Parameters:
    samples - a SortedSet object.
  - getSharedWorkflowRuns
```
public SortedSet<ShareWorkflowRun> getSharedWorkflowRuns()
```
    Getter for the field sharedWorkflowRuns.
    
    Returns:
    a SortedSet object.
  - setSharedWorkflowRuns
```
public void setSharedWorkflowRuns(SortedSet<ShareWorkflowRun> sharedWorkflowRuns)
```
    Setter for the field sharedWorkflowRuns.
    
    Parameters:
    sharedWorkflowRuns - a SortedSet object.
  - getIsSelected
```
public Boolean getIsSelected()
```
    Getter for the field isSelected.
    
    Returns:
    a Boolean object.
  - setIsSelected
```
public void setIsSelected(Boolean isSelected)
```
    Setter for the field isSelected.
    
    Parameters:
    isSelected - a Boolean object.
  - getHtml
```
public String getHtml()
```
    Getter for the field html.
    
    Returns:
    a String object.
  - setHtml
```
public void setHtml(String html)
```
    Setter for the field html.
    
    Parameters:
    html - a String object.
  - getIsHasFile
```
public Boolean getIsHasFile()
```
    Getter for the field isHasFile.
    
    Returns:
    a Boolean object.
  - setIsHasFile
```
public void setIsHasFile(Boolean isHasFile)
```
    Setter for the field isHasFile.
    
    Parameters:
    isHasFile - a Boolean object.
  - getStatus
```
public WorkflowRunStatus getStatus()
```
    Getter for the field status.
    
    Returns:
    the status of the workflow run
  - setStatus
```
public void setStatus(WorkflowRunStatus status)
```
    Setter for the field status.
    
    Parameters:
    status - the status of the workflow run
  - getStatusCmd
```
public String getStatusCmd()
```
    Getter for the field statusCmd.
    
    Returns:
    a String object.
  - setStatusCmd
```
public void setStatusCmd(String statusCmd)
```
    Setter for the field statusCmd.
    
    Parameters:
    statusCmd - a String object.
  - getSeqwareRevision
```
public String getSeqwareRevision()
```
    Getter for the field seqwareRevision.
    
    Returns:
    a String object.
  - setSeqwareRevision
```
public void setSeqwareRevision(String seqwareRevision)
```
    Setter for the field seqwareRevision.
    
    Parameters:
    seqwareRevision - a String object.
  - getHost
```
public String getHost()
```
    Getter for the field host.
    
    Returns:
    a String object.
  - setHost
```
public void setHost(String host)
```
    Setter for the field host.
    
    Parameters:
    host - a String object.
  - getCurrentWorkingDir
```
public String getCurrentWorkingDir()
```
    Getter for the field currentWorkingDir.
    
    Returns:
    a String object.
  - setCurrentWorkingDir
```
public void setCurrentWorkingDir(String currentWorkingDir)
```
    Setter for the field currentWorkingDir.
    
    Parameters:
    currentWorkingDir - a String object.
  - getUserName
```
public String getUserName()
```
    Getter for the field userName.
    
    Returns:
    a String object.
  - setUserName
```
public void setUserName(String username)
```
    Setter for the field userName.
    
    Parameters:
    username - a String object.
  - getWorkflowRunParams
```
public SortedSet<WorkflowRunParam> getWorkflowRunParams()
```
    Getter for the field workflowRunParams.
    
    Returns:
    a SortedSet object.
  - setWorkflowRunParams
```
public void setWorkflowRunParams(SortedSet<WorkflowRunParam> workflowRunParams)
```
    Setter for the field workflowRunParams.
    
    Parameters:
    workflowRunParams - a SortedSet object.
  - getIus
```
public SortedSet<IUS> getIus()
```
    Getter for the field ius.
    
    Returns:
    a SortedSet object.
  - setIus
```
public void setIus(SortedSet<IUS> ius)
```
    Setter for the field ius.
    
    Parameters:
    ius - a SortedSet object.
  - getDax
```
public String getDax()
```
    Getter for the field dax.
    
    Returns:
    a String object.
  - setDax
```
public void setDax(String dax)
```
    Setter for the field dax.
    
    Parameters:
    dax - a String object.
  - getIniFile
```
public String getIniFile()
```
    Getter for the field iniFile.
    
    Returns:
    a String object.
  - setIniFile
```
public void setIniFile(String iniFile)
```
    Setter for the field iniFile.
    
    Parameters:
    iniFile - a String object.
  - getLanes
```
public SortedSet<Lane> getLanes()
```
    Getter for the field lanes.
    
