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RoiShiftingLocalizableByDimCursor.java
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Thu, Aug 8, 14:20

RoiShiftingLocalizableByDimCursor.java
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package mpicbg.imglib.cursor.special;
import java.util.Iterator;
import mpicbg.imglib.image.Image;
import mpicbg.imglib.type.Type;
import mpicbg.imglib.cursor.Localizable;
import mpicbg.imglib.cursor.CursorImpl;
import mpicbg.imglib.cursor.LocalizableByDimCursor;
import mpicbg.imglib.cursor.special.LocalNeighborhoodCursor;
import mpicbg.imglib.cursor.special.RegionOfInterestCursor;
/**
* A RoiShiftingLocalizableByDimCursor allows to specify a mask image for the
* image to walk on. It is able to move freely within the "on" parts
* of the mask.
*
* Author: Tom Kazimiers
*/
public class RoiShiftingLocalizableByDimCursor< T extends Type<T>> extends CursorImpl<T> implements LocalizableByDimCursor<T> {
// the original LocalizableByDimCursor to drive
LocalizableByDimCursor<T> cursor;
// the offset to apply to requests
int shiftingOffset[];
//
/**
* Creates a new RoiShiftingLocalizableByDimCursor, based on a Maskcursor for an
* existing image and a mask that is used to drive the cursor. If the mask is
* "on" or "off" is specified by the "offValue". Every value in the
* mask that is langer than this, will be "on". This variant is localizable,
* which means position information can be obtained.
*
* @param cursor The cursor over which the masked walk should happen.
* @param mask The mask for the cursor.
* @param offValue The value specifing the "off" state in the mask.
*/
public RoiShiftingLocalizableByDimCursor(LocalizableByDimCursor<T> cursor, int offset[]) {
super( cursor.getImage().getContainer(), cursor.getImage() );
shiftingOffset = offset;
this.cursor = cursor;
}
@Override
public String getPositionAsString() {
return cursor.getPositionAsString();
}
@Override
public void fwd( int dim ) {
cursor.fwd( dim );
}
@Override
public void bck( int dim ) {
cursor.bck( dim );
}
@Override
public void setPosition( int position[] ) {
cursor.setPosition( position );
}
@Override
public RegionOfInterestCursor<T> createRegionOfInterestCursor( final int[] offset,
final int[] size ) {
/* a ROI cursor for a MaskedImage must operate on a ROI relative to
* the offset of the masks/rois bounding box.
*/
int[] shiftedOffset = offset.clone();
for (int d=0; d < getNumDimensions(); d++) {
shiftedOffset[d] += shiftingOffset[d];
}
return new RegionOfInterestCursor<T>(this, shiftedOffset, size);
}
@Override
public void move( int steps, int dim ) {
cursor.move( steps, dim );
}
@Override
public void moveTo( Localizable localizable ) {
cursor.moveTo( localizable );
}
@Override
public void moveTo( int position[] ) {
cursor.moveTo( position );
}
@Override
public void moveRel( int position[] ) {
cursor.moveRel( position );
}
@Override
public void setPosition( Localizable localizable ) {
cursor.setPosition( localizable );
}
@Override
public void setPosition( int position, int dim ) {
cursor.setPosition( position, dim );
}
@Override
public int getStorageIndex() {
return cursor.getStorageIndex();
}
@Override
public void close() {
cursor.close();
}
@Override
public T getType() {
return cursor.getType();
}
@Override
public void reset() {
cursor.reset();
}
@Override
public boolean hasNext() {
return cursor.hasNext();
}
@Override
public void fwd() {
cursor.fwd();
}
@Override
public void getPosition( int[] pos ) {
cursor.getPosition( pos );
}
@Override
public int getPosition( final int dim ) {
return cursor.getPosition( dim );
}
@Override
public int[] getPosition() {
return cursor.getPosition();
}
/* Not yet implemented methods follow */
@Override
public LocalNeighborhoodCursor<T> createLocalNeighborhoodCursor() {
throw new UnsupportedOperationException("This method has not been implemented, yet.");
}
}

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