bdv.util

Class BdvFunctions

java.lang.Object

bdv.util.BdvFunctions

public class BdvFunctions
extends Object

all show methods return a Bdv which can be used to add more stuff to the same window

Author:

Tobias Pietzsch, Philipp Hanslovsky, Igor Pisarev, Stephan Saalfeld

Constructor Summary

Constructors

Constructor and Description
BdvFunctions()

Method Summary

Modifier and Type	Method and Description
static int	getUnusedSetupId(BigDataViewer bdv) Deprecated. Ok to use for now, but shouldn't be required in the future.
static int	getUnusedSetupId(SetupAssignments setupAssignments) Deprecated. Ok to use for now, but shouldn't be required in the future.
static TransformedBoxSelectionDialog.Result	selectBox(Bdv bdv, net.imglib2.realtransform.AffineTransform3D boxTransform, net.imglib2.Interval initialInterval, net.imglib2.Interval rangeInterval)
static TransformedBoxSelectionDialog.Result	selectBox(Bdv bdv, net.imglib2.realtransform.AffineTransform3D boxTransform, net.imglib2.Interval initialInterval, net.imglib2.Interval rangeInterval, BoxSelectionOptions options)
static TransformedRealBoxSelectionDialog.Result	selectRealBox(Bdv bdv, net.imglib2.realtransform.AffineTransform3D boxTransform, net.imglib2.RealInterval initialInterval, net.imglib2.RealInterval rangeInterval)
static TransformedRealBoxSelectionDialog.Result	selectRealBox(Bdv bdv, net.imglib2.realtransform.AffineTransform3D boxTransform, net.imglib2.RealInterval initialInterval, net.imglib2.RealInterval rangeInterval, BoxSelectionOptions options)
static BdvHandle	show()
static List<BdvStackSource<?>>	show(mpicbg.spim.data.generic.AbstractSpimData<?> spimData)
static List<BdvStackSource<?>>	show(mpicbg.spim.data.generic.AbstractSpimData<?> spimData, BdvOptions options)
static BdvHandle	show(BdvOptions options)
static <T> BdvStackSource<T>	show(ChannelSources<T> channels)
static <T> BdvStackSource<T>	show(ChannelSources<T> channels, BdvOptions options)
static <T> BdvStackSource<T>	show(List<SourceAndConverter<T>> sources, int numTimepoints, BdvOptions options)
static <T extends net.imglib2.type.numeric.NumericType<T>> BdvStackSource<T>	show(net.imglib2.RandomAccessible<T> img, net.imglib2.Interval interval, String name)
static <T extends net.imglib2.type.numeric.NumericType<T>> BdvStackSource<T>	show(net.imglib2.RandomAccessible<T> img, net.imglib2.Interval interval, String name, BdvOptions options)
static List<BdvVirtualChannelSource>	show(net.imglib2.RandomAccessibleInterval<net.imglib2.type.numeric.ARGBType> img, List<? extends VirtualChannels.VirtualChannel> virtualChannels, String name)
static List<BdvVirtualChannelSource>	show(net.imglib2.RandomAccessibleInterval<net.imglib2.type.numeric.ARGBType> img, List<? extends VirtualChannels.VirtualChannel> virtualChannels, String name, BdvOptions options)
static <T> BdvStackSource<T>	show(net.imglib2.RandomAccessibleInterval<T> img, String name)
static <T> BdvStackSource<T>	show(net.imglib2.RandomAccessibleInterval<T> img, String name, BdvOptions options)
static <T extends net.imglib2.type.Type<T>> BdvStackSource<T>	show(net.imglib2.RealRandomAccessible<T> img, net.imglib2.Interval interval, String name)
static <T extends net.imglib2.type.Type<T>> BdvStackSource<T>	show(net.imglib2.RealRandomAccessible<T> img, net.imglib2.Interval interval, String name, BdvOptions options)
static <T> BdvStackSource<T>	show(Source<T> source)
static <T> BdvStackSource<T>	show(Source<T> source, BdvOptions options)
static <T> BdvStackSource<T>	show(Source<T> source, int numTimePoints)
static <T> BdvStackSource<T>	show(Source<T> source, int numTimePoints, BdvOptions options)
static <T> BdvStackSource<T>	show(SourceAndConverter<T> source)
static <T> BdvStackSource<T>	show(SourceAndConverter<T> source, BdvOptions options)
static <T> BdvStackSource<T>	show(SourceAndConverter<T> source, int numTimePoints)
static <T> BdvStackSource<T>	show(SourceAndConverter<T> soc, int numTimepoints, BdvOptions options)
static <O extends BdvOverlay> BdvOverlaySource<O>	showOverlay(O overlay, String name)
static <O extends BdvOverlay> BdvOverlaySource<O>	showOverlay(O overlay, String name, BdvOptions options)
static BdvPointsSource	showPoints(List<? extends net.imglib2.RealLocalizable> points, String name)
static BdvPointsSource	showPoints(List<? extends net.imglib2.RealLocalizable> points, String name, BdvOptions options)

Methods inherited from class java.lang.Object

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

Constructor Detail

BdvFunctions

public BdvFunctions()

