Package ca.corefacility.bioinformatics.irida.model.workflow.analysis

Class AnalysisOutputFile

java.lang.Object

ca.corefacility.bioinformatics.irida.model.IridaRepresentationModel

ca.corefacility.bioinformatics.irida.model.workflow.analysis.AnalysisOutputFile

All Implemented Interfaces:

IridaThing, Timestamped<java.lang.Long>, VersionedFileFields<java.lang.Long>

@Entity
public class AnalysisOutputFile
extends IridaRepresentationModel
implements IridaThing, VersionedFileFields<java.lang.Long>

Store file references to files produced by a workflow execution that we otherwise don't want to parse metadata from.

Constructor Summary

Constructors

Constructor	Description
AnalysisOutputFile(java.nio.file.Path file, java.lang.String labelPrefix, java.lang.String executionManagerFileId, ToolExecution createdByTool)	Create a new instance of AnalysisOutputFile.

Method Summary

Modifier and Type	Method	Description
boolean	equals(java.lang.Object o)
byte[]	getBytesForFile()	Read the bytes for an image output file
ToolExecution	getCreatedByTool()
java.util.Date	getCreatedDate()	Get the created date of the object
java.lang.String	getExecutionManagerFileId()
java.nio.file.Path	getFile()
java.lang.Long	getFileRevisionNumber()	This intentionally always returns 0.
java.lang.Long	getId()	Get the numerical identifier for this object
java.lang.String	getLabel()	Get a human readable label for this object.
int	hashCode()
void	incrementFileRevisionNumber()	This intentionally does nothing.

Methods inherited from class ca.corefacility.bioinformatics.irida.model.IridaRepresentationModel

add, add, getLink, getLinks, getRemoteStatus, getSelfHref, hasLink, hasLinks, removeLinks, setRemoteStatus, toString

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface ca.corefacility.bioinformatics.irida.model.IridaThing

getIdentifier, setLabel

Constructor Detail

AnalysisOutputFile

public AnalysisOutputFile(java.nio.file.Path file,
                          java.lang.String labelPrefix,
                          java.lang.String executionManagerFileId,
                          ToolExecution createdByTool)

Create a new instance of AnalysisOutputFile.

Parameters:

file - the file that this resource owns.

labelPrefix - the label prefix to use for this file.

executionManagerFileId - the identifier for this file in the execution manager that it was created by.

createdByTool - the tools that were used to create the file.

Method Detail

getCreatedDate

public java.util.Date getCreatedDate()

Description copied from interface: Timestamped

Get the created date of the object

Specified by:

getCreatedDate in interface Timestamped<java.lang.Long>

Returns:

A Date object of the created date

getFileRevisionNumber

public java.lang.Long getFileRevisionNumber()

This intentionally always returns 0. We're abusing VersionedFileFields so that we can get support from FilesystemSupplementedRepository, even though AnalysisOutputFile is immutable and cannot be versioned.

Specified by:

getFileRevisionNumber in interface VersionedFileFields<java.lang.Long>

Returns:

*always* 0L for AnalysisOutputFile.

incrementFileRevisionNumber

public void incrementFileRevisionNumber()

This intentionally does nothing. We're abusing VersionedFileFields so that we can get support from FilesystemSupplementedRepository, even though AnalysisOutputFile is immutable and cannot be versioned.

Specified by:

incrementFileRevisionNumber in interface VersionedFileFields<java.lang.Long>

getLabel

public java.lang.String getLabel()

Description copied from interface: IridaThing

Get a human readable label for this object.

Specified by:

getLabel in interface IridaThing

Returns:

a human-readable label for the object.

getId

public java.lang.Long getId()

Description copied from interface: IridaThing

Get the numerical identifier for this object

Specified by:

getId in interface IridaThing

Specified by:

getId in interface Timestamped<java.lang.Long>

Returns:

the numerical identifier for the object

getFile

public java.nio.file.Path getFile()

getExecutionManagerFileId

public java.lang.String getExecutionManagerFileId()

getCreatedByTool

public ToolExecution getCreatedByTool()

hashCode

public int hashCode()

Overrides:

hashCode in class IridaRepresentationModel

equals

public boolean equals(java.lang.Object o)

Overrides:

equals in class IridaRepresentationModel

getBytesForFile

public byte[] getBytesForFile()

Read the bytes for an image output file

Returns:

the bytes for the file