adams.flow.transformer
Class ImageJReader

java.lang.Object
  adams.core.ConsoleObject
      adams.core.option.AbstractOptionHandler
          adams.flow.core.AbstractActor
              adams.flow.transformer.AbstractTransformer
                  adams.flow.transformer.ImageJReader

All Implemented Interfaces:

AdditionalInformationHandler, CleanUpHandler, Debuggable, DebugOutputHandler, Destroyable, OptionHandler, QuickInfoSupporter, ShallowCopySupporter<AbstractActor>, SizeOfHandler, Stoppable, VariableChangeListener, ErrorHandler, InputConsumer, OutputProducer, ProvenanceSupporter, Serializable, Comparable

public class ImageJReader
extends AbstractTransformer
implements ProvenanceSupporter

Reads any file format that ImageJ can read.

Input/output:
- accepts:
java.lang.String
java.io.File
- generates:
adams.flow.container.ImagePlusContainer

Valid options are:

-D <int> (property: debugLevel)
    The greater the number the more additional info the scheme may output to
    the console (0 = off).
    default: 0
    minimum: 0
 

-name <java.lang.String> (property: name)
    The name of the actor.
    default: ImageJReader
 

-annotation <adams.core.base.BaseText> (property: annotations)
    The annotations to attach to this actor.
    default:
 

-skip (property: skip)
    If set to true, transformation is skipped and the input token is just forwarded
    as it is.
 

Version:

$Revision: 4753 $

Author:

fracpete (fracpete at waikato dot ac dot nz)

See Also:

Serialized Form

Field Summary

Fields inherited from class adams.flow.transformer.AbstractTransformer

BACKUP_INPUT, BACKUP_OUTPUT, m_InputToken, m_OutputToken

Fields inherited from class adams.flow.core.AbstractActor

FILE_EXTENSION, FILE_EXTENSION_GZ, m_Annotations, m_BackupState, m_DetectedObjectVariables, m_DetectedVariables, m_ErrorHandler, m_Executed, m_FullName, m_Headless, m_Name, m_Parent, m_Root, m_Self, m_Skip, m_StopFlowOnError, m_StopMessage, m_Stopped, m_StorageHandler, m_VariablesUpdated

Fields inherited from class adams.core.option.AbstractOptionHandler

m_DebugLevel, m_OptionManager

Constructor Summary

ImageJReader()

Method Summary

Class[]	accepts() Returns the class that the consumer accepts.
protected String	doExecute() Executes the flow item.
Class[]	generates() Returns the class of objects that it generates.
String	globalInfo() Returns a string describing the object.
void	updateProvenance(ProvenanceContainer cont) Updates the provenance information in the provided container.

Methods inherited from class adams.flow.transformer.AbstractTransformer

backupState, execute, hasPendingOutput, input, output, postExecute, reset, restoreState, wrapUp

Methods inherited from class adams.flow.core.AbstractActor

annotationsTipText, canInspectOptions, canPerformSetUpCheck, cleanUp, compareTo, debug, defineOptions, destroy, equals, findVariables, findVariables, findVariables, forceVariables, forCommandLine, forName, getAdditionalInformation, getAnnotations, getDefaultName, getDetectedVariables, getErrorHandler, getFlowActors, getFullName, getName, getNextSibling, getParent, getPreviousSibling, getQuickInfo, getRoot, getSkip, getStopFlowOnError, getStopMessage, getStorageHandler, getVariables, handleError, hasErrorHandler, hasStopMessage, index, initialize, isBackedUp, isExecuted, isFinished, isHeadless, isStopped, nameTipText, performSetUpChecks, preExecute, pruneBackup, pruneBackup, setAnnotations, setErrorHandler, setHeadless, setName, setParent, setSkip, setStopFlowOnError, setUp, setVariables, shallowCopy, shallowCopy, sizeOf, skipTipText, stopExecution, stopExecution, stopFlowOnErrorTipText, updateDetectedVariables, updatePrefix, updateVariables, variableChanged

Methods inherited from class adams.core.option.AbstractOptionHandler

cleanUpOptions, debug, debugLevelTipText, finishInit, getDebugLevel, getOptionManager, isDebugOn, newOptionManager, setDebugLevel, toCommandLine, toString

Methods inherited from class adams.core.ConsoleObject

getDebugging, getSystemErr, getSystemOut

Methods inherited from class java.lang.Object

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

Constructor Detail

ImageJReader

public ImageJReader()

Method Detail

globalInfo

public String globalInfo()

Returns a string describing the object.

Specified by:

globalInfo in class AbstractOptionHandler

Returns:

a description suitable for displaying in the gui

accepts

public Class[] accepts()

Returns the class that the consumer accepts.

Specified by:

accepts in interface InputConsumer

Returns:

the Class of objects that can be processed

generates

public Class[] generates()

Returns the class of objects that it generates.

Specified by:

generates in interface OutputProducer

Returns:

adams.flow.container.ImagePlusContainer.class

doExecute

protected String doExecute()

Executes the flow item.

Specified by:

doExecute in class AbstractActor

Returns:

null if everything is fine, otherwise error message

updateProvenance

public void updateProvenance(ProvenanceContainer cont)

Updates the provenance information in the provided container.

Specified by:

updateProvenance in interface ProvenanceSupporter

Parameters:

cont - the provenance container to update