Index (BigVolumeViewer 0.5.0 API)

A B C D E F G H I J K L M N O P R S T U V W X Y Z
All Classes All Packages

A

AbstractShader - Class in bvv.core.shadergen
AbstractShader(StringBuilder, StringBuilder) - Constructor for class bvv.core.shadergen.AbstractShader
AbstractShader(String, String) - Constructor for class bvv.core.shadergen.AbstractShader
accept(Map<SegmentType, SegmentTemplate>, Map<SegmentType, Segment>, int) - Method in interface bvv.core.render.MultiVolumeShaderMip.SegmentConsumer: Runs the lambda that was handed over, offering access to available segments, their instances, and the current volume index.
Accumulator - bvv.core.shadergen.generate.SegmentType
AccumulatorMultiresolution - bvv.core.shadergen.generate.SegmentType
add(int[]) - Method in class bvv.core.blockmath.RequiredBlocks
add(Localizable) - Method in class bvv.core.blockmath.RequiredBlocks
addGLEventListener(GLEventListener) - Method in class bvv.core.InteractiveGLDisplayCanvas
addGroup(SourceGroup) - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Modify VolumeViewerPanel.state() directly
addHandler(Object) - Method in class bvv.core.InteractiveGLDisplayCanvas: Add new event handler.
addOverlayAnimator(OverlayAnimator) - Method in class bvv.core.VolumeViewerPanel: Add a new OverlayAnimator to the list of animators.
addressOf(Buffer) - Static method in class bvv.core.blocks.ByteUtils
addSource(SourceAndConverter<?>) - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Modify VolumeViewerPanel.state() directly
addSources(Collection<SourceAndConverter<?>>) - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Modify VolumeViewerPanel.state() directly
addTimePointListener(TimePointListener) - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Use timePointListeners().add( listener ).
addTimePointListener(TimePointListener, int) - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Use timePointListeners().add( index, listener ).
addTo() - Method in class bvv.vistools.BvvOptions.Values
addTo(Bvv) - Method in class bvv.vistools.BvvOptions: When showing content using one of the BvvFunctions methods, this option can be given to specify that the content should be added to an existing window.
affine(AffineTransform3D, Matrix4f) - Static method in class bvv.core.util.MatrixMath: Apply a AffineTransform3D to the specified matrix.
appearanceManager(AppearanceManager) - Method in class bvv.core.VolumeViewerOptions: Set the AppearanceManager to share appearance settings with other BigVolumeViewer windows.
ARGB - bvv.core.render.VolumeShaderSignature.PixelType
axisOrder() - Method in class bvv.vistools.BvvOptions.Values
axisOrder(AxisOrder) - Method in class bvv.vistools.BvvOptions: Specified when adding a stack.

B

bestLevel(Vector3fc, Vector3f) - Method in class bvv.core.blockmath.MipmapSizes: Get best resolution level at source coordinates x.
BigVolumeViewer - Class in bvv.core
BigVolumeViewer(List<ConverterSetup>, List<SourceAndConverter<?>>, int, CacheControl, String, VolumeViewerOptions) - Constructor for class bvv.core.BigVolumeViewer
BIGVOLUMEVIEWER - Static variable in interface bvv.core.KeyConfigContexts: The action or behaviour applies to the BVV views.
BIGVOLUMEVIEWER - Static variable in interface bvv.core.KeyConfigScopes
BigVolumeViewerActions - Class in bvv.core
BigVolumeViewerActions() - Constructor for class bvv.core.BigVolumeViewerActions
BigVolumeViewerActions.Descriptions - Class in bvv.core: Command descriptions for commands re-used from BigVolumeViewerActions, CloseWindowActions, NavigationActions, TransformEventHandler3D.
BigVolumeViewerCommand - Class in bvv.core
BigVolumeViewerCommand() - Constructor for class bvv.core.BigVolumeViewerCommand
bind(GL3) - Method in class bvv.core.dither.DitherBuffer
bind(GL3) - Method in class bvv.core.offscreen.OffScreenFrameBuffer: Bind this framebuffer and clear it.
bind(GL3) - Method in class bvv.core.offscreen.OffScreenFrameBufferWithDepth: Bind this framebuffer and clear it.
bind(GL3, boolean) - Method in class bvv.core.offscreen.OffScreenFrameBuffer
bind(GL3, boolean) - Method in class bvv.core.offscreen.OffScreenFrameBufferWithDepth
bind(String, int, Segment) - Method in class bvv.core.shadergen.generate.Segment
bind(String, int, Segment, String) - Method in class bvv.core.shadergen.generate.Segment
bind(String, Segment) - Method in class bvv.core.shadergen.generate.Segment
bind(String, Segment, String) - Method in class bvv.core.shadergen.generate.Segment
bindSamplers(GpuContext) - Method in class bvv.core.render.MultiVolumeShaderMip
bindSamplers(GpuContext) - Method in class bvv.core.shadergen.AbstractShader
bindSamplers(GpuContext) - Method in interface bvv.core.shadergen.Shader
bindStagingBuffer(StagingBuffer) - Method in interface bvv.core.backend.GpuContext
bindStagingBuffer(StagingBuffer) - Method in class bvv.core.backend.jogl.JoglGpuContext
bindStagingBufferId(int) - Method in interface bvv.core.backend.GpuContext
bindStagingBufferId(int) - Method in class bvv.core.backend.jogl.JoglGpuContext
bindTexture(Texture) - Method in interface bvv.core.backend.GpuContext
bindTexture(Texture) - Method in class bvv.core.backend.jogl.JoglGpuContext
bindTexture(Texture, int) - Method in interface bvv.core.backend.GpuContext
bindTexture(Texture, int) - Method in class bvv.core.backend.jogl.JoglGpuContext
bindTextureId(int, int) - Method in interface bvv.core.backend.GpuContext
bindTextureId(int, int) - Method in class bvv.core.backend.jogl.JoglGpuContext
blockSize() - Method in class bvv.core.cache.CacheSpec: Get the size of a block without interpolation padding.
build() - Method in class bvv.core.shadergen.generate.SegmentedShaderBuilder
bvv - module bvv
Bvv - Interface in bvv.vistools: Something that has a BvvHandle.
bvv.core - package bvv.core
bvv.core.backend - package bvv.core.backend
bvv.core.backend.jogl - package bvv.core.backend.jogl
bvv.core.blockmath - package bvv.core.blockmath
bvv.core.blocks - package bvv.core.blocks
bvv.core.cache - package bvv.core.cache
bvv.core.dither - package bvv.core.dither
bvv.core.multires - package bvv.core.multires
bvv.core.offscreen - package bvv.core.offscreen
bvv.core.render - package bvv.core.render
bvv.core.shadergen - package bvv.core.shadergen
bvv.core.shadergen.generate - package bvv.core.shadergen.generate
bvv.core.util - package bvv.core.util
bvv.vistools - package bvv.vistools
BvvFunctions - Class in bvv.vistools: all show methods return a Bvv which can be used to add more stuff to the same window
BvvFunctions() - Constructor for class bvv.vistools.BvvFunctions
BvvHandle - Class in bvv.vistools: Represents a BigVolumeViewer frame or panel and can be used to get to the bvv internals.
BvvHandle(BvvOptions) - Constructor for class bvv.vistools.BvvHandle
BvvHandleFrame - Class in bvv.vistools
bvvOptions - Variable in class bvv.vistools.BvvHandle
BvvOptions - Class in bvv.vistools: Optional parameters for BdvFunctions.
BvvOptions() - Constructor for class bvv.vistools.BvvOptions
BvvOptions.Values - Class in bvv.vistools: Read-only BvvOptions values.
BvvSource - Class in bvv.vistools
BvvSource(BvvHandle, int) - Constructor for class bvv.vistools.BvvSource
bvvSources - Variable in class bvv.vistools.BvvHandle
BvvStackSource<T> - Class in bvv.vistools
BvvStackSource(BvvHandle, int, T, List<ConverterSetup>, List<SourceAndConverter<T>>) - Constructor for class bvv.vistools.BvvStackSource
ByteToAddress() - Constructor for class bvv.core.blocks.CopySubArrayImp.ByteToAddress
ByteUtils - Class in bvv.core.blocks
ByteUtils() - Constructor for class bvv.core.blocks.ByteUtils
ByteUtils.Address - Interface in bvv.core.blocks

