adams.data.imagej.flattener
Class AbstractImageJFlattener

java.lang.Object
  adams.core.ConsoleObject
      adams.core.option.AbstractOptionHandler
          adams.data.image.AbstractImageFlattener<ImagePlusContainer>
              adams.data.imagej.flattener.AbstractImageJFlattener

All Implemented Interfaces:

CleanUpHandler, Debuggable, Destroyable, OptionHandler, SizeOfHandler, Serializable, Comparable

Direct Known Subclasses:

Histogram, NamedSetup, Pixels

public abstract class AbstractImageJFlattener
extends AbstractImageFlattener<ImagePlusContainer>

Abstract base class for ImageJ flattening operations. Derived classes only have to override the doProcess(ImagePlus) method. The reset() method can be used to reset an algorithms internal state, e.g., after setting options.

Version:

$Revision: 6067 $

Author:

fracpete (fracpete at waikato dot ac dot nz)

See Also:

Serialized Form

Field Summary

Fields inherited from class adams.data.image.AbstractImageFlattener

m_Fields, m_Header, m_Notes

Fields inherited from class adams.core.option.AbstractOptionHandler

m_DebugLevel, m_OptionManager

Constructor Summary

AbstractImageJFlattener()

Method Summary

protected void	checkImage(ImagePlusContainer img) Optional checks of the image.
static AbstractImageJFlattener	forCommandLine(String cmdline) Instantiates the transformation from the given commandline (i.e., classname and optional options).
static AbstractImageJFlattener	forName(String classname, String[] options) Instantiates the transformation with the given options.
static String[]	getFlatteners() Returns a list with classnames of transformations.

Methods inherited from class adams.data.image.AbstractImageFlattener

cleanUp, compareTo, createHeader, defineOptions, destroy, doFlatten, equals, fieldsTipText, flatten, getFields, getNotes, newArray, notesTipText, postProcessHeader, postProcessInstance, reset, setFields, setNotes, shallowCopy, shallowCopy

Methods inherited from class adams.core.option.AbstractOptionHandler

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

Methods inherited from class adams.core.ConsoleObject

getDebugging, getSystemErr, getSystemOut, sizeOf

Methods inherited from class java.lang.Object

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

Constructor Detail

AbstractImageJFlattener

public AbstractImageJFlattener()

Method Detail

checkImage

protected void checkImage(ImagePlusContainer img)

Optional checks of the image.

Ensures that ImageJ plugins path is set.

Overrides:

checkImage in class AbstractImageFlattener<ImagePlusContainer>

Parameters:

img - the image to check

getFlatteners

public static String[] getFlatteners()

Returns a list with classnames of transformations.

Returns:

the transformation classnames

forName

public static AbstractImageJFlattener forName(String classname,
                                              String[] options)

Instantiates the transformation with the given options.

Parameters:

classname - the classname of the transformation to instantiate

options - the options for the transformation

Returns:

the instantiated transformation or null if an error occurred

forCommandLine

public static AbstractImageJFlattener forCommandLine(String cmdline)

Instantiates the transformation from the given commandline (i.e., classname and optional options).

Parameters:

cmdline - the classname (and optional options) of the transformation to instantiate

Returns:

the instantiated transformation or null if an error occurred