    Returns:
    a SortedSet object.
  - setLanes
```
public void setLanes(SortedSet<Lane> lanes)
```
    Setter for the field lanes.
    
    Parameters:
    lanes - a SortedSet object.
  - getStdErr
```
public String getStdErr()
```
    Getter for the field stdErr.
    
    Returns:
    a String object.
  - setStdErr
```
public void setStdErr(String stdErr)
```
    Setter for the field stdErr.
    
    Parameters:
    stdErr - a String object.
  - getStdOut
```
public String getStdOut()
```
    Getter for the field stdOut.
    
    Returns:
    a String object.
  - setStdOut
```
public void setStdOut(String stdOut)
```
    Setter for the field stdOut.
    
    Parameters:
    stdOut - a String object.
  - cloneToHibernate
```
public static WorkflowRun cloneToHibernate(WorkflowRun newWR)
```
    cloneToHibernate.
    
    Parameters:
    newWR - a WorkflowRun object.
    
    Returns:
    a WorkflowRun object.
  - compareTo
```
public int compareTo(WorkflowRun that)
```
    Specified by:
    
    compareTo in interface Comparable<WorkflowRun>
    
    Parameters:
    that -
  - givesPermissionInternal
```
public boolean givesPermissionInternal(Registration registration,
                              Set<Integer> considered)
```
    Short-circuit permission checking by providing a set of entities that have already been checked
    
    Specified by:
    
    givesPermissionInternal in class PermissionsAware
    
    Returns:
  - getWorkflowRunAttributes
```
public Set<WorkflowRunAttribute> getWorkflowRunAttributes()
```
    Getter for the field workflowRunAttributes.
    
    Returns:
    a Set object.
  - setWorkflowRunAttributes
```
public void setWorkflowRunAttributes(Set<WorkflowRunAttribute> workflowRunAttributes)
```
    Setter for the field workflowRunAttributes.
    
    Parameters:
    workflowRunAttributes - a Set object.
  - getWorkflowEngine
```
public String getWorkflowEngine()
```
  - setWorkflowEngine
```
public void setWorkflowEngine(String workflowEngine)
```
  - getWorkflowAccession
```
public Integer getWorkflowAccession()
```
  - setWorkflowAccession
```
public void setWorkflowAccession(Integer workflowAccession)
```
  - getOwnerUserName
```
public String getOwnerUserName()
```
  - setOwnerUserName
```
public void setOwnerUserName(String ownerUserName)
```
  - getInputFileAccessions
```
public Set<Integer> getInputFileAccessions()
```
    Returns:
    the parentAccessions
  - setInputFileAccessions
```
public void setInputFileAccessions(Set<Integer> inputFiles)
```
    Parameters:
    inputFiles -
  - getAnnotations
```
public Set<WorkflowRunAttribute> getAnnotations()
```
    Description copied from interface: Annotatable
    
    Get the annotations for this model
    
    Specified by:
    
    getAnnotations in interface Annotatable<WorkflowRunAttribute>
    
    Returns:

Class WorkflowRun

Field Summary

Constructor Summary

Method Summary

Methods inherited from class net.sourceforge.seqware.common.security.PermissionsAware

Methods inherited from class java.lang.Object

Field Detail

USABLE_CONSTRAINTS

Constructor Detail

WorkflowRun

Method Detail

compareTo

toString

equals

hashCode

getTemplate

setTemplate

getCommand

setCommand

getWorkflowRunId

setWorkflowRunId

getWorkflow

setWorkflow

getSwAccession

setSwAccession

getName

getJsonEscapeName

setName

getCreateTimestamp

setCreateTimestamp

getUpdateTimestamp

setUpdateTimestamp

getOwner

setOwner

getProcessings

setProcessings

getOffspringProcessings

setOffspringProcessings

getSamples

setSamples

getSharedWorkflowRuns

setSharedWorkflowRuns

getIsSelected

setIsSelected

getHtml

setHtml

getIsHasFile

setIsHasFile

getStatus

setStatus

getStatusCmd

setStatusCmd

getSeqwareRevision

setSeqwareRevision

getHost

setHost

getCurrentWorkingDir

setCurrentWorkingDir

getUserName

setUserName

getWorkflowRunParams

setWorkflowRunParams

getIus

setIus

getDax

setDax

getIniFile

setIniFile

getLanes

setLanes

getStdErr

setStdErr

getStdOut

setStdOut

cloneToHibernate

compareTo

givesPermissionInternal

getWorkflowRunAttributes

setWorkflowRunAttributes

getWorkflowEngine