C

Cache() - Constructor for class bvv.core.blocks.TileAccess.Cache
cacheBlockSize(int) - Method in class bvv.core.VolumeViewerOptions: Sets the GPU cache tile size.
cacheBlockSize(int) - Method in class bvv.vistools.BvvOptions: Sets the GPU cache tile size.
cacheBlockSize(int[]) - Method in class bvv.core.VolumeViewerOptions: Sets the GPU cache tile size.
cacheBlockSize(int[]) - Method in class bvv.vistools.BvvOptions: Sets the GPU cache tile size.
cacheControl - Variable in class bvv.core.VolumeViewerPanel
cacheControls - Variable in class bvv.vistools.BvvHandle
CacheSpec - Class in bvv.core.cache
CacheSpec(Texture.InternalFormat, int[]) - Constructor for class bvv.core.cache.CacheSpec
CacheSpec(Texture.InternalFormat, int[], int[], int[]) - Constructor for class bvv.core.cache.CacheSpec
CacheSpec(Texture.InternalFormat, int, int, int) - Constructor for class bvv.core.cache.CacheSpec
canLoadCompletely(int[], boolean) - Method in class bvv.core.blocks.TileAccess
canLoadCompletely(int[], int[], GridDataAccess<?>, boolean) - Method in class bvv.core.blocks.CopyGridBlock
canLoadPartially(int[]) - Method in class bvv.core.blocks.TileAccess
canLoadPartially(int[], int[], GridDataAccess<?>) - Method in class bvv.core.blocks.CopyGridBlock
canvasSizeListeners() - Method in class bvv.core.InteractiveGLDisplayCanvas: CanvasSizeListeners can be added/removed here.
cards - Variable in class bvv.vistools.BvvHandle
Cells(AbstractCellImg<?, A, ? extends Cell<A>, ?>) - Constructor for class bvv.core.blocks.GridDataAccessImp.Cells
cellSize(int) - Method in interface bvv.core.blocks.GridDataAccess: Get the size of a standard cell in dimension d.
cellSize(int, int) - Method in interface bvv.core.blocks.GridDataAccess: From the position of a cell in the grid, compute the size of the cell in dimension d.
CLAMP_TO_BORDER_ZERO - bvv.core.backend.Texture.Wrap
CLAMP_TO_EDGE - bvv.core.backend.Texture.Wrap
clearAttributes(ST) - Static method in class bvv.core.shadergen.generate.StringTemplateUtils
clearsubarray3d(ByteUtils.Address, int, int, int, int, int, int, int, int) - Method in class bvv.core.blocks.CopySubArrayImp.ByteToAddress
clearsubarray3d(ByteUtils.Address, int, int, int, int, int, int, int, int) - Method in class bvv.core.blocks.CopySubArrayImp.ShortToAddress
clearsubarray3d(T, int, int, int, int, int, int, int, int) - Method in interface bvv.core.blocks.CopySubArray
close() - Method in interface bvv.vistools.Bvv
close() - Method in class bvv.vistools.BvvHandle
close() - Method in class bvv.vistools.BvvHandleFrame
collapseCardPanel() - Method in class bvv.core.BigVolumeViewer
COMPLETE - bvv.core.cache.TextureCache.ContentState
configDir - Static variable in class bvv.core.BigVolumeViewer
containsData() - Method in class bvv.core.cache.DefaultFillTask
containsData() - Method in interface bvv.core.cache.FillTask
Convert - bvv.core.shadergen.generate.SegmentType
ConvertRGBA - bvv.core.shadergen.generate.SegmentType
copy(int[], int[], T, GridDataAccess<S>, CopySubArray<S, T>) - Method in class bvv.core.blocks.CopyGridBlock: Copy (non-aligned) block from cell grid.
copyBytes(byte[], long, long, long) - Static method in class bvv.core.blocks.ByteUtils
CopyGridBlock - Class in bvv.core.blocks
CopyGridBlock() - Constructor for class bvv.core.blocks.CopyGridBlock
copyShorts(short[], long, long, long) - Static method in class bvv.core.blocks.ByteUtils
CopySubArray<S,T> - Interface in bvv.core.blocks
copysubarray3d(byte[], int, int, int, int, int, ByteUtils.Address, int, int, int, int, int, int, int, int) - Method in class bvv.core.blocks.CopySubArrayImp.ByteToAddress
copysubarray3d(short[], int, int, int, int, int, ByteUtils.Address, int, int, int, int, int, int, int, int) - Method in class bvv.core.blocks.CopySubArrayImp.ShortToAddress
copysubarray3d(S, int, int, int, int, int, T, int, int, int, int, int, int, int, int) - Method in interface bvv.core.blocks.CopySubArray
CopySubArrayImp - Class in bvv.core.blocks
CopySubArrayImp() - Constructor for class bvv.core.blocks.CopySubArrayImp
CopySubArrayImp.ByteToAddress - Class in bvv.core.blocks
CopySubArrayImp.ShortToAddress - Class in bvv.core.blocks
createGLCanvas(int, int) - Static method in class bvv.core.InteractiveGLDisplayCanvas: Create a new InteractiveDisplayCanvas with a GLCanvas.
createGLJPanel(int, int) - Static method in class bvv.core.InteractiveGLDisplayCanvas: Create a new InteractiveDisplayCanvas with a GLJPanel.

D

dCam(double) - Method in class bvv.core.VolumeViewerOptions: Sets the distance from the camera to the z=0 plane.
dCam(double) - Method in class bvv.vistools.BvvOptions: Sets the distance from the camera to the z=0 plane.
dClip(double) - Method in class bvv.core.VolumeViewerOptions
dClip(double) - Method in class bvv.vistools.BvvOptions
dClipFar(double) - Method in class bvv.core.VolumeViewerOptions: Sets the visible distance from the z=0 plane away from the camera.
dClipFar(double) - Method in class bvv.vistools.BvvOptions: Sets the visible distance from the z=0 plane away from the camera.
dClipNear(double) - Method in class bvv.core.VolumeViewerOptions: Sets the visible distance from the z=0 plane towards the camera.
dClipNear(double) - Method in class bvv.vistools.BvvOptions: Sets the visible distance from the z=0 plane towards the camera.
DEFAULT_BLOCK_AVERAGE - bvv.core.multires.DownSamplingScheme
DefaultFillTask - Class in bvv.core.cache
DefaultFillTask(ImageBlockKey<?>, Predicate<UploadBuffer>, BooleanSupplier) - Constructor for class bvv.core.cache.DefaultFillTask: fill.test() fills buffer and returns whether block data was complete
DefaultQuad - Class in bvv.core.util
DefaultQuad() - Constructor for class bvv.core.util.DefaultQuad
DefaultShader - Class in bvv.core.shadergen
DefaultShader(String, String) - Constructor for class bvv.core.shadergen.DefaultShader
DefaultSimpleStackManager - Class in bvv.core.render
DefaultSimpleStackManager() - Constructor for class bvv.core.render.DefaultSimpleStackManager
delete(Texture) - Method in interface bvv.core.backend.GpuContext
delete(Texture) - Method in class bvv.core.backend.jogl.JoglGpuContext
Descriptions() - Constructor for class bvv.core.BigVolumeViewerActions.Descriptions
display - Variable in class bvv.core.VolumeViewerPanel: Canvas used for displaying the rendered image and overlays.
display() - Method in class bvv.core.InteractiveGLDisplayCanvas
displayToGlobalCoordinates(double[]) - Method in class bvv.core.VolumeViewerPanel: Set gPos to the display coordinates at gPos transformed into the global coordinate system.
displayToGlobalCoordinates(double, double, RealPositionable) - Method in class bvv.core.VolumeViewerPanel: Set gPos to the display coordinates (x,y,0)^T transformed into the global coordinate system.
displayToGlobalCoordinates(P) - Method in class bvv.core.VolumeViewerPanel: Set gPos to the display coordinates at gPos transformed into the global coordinate system.
dither(GL3, int, int, int) - Method in class bvv.core.dither.DitherBuffer
DITHER - bvv.core.render.VolumeRenderer.RepaintType
DitherBuffer - Class in bvv.core.dither
DitherBuffer(int, int) - Constructor for class bvv.core.dither.DitherBuffer
DitherBuffer(int, int, int, int, int) - Constructor for class bvv.core.dither.DitherBuffer
DitherBuffer(int, int, int, int, int, IntFunction<Double>) - Constructor for class bvv.core.dither.DitherBuffer
DitherPattern - Class in bvv.core.dither
DitherPattern() - Constructor for class bvv.core.dither.DitherPattern
DitherPattern.DitherWeights - Class in bvv.core.dither
DitherWeights(float[][], float[]) - Constructor for class bvv.core.dither.DitherPattern.DitherWeights
ditherWidth(int) - Method in class bvv.core.VolumeViewerOptions: Sets the dither window width.
ditherWidth(int) - Method in class bvv.vistools.BvvOptions: Sets the dither window width.
DownSamplingScheme - Enum in bvv.core.multires: Down-sampling scheme for MultiResolutionStack3D.
draw(GL3) - Method in class bvv.core.util.DefaultQuad
draw(GL3, VolumeRenderer.RepaintType, OffScreenFrameBufferWithDepth, List<Stack3D<?>>, List<ConverterSetup>, Matrix4f, int, double) - Method in class bvv.core.render.VolumeRenderer
drawOverlays(Graphics) - Method in class bvv.core.VolumeViewerPanel
drawQuad(GL3) - Method in class bvv.core.offscreen.OffScreenFrameBuffer: Render fullscreen quad with the texture.
drawQuad(GL3) - Method in class bvv.core.offscreen.OffScreenFrameBufferWithDepth: Render fullscreen quad with the texture.
drawQuad(GL3, int, int) - Method in class bvv.core.offscreen.OffScreenFrameBuffer
drawQuad(GL3, int, int) - Method in class bvv.core.offscreen.OffScreenFrameBufferWithDepth

E

effectiveViewportHeight() - Method in class bvv.core.dither.DitherBuffer
effectiveViewportWidth() - Method in class bvv.core.dither.DitherBuffer
equals(Object) - Method in class bvv.core.cache.ImageBlockKey
equals(Object) - Method in class bvv.core.render.VolumeShaderSignature
equals(Object) - Method in class bvv.core.render.VolumeShaderSignature.VolumeSignature
expandAndFocusCardPanel() - Method in class bvv.core.BigVolumeViewer

F

fill(UploadBuffer) - Method in class bvv.core.cache.DefaultFillTask
fill(UploadBuffer) - Method in interface bvv.core.cache.FillTask
FillTask - Interface in bvv.core.cache
FindRequiredBlocks - Class in bvv.core.blockmath
FindRequiredBlocks() - Constructor for class bvv.core.blockmath.FindRequiredBlocks
findSuitableGridSize(CacheSpec, int) - Static method in class bvv.core.cache.TextureCache: Find suitable size of a 3D texture (in multiples of cacheSpec.paddedBlockSize()) such that it requires less than maxMemoryInMB, the texture is roughly square, and fits as many blocks as possible.
flush() - Method in class bvv.core.cache.PboChain: Finalize a batch of cache tile uploads.
format() - Method in class bvv.core.cache.CacheSpec
fragment(Segment) - Method in class bvv.core.shadergen.generate.SegmentedShaderBuilder
FragmentShader - bvv.core.shadergen.generate.SegmentType
fragShift(int) - Method in class bvv.core.dither.DitherBuffer
frameTitle(String) - Method in class bvv.vistools.BvvOptions: Set the title of the BigDataViewer window.
freeSimpleVolumes(GpuContext) - Method in class bvv.core.render.DefaultSimpleStackManager
freeSimpleVolumes(GpuContext) - Method in interface bvv.core.render.SimpleStackManager: Free allocated resources associated to all stacks.
freeUnusedSimpleVolumes(GpuContext) - Method in class bvv.core.render.DefaultSimpleStackManager: Free allocated resources associated to all stacks that have not been requested since the last call to DefaultSimpleStackManager.freeUnusedSimpleVolumes(GpuContext).
freeUnusedSimpleVolumes(GpuContext) - Method in interface bvv.core.render.SimpleStackManager: Free allocated resources associated to all stacks that have not been requested since the last call to SimpleStackManager.freeUnusedSimpleVolumes(GpuContext).
FULL - bvv.core.render.VolumeRenderer.RepaintType
fwd(int) - Method in interface bvv.core.blocks.GridDataAccess