Method Detail

show

public static BdvHandle show()

show

public static BdvHandle show(BdvOptions options)

show

public static <T> BdvStackSource<T> show(net.imglib2.RandomAccessibleInterval<T> img,
                                         String name)

show

public static <T> BdvStackSource<T> show(net.imglib2.RandomAccessibleInterval<T> img,
                                         String name,
                                         BdvOptions options)

show

public static <T extends net.imglib2.type.numeric.NumericType<T>> BdvStackSource<T> show(net.imglib2.RandomAccessible<T> img,
                                                                                         net.imglib2.Interval interval,
                                                                                         String name)

show

public static <T extends net.imglib2.type.numeric.NumericType<T>> BdvStackSource<T> show(net.imglib2.RandomAccessible<T> img,
                                                                                         net.imglib2.Interval interval,
                                                                                         String name,
                                                                                         BdvOptions options)

show

public static <T extends net.imglib2.type.Type<T>> BdvStackSource<T> show(net.imglib2.RealRandomAccessible<T> img,
                                                                          net.imglib2.Interval interval,
                                                                          String name)

show

public static <T extends net.imglib2.type.Type<T>> BdvStackSource<T> show(net.imglib2.RealRandomAccessible<T> img,
                                                                          net.imglib2.Interval interval,
                                                                          String name,
                                                                          BdvOptions options)

show

public static List<BdvVirtualChannelSource> show(net.imglib2.RandomAccessibleInterval<net.imglib2.type.numeric.ARGBType> img,
                                                 List<? extends VirtualChannels.VirtualChannel> virtualChannels,
                                                 String name)

show

public static List<BdvVirtualChannelSource> show(net.imglib2.RandomAccessibleInterval<net.imglib2.type.numeric.ARGBType> img,
                                                 List<? extends VirtualChannels.VirtualChannel> virtualChannels,
                                                 String name,
                                                 BdvOptions options)

show

public static <T> BdvStackSource<T> show(Source<T> source)

show

public static <T> BdvStackSource<T> show(Source<T> source,
                                         BdvOptions options)

show

public static <T> BdvStackSource<T> show(Source<T> source,
                                         int numTimePoints)

show

public static <T> BdvStackSource<T> show(Source<T> source,
                                         int numTimePoints,
                                         BdvOptions options)

show

public static <T> BdvStackSource<T> show(SourceAndConverter<T> source)

show

public static <T> BdvStackSource<T> show(SourceAndConverter<T> source,
                                         BdvOptions options)

show

public static <T> BdvStackSource<T> show(SourceAndConverter<T> source,
                                         int numTimePoints)

show

public static <T> BdvStackSource<T> show(SourceAndConverter<T> soc,
                                         int numTimepoints,
                                         BdvOptions options)

show

public static <T> BdvStackSource<T> show(List<SourceAndConverter<T>> sources,
                                         int numTimepoints,
                                         BdvOptions options)

show

public static <T> BdvStackSource<T> show(ChannelSources<T> channels)

show

public static <T> BdvStackSource<T> show(ChannelSources<T> channels,
                                         BdvOptions options)

show

public static List<BdvStackSource<?>> show(mpicbg.spim.data.generic.AbstractSpimData<?> spimData)

show

public static List<BdvStackSource<?>> show(mpicbg.spim.data.generic.AbstractSpimData<?> spimData,
                                           BdvOptions options)

showPoints

public static BdvPointsSource showPoints(List<? extends net.imglib2.RealLocalizable> points,
                                         String name)

showPoints

public static BdvPointsSource showPoints(List<? extends net.imglib2.RealLocalizable> points,
                                         String name,
                                         BdvOptions options)

showOverlay

public static <O extends BdvOverlay> BdvOverlaySource<O> showOverlay(O overlay,
                                                                     String name)

showOverlay

public static <O extends BdvOverlay> BdvOverlaySource<O> showOverlay(O overlay,
                                                                     String name,
                                                                     BdvOptions options)

getUnusedSetupId

public static int getUnusedSetupId(BigDataViewer bdv)

Deprecated. Ok to use for now, but shouldn't be required in the future.

getUnusedSetupId

public static int getUnusedSetupId(SetupAssignments setupAssignments)

Deprecated. Ok to use for now, but shouldn't be required in the future.

selectRealBox

public static TransformedRealBoxSelectionDialog.Result selectRealBox(Bdv bdv,
                                                                     net.imglib2.realtransform.AffineTransform3D boxTransform,
                                                                     net.imglib2.RealInterval initialInterval,
                                                                     net.imglib2.RealInterval rangeInterval)

selectRealBox

public static TransformedRealBoxSelectionDialog.Result selectRealBox(Bdv bdv,
                                                                     net.imglib2.realtransform.AffineTransform3D boxTransform,
                                                                     net.imglib2.RealInterval initialInterval,
                                                                     net.imglib2.RealInterval rangeInterval,
                                                                     BoxSelectionOptions options)

selectBox

public static TransformedBoxSelectionDialog.Result selectBox(Bdv bdv,
                                                             net.imglib2.realtransform.AffineTransform3D boxTransform,
                                                             net.imglib2.Interval initialInterval,
                                                             net.imglib2.Interval rangeInterval)

selectBox

public static TransformedBoxSelectionDialog.Result selectBox(Bdv bdv,
                                                             net.imglib2.realtransform.AffineTransform3D boxTransform,
                                                             net.imglib2.Interval initialInterval,
                                                             net.imglib2.Interval rangeInterval,
                                                             BoxSelectionOptions options)