Package net.preibisch.mvrecon.process.fusion.transformed

Class TransformVirtual

java.lang.Object

net.preibisch.mvrecon.process.fusion.transformed.TransformVirtual

public class TransformVirtual
extends Object

Constructor Summary

Constructors

Constructor	Description
TransformVirtual()

Method Summary

Modifier and Type	Method	Description
static HashMap<mpicbg.spim.data.sequence.ViewId,net.imglib2.realtransform.AffineTransform3D>	adjustAllTransforms(Collection<? extends mpicbg.spim.data.sequence.ViewId> viewIds, Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.registration.ViewRegistration> registrations, double anisotropyFactor, double downsampling)	Collects all ViewRegistrations, updates them, and potentially adds anisotropy and downsampling transformations
static HashMap<mpicbg.spim.data.sequence.ViewId,net.imglib2.realtransform.AffineTransform3D>	adjustAllTransforms(Map<mpicbg.spim.data.sequence.ViewId,? extends net.imglib2.realtransform.AffineTransform3D> registrations, double anisotropyFactor, double downsampling)	Updates existing transformations with anisotropy and downsampling transformations
static net.imglib2.Interval	scaleBoundingBox(net.imglib2.Interval boundingBox, double factor)	Scale the bounding box (use with scaleTransform so it is the right image, but just smaller)
static net.imglib2.Interval	scaleBoundingBox(net.imglib2.Interval boundingBox, double[] factors)
static net.imglib2.Interval	scaleBoundingBox(net.imglib2.Interval boundingBox, double factor, double[] offset)
static void	scaleTransform(net.imglib2.realtransform.AffineTransform3D t, double factor)	Scale the affine transform (use with scaleBoundingBox so it is the right image, but just smaller)
static void	scaleTransform(net.imglib2.realtransform.AffineTransform3D t, double[] factors)

Methods inherited from class java.lang.Object

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

Constructor Details

TransformVirtual

public TransformVirtual()

Method Details

adjustAllTransforms

public static HashMap<mpicbg.spim.data.sequence.ViewId,net.imglib2.realtransform.AffineTransform3D> adjustAllTransforms(Collection<? extends mpicbg.spim.data.sequence.ViewId> viewIds,
 Map<mpicbg.spim.data.sequence.ViewId,? extends mpicbg.spim.data.registration.ViewRegistration> registrations,
 double anisotropyFactor,
 double downsampling)

Collects all ViewRegistrations, updates them, and potentially adds anisotropy and downsampling transformations

Parameters:

viewIds - - all ViewIds to process

registrations - - all ViewRegistrations

anisotropyFactor - - a factor applied to z only (e.g. 3, or Double.NaN)

downsampling - - a factor applied to xyz (e.g. 3, or Double.NaN)

Returns:

adjusted transformations

adjustAllTransforms

public static HashMap<mpicbg.spim.data.sequence.ViewId,net.imglib2.realtransform.AffineTransform3D> adjustAllTransforms(Map<mpicbg.spim.data.sequence.ViewId,? extends net.imglib2.realtransform.AffineTransform3D> registrations,
 double anisotropyFactor,
 double downsampling)

Updates existing transformations with anisotropy and downsampling transformations

Parameters:

registrations - - all registrations

anisotropyFactor - - a factor applied to z only (e.g. 3, or Double.NaN)

downsampling - - a factor applied to xyz (e.g. 3, or Double.NaN)

Returns:

a copy of potentially updated transformations

scaleTransform

public static void scaleTransform(net.imglib2.realtransform.AffineTransform3D t,
 double factor)

Scale the affine transform (use with scaleBoundingBox so it is the right image, but just smaller)

Parameters:

t - transform

factor - scaling factor

scaleTransform

public static void scaleTransform(net.imglib2.realtransform.AffineTransform3D t,
 double[] factors)

scaleBoundingBox

public static net.imglib2.Interval scaleBoundingBox(net.imglib2.Interval boundingBox,
 double factor)

Scale the bounding box (use with scaleTransform so it is the right image, but just smaller)

Parameters:

boundingBox - the bounding box

factor - scaling factor

Returns:

scaled bounding box

scaleBoundingBox

public static net.imglib2.Interval scaleBoundingBox(net.imglib2.Interval boundingBox,
 double factor,
 double[] offset)

scaleBoundingBox

public static net.imglib2.Interval scaleBoundingBox(net.imglib2.Interval boundingBox,
 double[] factors)