G

GeomUtils - Class in bvv.core.blockmath
GeomUtils() - Constructor for class bvv.core.blockmath.GeomUtils
get() - Method in interface bvv.core.blocks.GridDataAccess: Get the primitive array with data of grid cell at current position.
get() - Method in class bvv.core.blocks.GridDataAccessImp.Cells
get() - Method in class bvv.core.blocks.GridDataAccessImp.VolatileCells
get(int, int, int) - Method in class bvv.core.offscreen.OffScreenFrameBuffer: Get a value from the texture (downloaded by OffScreenFrameBuffer.unbind(GL3) or OffScreenFrameBuffer.getTexture(GL3))
get(int, int, int) - Method in class bvv.core.offscreen.OffScreenFrameBufferWithDepth: Get a value from the texture (downloaded by OffScreenFrameBufferWithDepth.unbind(GL3) or OffScreenFrameBufferWithDepth.getTexture(GL3))
get(ImageBlockKey<?>) - Method in class bvv.core.cache.TextureCache
get(ResolutionLevel3D<?>, CacheSpec) - Method in class bvv.core.blocks.TileAccess.Cache
get(GL3) - Static method in class bvv.core.backend.jogl.JoglGpuContext
getAddress() - Method in interface bvv.core.blocks.ByteUtils.Address
getAddress() - Method in class bvv.core.cache.UploadBuffer: ...tentative...
getAppearanceManager() - Method in class bvv.core.BigVolumeViewer
getAppearanceManager() - Method in class bvv.core.VolumeViewerOptions.Values
getBaseLevel() - Method in class bvv.core.blockmath.MipmapSizes: Highest required resolution (lowest level) for any visible block
getBaseLevel() - Method in class bvv.core.render.VolumeBlocks: Get the base resolution level for rendering the volume.
getBaseLevelVoxelSizeInWorldCoordinates() - Method in class bvv.core.render.VolumeBlocks: Get the size of a voxel at base resolution in world coordinates.
getBestLevel() - Method in class bvv.core.blockmath.RequiredBlock
getBigVolumeViewer() - Method in class bvv.vistools.BvvHandleFrame
getBlocks() - Method in class bvv.core.blockmath.RequiredBlocks
getBuffer() - Method in class bvv.core.cache.UploadBuffer: Stores data for uploading to texture tile.
getBvvHandle() - Method in interface bvv.vistools.Bvv
getBvvHandle() - Method in class bvv.vistools.BvvHandle
getBvvHandle() - Method in class bvv.vistools.BvvSource
getBytesPerElement() - Method in enum bvv.core.backend.Texture.InternalFormat
getCacheBlockSize() - Method in class bvv.core.VolumeViewerOptions.Values
getCacheControl() - Method in class bvv.core.multires.SpimDataStacks
getCacheControl() - Method in interface bvv.core.multires.Stacks
getCardPanel() - Method in class bvv.core.VolumeViewerFrame
getCardPanel() - Method in class bvv.vistools.BvvHandle
getCode() - Method in class bvv.core.shadergen.generate.Segment
getCommandDescriptions(CommandDescriptions) - Method in class bvv.core.BigVolumeViewerActions.Descriptions
getComponent() - Method in class bvv.core.InteractiveGLDisplayCanvas: Implementing classes extend Component and return this.
getContentState() - Method in class bvv.core.cache.UploadBuffer: Was stored image block data complete?
getConverterSetups() - Method in class bvv.core.BigVolumeViewer
getConverterSetups() - Method in class bvv.core.VolumeViewerFrame
getConverterSetups() - Method in class bvv.core.VolumeViewerPanel
getConverterSetups() - Method in class bvv.vistools.BvvHandle
getConverterSetups() - Method in class bvv.vistools.BvvStackSource
getDCam() - Method in class bvv.core.render.RenderData
getDCam() - Method in class bvv.core.VolumeViewerOptions.Values
getDClipFar() - Method in class bvv.core.render.RenderData
getDClipFar() - Method in class bvv.core.VolumeViewerOptions.Values
getDClipNear() - Method in class bvv.core.render.RenderData
getDClipNear() - Method in class bvv.core.VolumeViewerOptions.Values
getDefaultSegments(boolean) - Static method in class bvv.core.render.MultiVolumeShaderMip
getDepthImg() - Method in class bvv.core.offscreen.OffScreenFrameBufferWithDepth
getDepthTexture() - Method in class bvv.core.offscreen.OffScreenFrameBufferWithDepth
getDisplay() - Method in class bvv.core.VolumeViewerPanel: Get the viewer canvas.
getDisplayComponent() - Method in class bvv.core.VolumeViewerPanel: Get the AWT Component of the viewer canvas.
getDitherBuffer() - Method in class bvv.core.dither.DitherBuffer
getDitherWidth() - Method in class bvv.core.VolumeViewerOptions.Values
getDownSamplingScheme() - Method in interface bvv.core.multires.MultiResolutionStack3D
getDrel(Vector3fc, Vector3f) - Method in class bvv.core.blockmath.MipmapSizes
getFillTasks() - Method in class bvv.core.render.VolumeBlocks: Sets up RequiredBlocks (internally) and creates a list of FillTasks for the cache to process.
getFragmentShaderCode() - Method in class bvv.core.shadergen.AbstractShader
getFragmentShaderCode() - Method in interface bvv.core.shadergen.Shader
getFrameTitle() - Method in class bvv.vistools.BvvOptions.Values
getGridPos() - Method in class bvv.core.blockmath.RequiredBlock
getGridPositions() - Method in class bvv.core.blockmath.RequiredBlocks
getHeight() - Method in class bvv.core.InteractiveGLDisplayCanvas
getHeight() - Method in class bvv.core.offscreen.OffScreenFrameBuffer
getHeight() - Method in class bvv.core.offscreen.OffScreenFrameBufferWithDepth
getHeight() - Method in class bvv.core.VolumeViewerOptions.Values
getImage() - Method in interface bvv.core.multires.ResolutionLevel3D: Get the image data for this resolution level.
getImage() - Method in interface bvv.core.multires.SimpleStack3D: Get the image data.
getImg() - Method in class bvv.core.offscreen.OffScreenFrameBuffer
getIms() - Method in class bvv.core.render.SimpleVolume
getIms() - Method in class bvv.core.render.VolumeBlocks
getInputTriggerConfig() - Method in class bvv.core.VolumeViewerOptions.Values
getInputTriggerConfig() - Method in class bvv.core.VolumeViewerPanel
getInputTriggerConfig() - Method in class bvv.vistools.BvvOptions.Values
getKey() - Method in class bvv.core.cache.DefaultFillTask
getKey() - Method in interface bvv.core.cache.FillTask
getKeybindings() - Method in class bvv.core.VolumeViewerFrame
getKeybindings() - Method in class bvv.vistools.BvvHandle
getKeybindings() - Method in class bvv.vistools.BvvHandleFrame
getKeymapManager() - Method in class bvv.core.BigVolumeViewer
getKeymapManager() - Method in class bvv.core.VolumeViewerOptions.Values
getKeyPressedManager() - Method in class bvv.core.VolumeViewerOptions.Values
getLevel() - Method in interface bvv.core.multires.ResolutionLevel3D: Get the index of this resolution level in the MultiResolutionStack3D By default, index 0 is the full resolution, and resolution level at index i>j has lower resolution (more down-sampled) than index j.
getLevelTransform() - Method in interface bvv.core.multires.ResolutionLevel3D: Get the transformation from image coordinates of this level to image coordinates of level 0 (full resolution).
getLookupTexture() - Method in class bvv.core.render.VolumeBlocks
getLutBlockScales(int) - Method in class bvv.core.render.VolumeBlocks: Set up lutBlockScales array for shader.
getManualTransformEditor() - Method in class bvv.core.BigVolumeViewer
getManualTransformEditor() - Method in class bvv.vistools.BvvHandle
getManualTransformEditor() - Method in class bvv.vistools.BvvHandleFrame
getMax() - Method in class bvv.core.blockmath.RequiredBlocks
getMaxAllowedStepInVoxels() - Method in class bvv.core.VolumeViewerOptions.Values
getMaxCacheSizeInMB() - Method in class bvv.core.VolumeViewerOptions.Values
getMaxNumTiles() - Method in class bvv.core.cache.TextureCache
getMaxRenderMillis() - Method in class bvv.core.VolumeViewerOptions.Values
getMin() - Method in class bvv.core.blockmath.RequiredBlocks
getMsgOverlay() - Method in class bvv.core.VolumeViewerOptions.Values
getNumDitherSamples() - Method in class bvv.core.VolumeViewerOptions.Values
getNumSourceGroups() - Method in class bvv.core.VolumeViewerOptions.Values
getNumTimepoints() - Method in class bvv.core.multires.SpimDataStacks
getNumTimepoints() - Method in interface bvv.core.multires.Stacks
getNumTimepoints() - Method in class bvv.vistools.BvvSource
getOffset() - Method in class bvv.core.cache.UploadBuffer: Starting offset for tile in buffer.
getOffset3f() - Method in class bvv.core.render.LookupTextureARGB
getOptionValues() - Method in class bvv.core.VolumeViewerPanel
getPboIdHack(StagingBuffer) - Method in class bvv.core.backend.jogl.JoglGpuContext
getPixelType() - Method in class bvv.core.render.VolumeShaderSignature.VolumeSignature
getPosition() - Method in interface bvv.core.blocks.GridDataAccess
getPrimitiveType(Object) - Static method in class bvv.core.blocks.TileAccess
getProgramIdHack(Shader) - Method in class bvv.core.backend.jogl.JoglGpuContext
getPv() - Method in class bvv.core.render.RenderData
getR() - Method in interface bvv.core.multires.ResolutionLevel3D: Get per-dimension down-sampling factors with respect to full resolution.
getRenderHeight() - Method in class bvv.core.VolumeViewerOptions.Values
getRenderTransformWorldToScreen() - Method in class bvv.core.render.RenderData
getRenderWidth() - Method in class bvv.core.VolumeViewerOptions.Values
getRequiredBlocks(ConvexPolytope, int[], long[], long[]) - Static method in class bvv.core.blockmath.FindRequiredBlocks: Given an interval split into regular blocks of size blockSize.
getRequiredLevelBlocksFrustum(Matrix4fc, int[], long[], long[]) - Static method in class bvv.core.blockmath.FindRequiredBlocks: Backproject NDC (-1,-1,-1) ... (1,1,1) to source image and find overlapping blocks.
getS() - Method in interface bvv.core.multires.ResolutionLevel3D: Get per-dimension scale factors with respect to full resolution.
getScreenHeight() - Method in class bvv.core.render.RenderData
getScreenWidth() - Method in class bvv.core.render.RenderData
getSetupAssignments() - Method in class bvv.core.BigVolumeViewer: Deprecated.
Instead getViewer().state() returns the ViewerState that can be modified directly.
getSetupAssignments() - Method in class bvv.vistools.BvvHandle: Deprecated.
getSf() - Method in class bvv.core.blockmath.MipmapSizes
getSimpleVolume(GpuContext, SimpleStack3D<?>) - Method in class bvv.core.render.DefaultSimpleStackManager
getSimpleVolume(GpuContext, SimpleStack3D<?>) - Method in interface bvv.core.render.SimpleStackManager
getSize() - Method in class bvv.core.InteractiveGLDisplayCanvas
getSize3f() - Method in class bvv.core.render.LookupTextureARGB
getSizeInBytes() - Method in interface bvv.core.backend.StagingBuffer
getSn() - Method in class bvv.core.blockmath.MipmapSizes
getSourceInfoOverlayRenderer() - Method in class bvv.core.VolumeViewerPanel
getSourceLevelMax() - Method in class bvv.core.render.VolumeBlocks
getSourceLevelMin() - Method in class bvv.core.render.VolumeBlocks
getSourceMax() - Method in class bvv.core.render.SimpleVolume
getSources() - Method in class bvv.vistools.BvvStackSource
getSourceStackType() - Method in class bvv.core.render.VolumeShaderSignature.VolumeSignature
getSourceStackType(Source<?>) - Static method in class bvv.core.multires.SourceStacks
getSourceTransform() - Method in interface bvv.core.multires.Stack3D: Get the transformation from image coordinates to world coordinates.
getSourceTransform() - Method in class bvv.vistools.BvvOptions.Values
getSplitPanel() - Method in class bvv.core.VolumeViewerFrame
getSplitPanel() - Method in class bvv.vistools.BvvHandle
getStack(int, int, boolean) - Method in class bvv.core.multires.SpimDataStacks
getStack(int, int, boolean) - Method in interface bvv.core.multires.Stacks
getStack3D(Source<T>, int) - Static method in class bvv.core.multires.SourceStacks
getState() - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Use VolumeViewerPanel.state() instead. Get a copy of the current ViewerState.
getStitchBuffer() - Method in class bvv.core.dither.DitherBuffer
getTexColorBuffer() - Method in class bvv.core.offscreen.OffScreenFrameBuffer
getTexture(GL3) - Method in class bvv.core.offscreen.OffScreenFrameBuffer
getTexture(GL3) - Method in class bvv.core.offscreen.OffScreenFrameBufferWithDepth
getTextureCache() - Method in class bvv.core.render.VolumeBlocks
getTextureIdHack(Texture) - Method in class bvv.core.backend.jogl.JoglGpuContext
getTimepoint() - Method in class bvv.core.render.RenderData
getTransformBehaviours() - Method in class bvv.core.VolumeViewerFrame: Get Behaviours hook where TransformEventHandler behaviours are installed.
getTransformEventHandler() - Method in class bvv.core.VolumeViewerPanel
getTransformEventHandlerFactory() - Method in class bvv.core.VolumeViewerOptions.Values
getTriggerbindings() - Method in class bvv.core.VolumeViewerFrame
getTriggerbindings() - Method in class bvv.vistools.BvvHandle
getTriggerbindings() - Method in class bvv.vistools.BvvHandleFrame
getType() - Method in interface bvv.core.multires.Typed
getUniform1f(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform1f(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform1f(String) - Method in interface bvv.core.shadergen.Shader
getUniform1fv(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform1fv(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform1fv(String) - Method in interface bvv.core.shadergen.Shader
getUniform1i(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform1i(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform1i(String) - Method in interface bvv.core.shadergen.Shader
getUniform1iv(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform1iv(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform1iv(String) - Method in interface bvv.core.shadergen.Shader
getUniform2f(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform2f(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform2f(String) - Method in interface bvv.core.shadergen.Shader
getUniform2fv(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform2fv(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform2fv(String) - Method in interface bvv.core.shadergen.Shader
getUniform2i(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform2i(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform2i(String) - Method in interface bvv.core.shadergen.Shader
getUniform2iv(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform2iv(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform2iv(String) - Method in interface bvv.core.shadergen.Shader
getUniform3f(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform3f(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform3f(String) - Method in interface bvv.core.shadergen.Shader
getUniform3fv(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform3fv(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform3fv(String) - Method in interface bvv.core.shadergen.Shader
getUniform3i(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform3i(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform3i(String) - Method in interface bvv.core.shadergen.Shader
getUniform3iv(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform3iv(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform3iv(String) - Method in interface bvv.core.shadergen.Shader
getUniform4f(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform4f(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform4f(String) - Method in interface bvv.core.shadergen.Shader
getUniform4fv(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform4fv(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform4fv(String) - Method in interface bvv.core.shadergen.Shader
getUniform4i(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform4i(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform4i(String) - Method in interface bvv.core.shadergen.Shader
getUniform4iv(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniform4iv(String) - Method in class bvv.core.shadergen.AbstractShader
getUniform4iv(String) - Method in interface bvv.core.shadergen.Shader
getUniformMatrix3f(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniformMatrix3f(String) - Method in class bvv.core.shadergen.AbstractShader
getUniformMatrix3f(String) - Method in interface bvv.core.shadergen.Shader
getUniformMatrix4f(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniformMatrix4f(String) - Method in class bvv.core.shadergen.AbstractShader
getUniformMatrix4f(String) - Method in interface bvv.core.shadergen.Shader
getUniformSampler(Segment, String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUniformSampler(String) - Method in class bvv.core.shadergen.AbstractShader
getUniformSampler(String) - Method in interface bvv.core.shadergen.Shader
getUniformSetter(Shader) - Method in interface bvv.core.backend.GpuContext
getUniformSetter(Shader) - Method in class bvv.core.backend.jogl.JoglGpuContext
getUniqueName(String) - Method in class bvv.core.shadergen.AbstractShader
getUniqueName(String) - Method in class bvv.core.shadergen.DefaultShader
getUniqueName(String) - Method in class bvv.core.shadergen.generate.SegmentedShader
getUnusedSetupId(BigDataViewer) - Static method in class bvv.vistools.BvvFunctions
getUnusedSetupId(SetupAssignments) - Static method in class bvv.vistools.BvvFunctions
getVertexShaderCode() - Method in class bvv.core.shadergen.AbstractShader
getVertexShaderCode() - Method in interface bvv.core.shadergen.Shader
getViewer() - Method in class bvv.core.BigVolumeViewer
getViewerFrame() - Method in class bvv.core.BigVolumeViewer
getViewerPanel() - Method in class bvv.core.VolumeViewerFrame
getViewerPanel() - Method in class bvv.vistools.BvvHandle
getVisibilityAndGrouping() - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Modify VolumeViewerPanel.state() directly Returns the VisibilityAndGrouping that can be used to modify visibility and currentness of sources and groups, as well as grouping of sources, and display mode.
getVolumeSignatures() - Method in class bvv.core.render.VolumeShaderSignature
getVolumeTexture() - Method in class bvv.core.render.SimpleVolume
getVolumeViewerOptions() - Method in class bvv.vistools.BvvOptions.Values
getVoxelSizeInWorldCoordinates() - Method in class bvv.core.render.SimpleVolume: Get the size of a voxel in world coordinates.
getWeights(int, int, int, int, int, int, int, double, int[], int[]) - Static method in class bvv.core.dither.DitherPattern
getWidth() - Method in class bvv.core.InteractiveGLDisplayCanvas
getWidth() - Method in class bvv.core.offscreen.OffScreenFrameBuffer
getWidth() - Method in class bvv.core.offscreen.OffScreenFrameBufferWithDepth
getWidth() - Method in class bvv.core.VolumeViewerOptions.Values
GpuContext - Interface in bvv.core.backend
GridDataAccess<T> - Interface in bvv.core.blocks: Access to data at positions in a cell grid.
GridDataAccessImp - Class in bvv.core.blocks
GridDataAccessImp.Cells<T,A extends net.imglib2.img.basictypeaccess.array.ArrayDataAccess<?>> - Class in bvv.core.blocks: Access to primitive data of Cells in a CellImg.
GridDataAccessImp.VolatileCells<T,A extends net.imglib2.img.basictypeaccess.volatiles.VolatileArrayDataAccess<?>> - Class in bvv.core.blocks: Access to primitive data of volatile Cells in a CellImg.

H

hashCode() - Method in class bvv.core.cache.ImageBlockKey
hashCode() - Method in class bvv.core.render.VolumeShaderSignature
hashCode() - Method in class bvv.core.render.VolumeShaderSignature.VolumeSignature
hasPlaceHolderSources - Variable in class bvv.vistools.BvvHandle
hasPreferredSize() - Method in class bvv.vistools.BvvOptions.Values
height(int) - Method in class bvv.core.VolumeViewerOptions: Set height of VolumeViewerPanel canvas.
homogPlane(HyperPlane) - Static method in class bvv.core.util.MatrixMath
HotLoadingUtils - Class in bvv.core.util: Utility to support hot-loading shaders during development (e.g., when running from IDE).
HotLoadingUtils() - Constructor for class bvv.core.util.HotLoadingUtils
HotLoadingUtils.ShaderHotLoader - Class in bvv.core.util
hyperPlane(Vector4f) - Static method in class bvv.core.util.MatrixMath

I

image() - Method in class bvv.core.cache.ImageBlockKey
ImageBlockKey<T> - Class in bvv.core.cache: Identifies a particular block in a particular image.
ImageBlockKey(T, int[]) - Constructor for class bvv.core.cache.ImageBlockKey
ImageBlockKey(T, int, int, int) - Constructor for class bvv.core.cache.ImageBlockKey
imgSize(int) - Method in interface bvv.core.blocks.GridDataAccess: Get the image size in dimension d in pixels.
INCOMPLETE - bvv.core.cache.TextureCache.ContentState
init(int[]) - Method in class bvv.core.render.VolumeTextureRGBA8: Reinitialize.
init(int[]) - Method in class bvv.core.render.VolumeTextureU16: Reinitialize.
init(int[]) - Method in class bvv.core.render.VolumeTextureU8: Reinitialize.
init(int[], int[], int) - Method in class bvv.core.render.LookupTextureARGB: Reinitialize the lut data.
init(TextureCache.StagedTasks) - Method in class bvv.core.cache.PboChain: Initialize a new batch of cache tile uploads.
init(MultiResolutionStack3D<?>, TextureCache, int, Matrix4fc) - Method in class bvv.core.render.VolumeBlocks
init(GL3) - Method in class bvv.core.render.VolumeRenderer
init(Matrix4fc, int, List<? extends ResolutionLevel3D<?>>) - Method in class bvv.core.blockmath.MipmapSizes
inputTriggerConfig(InputTriggerConfig) - Method in class bvv.core.VolumeViewerOptions: Set the InputTriggerConfig from which keyboard and mouse action mapping is loaded.
inputTriggerConfig(InputTriggerConfig) - Method in class bvv.vistools.BvvOptions: Set the InputTriggerConfig from which keyboard and mouse action mapping is loaded.
insert(String, Segment...) - Method in class bvv.core.shadergen.generate.Segment
insert(String, Collection<Segment>) - Method in class bvv.core.shadergen.generate.Segment
install(Actions, BigVolumeViewer) - Static method in class bvv.core.BigVolumeViewerActions: Create BigVolumeViewer actions and install them in the specified Actions.
instantiate() - Method in class bvv.core.shadergen.generate.SegmentTemplate
InteractiveGLDisplayCanvas<C extends Component & com.jogamp.opengl.GLAutoDrawable> - Class in bvv.core: Wraps a Component (either GLJPanel or GLCanvas) that is used to display rendered images using JOGL.
InteractiveGLDisplayCanvas.CanvasSizeListener - Interface in bvv.core: Receive notifications about changes of the canvas size.
invalidate() - Method in class bvv.vistools.BvvStackSource
invalidate(Source<?>) - Static method in class bvv.core.multires.SourceStacks
isAbove(HyperPlane, double[]) - Static method in class bvv.core.blockmath.GeomUtils
isAbove(HyperPlane, RealLocalizable) - Static method in class bvv.core.blockmath.GeomUtils
isCurrent() - Method in class bvv.vistools.BvvSource
isCurrent() - Method in class bvv.vistools.BvvStackSource
isInside(ConvexPolytope, double[]) - Static method in class bvv.core.blockmath.GeomUtils
isInside(ConvexPolytope, RealLocalizable) - Static method in class bvv.core.blockmath.GeomUtils
isModified() - Method in class bvv.core.util.HotLoadingUtils.ShaderHotLoader
isPlaceHolderSource() - Method in class bvv.vistools.BvvSource
isPlaceHolderSource() - Method in class bvv.vistools.BvvStackSource
isSupportedType(Object) - Static method in class bvv.core.blocks.TileAccess
isVisible() - Method in class bvv.core.blockmath.MipmapSizes: Is any part of the volume visible?

J

JoglGpuContext - Class in bvv.core.backend.jogl
JoglSetUniforms - Class in bvv.core.backend.jogl

K

K - Variable in class bvv.core.dither.DitherPattern.DitherWeights
KeyConfigContexts - Interface in bvv.core: Constants that specify to what context an action or a behaviour applies.
KeyConfigScopes - Interface in bvv.core: The CommandDescription scope used for actions and behaviours defined in BigVolumeViewer
keymapManager(KeymapManager) - Method in class bvv.core.VolumeViewerOptions: Set the KeymapManager to share keymap settings with other BigVolumeViewer windows.

L

LINEAR - bvv.core.backend.Texture.MagFilter
LINEAR - bvv.core.backend.Texture.MinFilter
LOAD - bvv.core.render.VolumeRenderer.RepaintType
loadAndPatchSnippet(Class<?>, String, List<String>) - Static method in class bvv.core.shadergen.generate.StringTemplateUtils
loadSettings() - Method in class bvv.core.BigVolumeViewer
loadSettings(String) - Method in class bvv.core.BigVolumeViewer
loadTile(int[], UploadBuffer) - Method in class bvv.core.blocks.TileAccess: Load data for the tile at gridPos into buffer.
LookupTextureARGB - Class in bvv.core.render
LookupTextureARGB() - Constructor for class bvv.core.render.LookupTextureARGB

M

main(String[]) - Static method in class bvv.core.BigVolumeViewer
maintain(GpuContext) - Method in class bvv.core.cache.PboChain: Maps and unmaps Pbos and uploads to texture.
makeLut(int) - Method in class bvv.core.render.VolumeBlocks
makePattern(int, int, int[], int[]) - Static method in class bvv.core.dither.DitherPattern
makeShader(int) - Static method in class bvv.core.dither.DitherPattern
map(StagingBuffer) - Method in interface bvv.core.backend.GpuContext
map(StagingBuffer) - Method in class bvv.core.backend.jogl.JoglGpuContext
MatrixMath - Class in bvv.core.util
MAX - bvv.core.shadergen.MinMax
maxAllowedStepInVoxels(double) - Method in class bvv.core.VolumeViewerOptions
maxAllowedStepInVoxels(double) - Method in class bvv.vistools.BvvOptions
maxCacheSizeInMB(int) - Method in class bvv.core.VolumeViewerOptions: Sets the max memory to use for the GPU cache texture in MB.
maxCacheSizeInMB(int) - Method in class bvv.vistools.BvvOptions: Sets the max memory to use for the GPU cache texture in MB.
MaxDepth - bvv.core.shadergen.generate.SegmentType
maxRenderMillis - Variable in class bvv.core.VolumeViewerPanel
maxRenderMillis(int) - Method in class bvv.core.VolumeViewerOptions: Set target per-frame time in milliseconds.
maxRenderMillis(int) - Method in class bvv.vistools.BvvOptions: Set target per-frame time in milliseconds.
MIN - bvv.core.shadergen.MinMax
MinMax - Enum in bvv.core.shadergen
MipmapSizes - Class in bvv.core.blockmath
MipmapSizes() - Constructor for class bvv.core.blockmath.MipmapSizes
msgOverlay - Variable in class bvv.core.VolumeViewerPanel: Fade-out overlay of recent messages.
msgOverlay(MessageOverlayAnimator) - Method in class bvv.core.VolumeViewerOptions
MULTIRESOLUTION - bvv.core.multires.SourceStacks.SourceStackType
MultiResolutionStack3D<T> - Interface in bvv.core.multires: A 3D stack with multiple resolution levels.
MultiVolumeShaderMip - Class in bvv.core.render
MultiVolumeShaderMip(VolumeShaderSignature, boolean, double) - Constructor for class bvv.core.render.MultiVolumeShaderMip
MultiVolumeShaderMip(VolumeShaderSignature, boolean, double, Map<SegmentType, SegmentTemplate>, MultiVolumeShaderMip.SegmentConsumer, String) - Constructor for class bvv.core.render.MultiVolumeShaderMip
MultiVolumeShaderMip.SegmentConsumer - Interface in bvv.core.render: Functional interface to be able to use and integrate custom segments.

N

ndcTransform(int) - Method in class bvv.core.dither.DitherBuffer
NEAREST - bvv.core.backend.Texture.MagFilter
NEAREST - bvv.core.backend.Texture.MinFilter
nextTimePoint() - Method in class bvv.core.VolumeViewerPanel: Show the next time-point.
nextTimestamp() - Method in class bvv.core.cache.TextureCache
NONE - bvv.core.render.VolumeRenderer.RepaintType
numDimensions() - Method in interface bvv.core.multires.ResolutionLevel3D
numDimensions() - Method in interface bvv.core.multires.Stack3D
numDitherSamples(int) - Method in class bvv.core.VolumeViewerOptions: Sets the number of dither samples.
numDitherSamples(int) - Method in class bvv.vistools.BvvOptions: Sets the number of dither samples.
numSourceGroups(int) - Method in class bvv.core.VolumeViewerOptions: Set how many source groups there are initially.
numSourceGroups(int) - Method in class bvv.vistools.BvvOptions: Set how many source groups there are initially.
numSteps() - Method in class bvv.core.dither.DitherBuffer
numVolumes() - Method in class bvv.core.render.VolumeShaderSignature

O

offscreen - Variable in class bvv.core.VolumeViewerPanel
OffScreenFrameBuffer - Class in bvv.core.offscreen: Render to texture.
OffScreenFrameBuffer(int, int) - Constructor for class bvv.core.offscreen.OffScreenFrameBuffer: Use GL_RGB32F as internalFormat.
OffScreenFrameBuffer(int, int, int) - Constructor for class bvv.core.offscreen.OffScreenFrameBuffer
OffScreenFrameBuffer(int, int, int, boolean, boolean) - Constructor for class bvv.core.offscreen.OffScreenFrameBuffer
OffScreenFrameBufferWithDepth - Class in bvv.core.offscreen: Render to texture.
OffScreenFrameBufferWithDepth(int, int) - Constructor for class bvv.core.offscreen.OffScreenFrameBufferWithDepth: Use GL_RGB32F as internalFormat.
OffScreenFrameBufferWithDepth(int, int, int) - Constructor for class bvv.core.offscreen.OffScreenFrameBufferWithDepth
onMouseMoved() - Method in class bvv.core.VolumeViewerPanel
options - Variable in class bvv.core.VolumeViewerPanel
options() - Static method in class bvv.core.VolumeViewerOptions: Create default VolumeViewerOptions.
options() - Static method in interface bvv.vistools.Bvv
options() - Static method in class bvv.vistools.BvvOptions: Create default BvvOptions.
optionsFromValues() - Method in class bvv.core.VolumeViewerOptions.Values
optionsFromValues() - Method in class bvv.vistools.BvvOptions.Values
origNumTimepoints - Variable in class bvv.vistools.BvvHandle
overlays() - Method in class bvv.core.InteractiveGLDisplayCanvas

P

paddedBlockSize() - Method in class bvv.core.cache.CacheSpec: Get the size of a padded block.
padOffset() - Method in class bvv.core.cache.CacheSpec: Get the offset in a padded block, where the (actual, unpadded) block data starts.
paint() - Method in class bvv.core.VolumeViewerPanel
painterThread - Variable in class bvv.core.VolumeViewerPanel: Thread that triggers repainting of the display.
parallel(TextureCache, PboChain, GpuContext, ForkJoinPool, Collection<? extends FillTask>) - Static method in class bvv.core.cache.ProcessFillTasks
PboChain - Class in bvv.core.cache
PboChain(int, int, TextureCache) - Constructor for class bvv.core.cache.PboChain
perspective(double, double, double, double, double, double, Matrix4f) - Static method in class bvv.core.util.MatrixMath: Setup projection frustum transformation such that the (BDV) screen plane at distance dCam exactly touches the frustum sides.
pos() - Method in class bvv.core.cache.ImageBlockKey
pos(int) - Method in class bvv.core.cache.ImageBlockKey
pos(int[]) - Method in class bvv.core.cache.ImageBlockKey
preferredSize(int, int) - Method in class bvv.vistools.BvvOptions: Set preferred size of ViewerPanel canvas.
previousTimePoint() - Method in class bvv.core.VolumeViewerPanel: Show the previous time-point.
ProcessFillTasks - Class in bvv.core.cache
ProcessFillTasks() - Constructor for class bvv.core.cache.ProcessFillTasks
putTile(int[], TextureCache.Tile, int) - Method in class bvv.core.render.LookupTextureARGB

R

R16 - bvv.core.backend.Texture.InternalFormat
R32F - bvv.core.backend.Texture.InternalFormat
R8 - bvv.core.backend.Texture.InternalFormat
ready() - Method in class bvv.core.cache.PboChain
registerCustomSampler(int, String, Texture) - Method in class bvv.core.render.MultiVolumeShaderMip: Deprecated.
replace by setUniform( index, name, texture )
registerTexture(Texture, int) - Method in class bvv.core.backend.jogl.JoglGpuContext
removeAllSources() - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Modify VolumeViewerPanel.state() directly
removeCustomUniformForVolume(int, String) - Method in class bvv.core.render.MultiVolumeShaderMip: Deprecated.
removeFromBdv() - Method in class bvv.vistools.BvvSource
removeFromBdv() - Method in class bvv.vistools.BvvStackSource
removeGroup(SourceGroup) - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Modify VolumeViewerPanel.state() directly
removeHandler(Object) - Method in class bvv.core.InteractiveGLDisplayCanvas: Remove an event handler.
removeSource(Source<?>) - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Modify VolumeViewerPanel.state() directly
removeSources(Collection<Source<?>>) - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Modify VolumeViewerPanel.state() directly
removeTimePointListener(TimePointListener) - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Use timePointListeners().remove( listener ).
render(GL3, RenderData) - Method in interface bvv.core.VolumeViewerPanel.RenderScene
RenderData - Class in bvv.core.render
RenderData() - Constructor for class bvv.core.render.RenderData
RenderData(Matrix4fc, int, AffineTransform3D, double, double, double, double, double) - Constructor for class bvv.core.render.RenderData
renderer - Variable in class bvv.core.VolumeViewerPanel: Renders the current state to gl context.
renderHeight(int) - Method in class bvv.core.VolumeViewerOptions: Sets the height of offscreen canvas.
renderHeight(int) - Method in class bvv.vistools.BvvOptions: Sets the height of offscreen canvas.
renderTransformListeners() - Method in class bvv.core.VolumeViewerPanel: Add/remove TransformListeners to notify about viewer transformation changes.
renderWidth(int) - Method in class bvv.core.VolumeViewerOptions: Sets the width of offscreen canvas.
renderWidth(int) - Method in class bvv.vistools.BvvOptions: Sets the width of offscreen canvas.
repeat(String, int) - Method in class bvv.core.shadergen.generate.Segment
repeat(List<String>, int) - Method in class bvv.core.shadergen.generate.Segment
REPEAT - bvv.core.backend.Texture.Wrap
requestFocusInWindow() - Method in class bvv.core.InteractiveGLDisplayCanvas
requestRepaint() - Method in class bvv.core.VolumeViewerPanel: Repaint as soon as possible.
requestRepaint(VolumeRenderer.RepaintType) - Method in class bvv.core.VolumeViewerPanel
RequiredBlock - Class in bvv.core.blockmath
RequiredBlock(int[], int) - Constructor for class bvv.core.blockmath.RequiredBlock
RequiredBlocks - Class in bvv.core.blockmath
RequiredBlocks(int) - Constructor for class bvv.core.blockmath.RequiredBlocks
ResolutionLevel3D<T> - Interface in bvv.core.multires: One resolution level of a MultiResolutionStack3D
resolutions() - Method in interface bvv.core.multires.MultiResolutionStack3D: Returns the list of all resolution levels.
RGBA8 - bvv.core.backend.Texture.InternalFormat
RGBA8UI - bvv.core.backend.Texture.InternalFormat
run() - Method in class bvv.core.BigVolumeViewerCommand
run(String, int, int, int, int, int, int, int, int, double, double) - Static method in class bvv.core.BigVolumeViewer

S

SampleMultiresolutionVolume - bvv.core.shadergen.generate.SegmentType
SampleRGBAVolume - bvv.core.shadergen.generate.SegmentType
SampleVolume - bvv.core.shadergen.generate.SegmentType
saveSettings() - Method in class bvv.core.BigVolumeViewer
saveSettings(String) - Method in class bvv.core.BigVolumeViewer
scaleClippingPolytope(ConvexPolytope, int[]) - Static method in class bvv.core.blockmath.FindRequiredBlocks: Creates a clipping polytope in grid space from clip by scaling with inverse blockSize.
SCENE - bvv.core.render.VolumeRenderer.RepaintType
sceneBuf - Variable in class bvv.core.VolumeViewerPanel
screen(double, double, double, Matrix4f) - Static method in class bvv.core.util.MatrixMath: Set matrix to the "bdv screen transformation": translate the origin from the upper-left corner to the center of the screen (in XY). translate the origin back from the screen by dCam in Z This corresponds to a camera in front of the screen, looking at (the center of) the (BDV) screen plane.
screenPerspective(double, double, double, double, double, double, Matrix4f) - Static method in class bvv.core.util.MatrixMath: Setup view and projection frustum transformation such that a camera looks at (the center of) the (BDV) screen plane.
screenPerspective(double, double, double, double, double, Matrix4f) - Static method in class bvv.core.util.MatrixMath: Setup view and projection frustum transformation such that a camera looks at (the center of) the (BDV) screen plane.
Segment - Class in bvv.core.shadergen.generate
SegmentedShader - Class in bvv.core.shadergen.generate
SegmentedShaderBuilder - Class in bvv.core.shadergen.generate
SegmentedShaderBuilder() - Constructor for class bvv.core.shadergen.generate.SegmentedShaderBuilder
SegmentTemplate - Class in bvv.core.shadergen.generate
SegmentTemplate(Class<?>, String, String...) - Constructor for class bvv.core.shadergen.generate.SegmentTemplate
SegmentTemplate(Class<?>, String, List<String>) - Constructor for class bvv.core.shadergen.generate.SegmentTemplate
SegmentTemplate(String, String...) - Constructor for class bvv.core.shadergen.generate.SegmentTemplate
SegmentTemplate(String, List<String>) - Constructor for class bvv.core.shadergen.generate.SegmentTemplate
SegmentType - Enum in bvv.core.shadergen.generate
sequential(TextureCache, PboChain, GpuContext, Collection<? extends FillTask>) - Static method in class bvv.core.cache.ProcessFillTasks
set(float) - Method in interface bvv.core.shadergen.Uniform1f
set(float[]) - Method in interface bvv.core.shadergen.Uniform1fv
set(float[]) - Method in interface bvv.core.shadergen.Uniform2fv
set(float[]) - Method in interface bvv.core.shadergen.Uniform3fv
set(float[]) - Method in interface bvv.core.shadergen.Uniform4fv
set(float[][]) - Method in interface bvv.core.shadergen.Uniform2fv
set(float[][]) - Method in interface bvv.core.shadergen.Uniform3fv
set(float[][]) - Method in interface bvv.core.shadergen.Uniform4fv
set(float, float) - Method in interface bvv.core.shadergen.Uniform2f
set(float, float, float) - Method in interface bvv.core.shadergen.Uniform3f
set(float, float, float, float) - Method in interface bvv.core.shadergen.Uniform4f
set(int) - Method in interface bvv.core.shadergen.Uniform1i
set(int[]) - Method in interface bvv.core.shadergen.Uniform1iv
set(int[]) - Method in interface bvv.core.shadergen.Uniform2iv
set(int[]) - Method in interface bvv.core.shadergen.Uniform3iv
set(int[]) - Method in interface bvv.core.shadergen.Uniform4iv
set(int[][]) - Method in interface bvv.core.shadergen.Uniform1iv
set(int[][]) - Method in interface bvv.core.shadergen.Uniform2iv
set(int[][]) - Method in interface bvv.core.shadergen.Uniform3iv
set(int[][]) - Method in interface bvv.core.shadergen.Uniform4iv
set(int, int) - Method in interface bvv.core.shadergen.Uniform2i
set(int, int, int) - Method in interface bvv.core.shadergen.Uniform3i
set(int, int, int, int) - Method in interface bvv.core.shadergen.Uniform4i
set(Texture) - Method in interface bvv.core.shadergen.UniformSampler
set(RenderData) - Method in class bvv.core.render.RenderData
set(RealInterval, MinMax) - Method in interface bvv.core.shadergen.Uniform2f
set(RealInterval, MinMax) - Method in interface bvv.core.shadergen.Uniform3f
set(RealInterval, MinMax) - Method in interface bvv.core.shadergen.Uniform4f
set(Matrix3fc) - Method in interface bvv.core.shadergen.UniformMatrix3f
set(Matrix4fc) - Method in interface bvv.core.shadergen.UniformMatrix4f
set(Vector2fc) - Method in interface bvv.core.shadergen.Uniform2f
set(Vector2ic) - Method in interface bvv.core.shadergen.Uniform2i
set(Vector3fc) - Method in interface bvv.core.shadergen.Uniform3f
set(Vector3ic) - Method in interface bvv.core.shadergen.Uniform3i
set(Vector4fc) - Method in interface bvv.core.shadergen.Uniform4f
set(Vector4ic) - Method in interface bvv.core.shadergen.Uniform4i
setActive(boolean) - Method in class bvv.vistools.BvvSource
setActive(boolean) - Method in class bvv.vistools.BvvStackSource
setBaseLevel(int) - Method in class bvv.core.render.VolumeBlocks: Set the base resolution level for rendering the volume.
setBdvHandle(BvvHandle) - Method in class bvv.vistools.BvvSource
setBestLevel(int) - Method in class bvv.core.blockmath.RequiredBlock
setBytes(byte, long, long) - Static method in class bvv.core.blocks.ByteUtils
setCamParams(double, double) - Method in class bvv.core.VolumeViewerPanel
setCamParams(double, double, double) - Method in class bvv.core.VolumeViewerPanel
setCanvasSize(int, int) - Method in interface bvv.core.InteractiveGLDisplayCanvas.CanvasSizeListener: This is called, when the screen size of the canvas (the component displaying the image and generating mouse events) changes.
setCanvasSize(int, int) - Method in class bvv.core.VolumeViewerPanel
setColor(ARGBType) - Method in class bvv.vistools.BvvSource
setColor(ARGBType) - Method in class bvv.vistools.BvvStackSource
setContentState(TextureCache.ContentState) - Method in class bvv.core.cache.UploadBuffer: Called by FillTask to say whether stored image block data was complete.
setConverter(int, ConverterSetup) - Method in class bvv.core.render.MultiVolumeShaderMip
setCurrent() - Method in class bvv.vistools.BvvSource
setCurrent() - Method in class bvv.vistools.BvvStackSource
setCurrentViewerTransform(AffineTransform3D) - Method in class bvv.core.VolumeViewerPanel: Deprecated.
Modify VolumeViewerPanel.state() directly (state().setViewerTransform(t))
setCustomFloatArrayUniformForVolume(int, String, int, float[]) - Method in class bvv.core.render.MultiVolumeShaderMip: Deprecated.
replace by setUniform( index, name, elementSize, value )
setCustomIntArrayUniformForVolume(int, String, int, int[]) - Method in class bvv.core.render.MultiVolumeShaderMip: Deprecated.
replace by setUniform( index, name, elementSize, value )
setCustomUniformForVolume(int, String, Object) - Method in class bvv.core.render.MultiVolumeShaderMip: Deprecated.
replace by setUniform( index, name, value )
setDegrade(Double) - Method in class bvv.core.render.MultiVolumeShaderMip: Note that this will only take effect after MultiVolumeShaderMip.setProjectionViewMatrix(Matrix4fc, double)
setDepthTexture(Texture2D) - Method in class bvv.core.render.MultiVolumeShaderMip
setDepthTextureName(String) - Method in class bvv.core.render.MultiVolumeShaderMip
setDisplayMode(DisplayMode) - Method in class bvv.core.VolumeViewerPanel: Set the DisplayMode.
setDisplayRange(double, double) - Method in class bvv.vistools.BvvSource
setDisplayRange(double, double) - Method in class bvv.vistools.BvvStackSource
setDisplayRangeBounds(double, double) - Method in class bvv.vistools.BvvSource
setDisplayRangeBounds(double, double) - Method in class bvv.vistools.BvvStackSource
setDither(DitherBuffer, int) - Method in class bvv.core.render.MultiVolumeShaderMip
setEffectiveViewportSize(int, int) - Method in class bvv.core.render.MultiVolumeShaderMip
setMaxAllowedStepInVoxels(double) - Method in class bvv.core.VolumeViewerPanel
setNumTimepoints(int) - Method in class bvv.core.VolumeViewerPanel: Set the number of available timepoints.
setPosition(int[]) - Method in interface bvv.core.blocks.GridDataAccess
setPosition(int, int) - Method in interface bvv.core.blocks.GridDataAccess
setProjectionViewMatrix(Matrix4fc, double) - Method in class bvv.core.render.MultiVolumeShaderMip
setRenderScene(VolumeViewerPanel.RenderScene) - Method in class bvv.core.VolumeViewerPanel
setShorts(short, long, long) - Static method in class bvv.core.blocks.ByteUtils
setSourceStackType(Source<?>, SourceStacks.SourceStackType) - Static method in class bvv.core.multires.SourceStacks
setTimepoint(int) - Method in class bvv.core.VolumeViewerPanel: Show the specified time-point.
setTransformAnimator(AbstractTransformAnimator) - Method in class bvv.core.VolumeViewerPanel
setTransformEventHandler(TransformEventHandler) - Method in class bvv.core.InteractiveGLDisplayCanvas: Set the TransformEventHandler that will be notified when component is resized.
setUniform(int, String, int, Object) - Method in class bvv.core.render.MultiVolumeShaderMip: Set uniform array name to the given value, where the uniform type is inferred from the type of value.
setUniform(int, String, Object) - Method in class bvv.core.render.MultiVolumeShaderMip: Set uniform name to the given value, where the uniform type is inferred from the type of value.
setUniform1f(String, float) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform1f(String, float) - Method in interface bvv.core.backend.SetUniforms
setUniform1fv(String, int, float[]) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform1fv(String, int, float[]) - Method in interface bvv.core.backend.SetUniforms
setUniform1i(String, int) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform1i(String, int) - Method in interface bvv.core.backend.SetUniforms
setUniform1iv(String, int, int[]) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform1iv(String, int, int[]) - Method in interface bvv.core.backend.SetUniforms
setUniform2f(String, float, float) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform2f(String, float, float) - Method in interface bvv.core.backend.SetUniforms
setUniform2fv(String, int, float[]) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform2fv(String, int, float[]) - Method in interface bvv.core.backend.SetUniforms
setUniform2i(String, int, int) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform2i(String, int, int) - Method in interface bvv.core.backend.SetUniforms
setUniform2iv(String, int, int[]) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform2iv(String, int, int[]) - Method in interface bvv.core.backend.SetUniforms
setUniform3f(String, float, float, float) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform3f(String, float, float, float) - Method in interface bvv.core.backend.SetUniforms
setUniform3fv(String, int, float[]) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform3fv(String, int, float[]) - Method in interface bvv.core.backend.SetUniforms
setUniform3i(String, int, int, int) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform3i(String, int, int, int) - Method in interface bvv.core.backend.SetUniforms
setUniform3iv(String, int, int[]) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform3iv(String, int, int[]) - Method in interface bvv.core.backend.SetUniforms
setUniform4f(String, float, float, float, float) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform4f(String, float, float, float, float) - Method in interface bvv.core.backend.SetUniforms
setUniform4fv(String, int, float[]) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform4fv(String, int, float[]) - Method in interface bvv.core.backend.SetUniforms
setUniform4i(String, int, int, int, int) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform4i(String, int, int, int, int) - Method in interface bvv.core.backend.SetUniforms
setUniform4iv(String, int, int[]) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniform4iv(String, int, int[]) - Method in interface bvv.core.backend.SetUniforms
setUniformMatrix3f(String, boolean, FloatBuffer) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniformMatrix3f(String, boolean, FloatBuffer) - Method in interface bvv.core.backend.SetUniforms
setUniformMatrix4f(String, boolean, FloatBuffer) - Method in class bvv.core.backend.jogl.JoglSetUniforms
setUniformMatrix4f(String, boolean, FloatBuffer) - Method in interface bvv.core.backend.SetUniforms
setUniforms(GpuContext) - Method in class bvv.core.render.MultiVolumeShaderMip
setUniforms(GpuContext) - Method in class bvv.core.shadergen.AbstractShader
setUniforms(GpuContext) - Method in interface bvv.core.shadergen.Shader
SetUniforms - Interface in bvv.core.backend
setUniformValueByType(Segment, String, int, Object) - Method in class bvv.core.shadergen.generate.SegmentedShader: (added for use by scenery)
setUniformValueByType(Segment, String, Object) - Method in class bvv.core.shadergen.generate.SegmentedShader: (added for use by scenery)
setupAssignments - Variable in class bvv.vistools.BvvHandle
setupId(int) - Method in class bvv.core.multires.SpimDataStacks
setupId(int) - Method in interface bvv.core.multires.Stacks
setups - Variable in class bvv.vistools.BvvHandle
setViewportWidth(int) - Method in class bvv.core.render.MultiVolumeShaderMip
setVolume(int, SimpleVolume) - Method in class bvv.core.render.MultiVolumeShaderMip
setVolume(int, VolumeBlocks) - Method in class bvv.core.render.MultiVolumeShaderMip
Shader - Interface in bvv.core.shadergen
ShaderHotLoader(boolean, String...) - Constructor for class bvv.core.util.HotLoadingUtils.ShaderHotLoader
ShaderHotLoader(String...) - Constructor for class bvv.core.util.HotLoadingUtils.ShaderHotLoader
shareKeyPressedEvents(KeyPressedManager) - Method in class bvv.core.VolumeViewerOptions: Set the KeyPressedManager to share KeyListener.keyPressed(java.awt.event.KeyEvent) events with other ui-behaviour windows.
ShortToAddress() - Constructor for class bvv.core.blocks.CopySubArrayImp.ShortToAddress
shouldSet(boolean) - Method in class bvv.core.backend.jogl.JoglSetUniforms
shouldSet(boolean) - Method in interface bvv.core.backend.SetUniforms
show(Source<T>) - Static method in class bvv.vistools.BvvFunctions
show(Source<T>, int) - Static method in class bvv.vistools.BvvFunctions
show(Source<T>, int, BvvOptions) - Static method in class bvv.vistools.BvvFunctions
show(Source<T>, BvvOptions) - Static method in class bvv.vistools.BvvFunctions
show(SourceAndConverter<T>) - Static method in class bvv.vistools.BvvFunctions
show(SourceAndConverter<T>, int) - Static method in class bvv.vistools.BvvFunctions
show(SourceAndConverter<T>, int, BvvOptions) - Static method in class bvv.vistools.BvvFunctions
show(SourceAndConverter<T>, BvvOptions) - Static method in class bvv.vistools.BvvFunctions
show(BvvOptions) - Static method in class bvv.vistools.BvvFunctions
show(AbstractSpimData<?>) - Static method in class bvv.vistools.BvvFunctions
show(AbstractSpimData<?>, BvvOptions) - Static method in class bvv.vistools.BvvFunctions
show(RandomAccessibleInterval<T>, String) - Static method in class bvv.vistools.BvvFunctions
show(RandomAccessibleInterval<T>, String, BvvOptions) - Static method in class bvv.vistools.BvvFunctions
showMessage(String) - Method in class bvv.core.VolumeViewerPanel: Display the specified message in a text overlay for a short time.
shrinkClippingPolytope(ConvexPolytope, int[]) - Static method in class bvv.core.blockmath.FindRequiredBlocks: Creates a new clipping polytope by shifting the planes of clip such that we only have to check the (0, 0) corner of cells.
signedDistance(HyperPlane, double[]) - Static method in class bvv.core.blockmath.GeomUtils
signedDistance(HyperPlane, RealLocalizable) - Static method in class bvv.core.blockmath.GeomUtils
SIMPLE - bvv.core.multires.SourceStacks.SourceStackType
SimpleStack3D<T> - Interface in bvv.core.multires: A simple 3D stack (not multi-resolution)
SimpleStackManager - Interface in bvv.core.render
SimpleVolume - Class in bvv.core.render: TODO
SimpleVolume(Texture3D, AffineTransform3D, Vector3f, Vector3f) - Constructor for class bvv.core.render.SimpleVolume
sliderTime - Variable in class bvv.core.VolumeViewerPanel
SourceStacks - Class in bvv.core.multires
SourceStacks() - Constructor for class bvv.core.multires.SourceStacks
SourceStacks.SourceStackType - Enum in bvv.core.multires
sourceTransform(double...) - Method in class bvv.vistools.BvvOptions: Set the transform of the BdvSource to be created to account for the given calibration (scaling of the source axes).
sourceTransform(AffineTransform3D) - Method in class bvv.vistools.BvvOptions: Set the transform of the BdvSource to be created.
spec() - Method in class bvv.core.cache.TextureCache
SpimDataStacks - Class in bvv.core.multires
SpimDataStacks(AbstractSpimData<?>) - Constructor for class bvv.core.multires.SpimDataStacks
splitPanel - Variable in class bvv.vistools.BvvHandle
spo - Variable in class bvv.core.dither.DitherPattern.DitherWeights
Stack3D<T> - Interface in bvv.core.multires: A 3D stack (simple or multi-resolution)
Stacks - Interface in bvv.core.multires
StagingBuffer - Interface in bvv.core.backend: Handle to a staging buffer for texture data.
state() - Method in class bvv.core.cache.TextureCache.Tile
state() - Method in class bvv.core.VolumeViewerPanel: Get the ViewerState.
stateFromXml(Element) - Method in class bvv.core.VolumeViewerPanel
stateToXml() - Method in class bvv.core.VolumeViewerPanel
stop() - Method in class bvv.core.VolumeViewerPanel: Stop the VolumeViewerPanel.painterThread.
StringTemplateUtils - Class in bvv.core.shadergen.generate
StringTemplateUtils() - Constructor for class bvv.core.shadergen.generate.StringTemplateUtils

T

texDepth() - Method in interface bvv.core.backend.Texture
texDepth() - Method in interface bvv.core.backend.Texture2D
texDepth() - Method in class bvv.core.cache.TextureCache
texDepth() - Method in class bvv.core.render.LookupTextureARGB
texDepth() - Method in class bvv.core.render.VolumeTextureRGBA8
texDepth() - Method in class bvv.core.render.VolumeTextureU16
texDepth() - Method in class bvv.core.render.VolumeTextureU8
texDims() - Method in interface bvv.core.backend.Texture
texDims() - Method in interface bvv.core.backend.Texture2D
texDims() - Method in interface bvv.core.backend.Texture3D
texHeight() - Method in interface bvv.core.backend.Texture
texHeight() - Method in class bvv.core.cache.TextureCache
texHeight() - Method in class bvv.core.render.LookupTextureARGB
texHeight() - Method in class bvv.core.render.VolumeTextureRGBA8
texHeight() - Method in class bvv.core.render.VolumeTextureU16
texHeight() - Method in class bvv.core.render.VolumeTextureU8
texInternalFormat() - Method in interface bvv.core.backend.Texture
texInternalFormat() - Method in class bvv.core.cache.TextureCache
texInternalFormat() - Method in class bvv.core.render.LookupTextureARGB
texInternalFormat() - Method in class bvv.core.render.VolumeTextureRGBA8
texInternalFormat() - Method in class bvv.core.render.VolumeTextureU16
texInternalFormat() - Method in class bvv.core.render.VolumeTextureU8
texMagFilter() - Method in interface bvv.core.backend.Texture
texMagFilter() - Method in class bvv.core.cache.TextureCache
texMagFilter() - Method in class bvv.core.render.LookupTextureARGB
texMagFilter() - Method in class bvv.core.render.VolumeTextureRGBA8
texMagFilter() - Method in class bvv.core.render.VolumeTextureU16
texMagFilter() - Method in class bvv.core.render.VolumeTextureU8
texMinFilter() - Method in interface bvv.core.backend.Texture
texMinFilter() - Method in class bvv.core.cache.TextureCache
texMinFilter() - Method in class bvv.core.render.LookupTextureARGB
texMinFilter() - Method in class bvv.core.render.VolumeTextureRGBA8
texMinFilter() - Method in class bvv.core.render.VolumeTextureU16
texMinFilter() - Method in class bvv.core.render.VolumeTextureU8
texSubImage3D(StagingBuffer, Texture3D, int, int, int, int, int, int, long) - Method in interface bvv.core.backend.GpuContext
texSubImage3D(StagingBuffer, Texture3D, int, int, int, int, int, int, long) - Method in class bvv.core.backend.jogl.JoglGpuContext
texSubImage3D(Texture3D, int, int, int, int, int, int, Buffer) - Method in interface bvv.core.backend.GpuContext
texSubImage3D(Texture3D, int, int, int, int, int, int, Buffer) - Method in class bvv.core.backend.jogl.JoglGpuContext
Texture - Interface in bvv.core.backend
Texture.InternalFormat - Enum in bvv.core.backend
Texture.MagFilter - Enum in bvv.core.backend
Texture.MinFilter - Enum in bvv.core.backend
Texture.Wrap - Enum in bvv.core.backend
Texture2D - Interface in bvv.core.backend
Texture3D - Interface in bvv.core.backend
TextureCache - Class in bvv.core.cache: Not thread-safe.
TextureCache(int[], CacheSpec) - Constructor for class bvv.core.cache.TextureCache
TextureCache.ContentState - Enum in bvv.core.cache
TextureCache.Tile - Class in bvv.core.cache
texWidth() - Method in interface bvv.core.backend.Texture
texWidth() - Method in class bvv.core.cache.TextureCache
texWidth() - Method in class bvv.core.render.LookupTextureARGB
texWidth() - Method in class bvv.core.render.VolumeTextureRGBA8
texWidth() - Method in class bvv.core.render.VolumeTextureU16
texWidth() - Method in class bvv.core.render.VolumeTextureU8
texWrap() - Method in interface bvv.core.backend.Texture
texWrap() - Method in class bvv.core.cache.TextureCache
texWrap() - Method in class bvv.core.render.LookupTextureARGB
texWrap() - Method in class bvv.core.render.VolumeTextureRGBA8
texWrap() - Method in class bvv.core.render.VolumeTextureU16
texWrap() - Method in class bvv.core.render.VolumeTextureU8
threadGroup - Variable in class bvv.core.VolumeViewerPanel: A ThreadGroup for (only) the threads used by this ViewerPanel, that is, at the moment only VolumeViewerPanel.painterThread.
TileAccess<S> - Class in bvv.core.blocks: Copy blocks from a ResolutionLevel3D source to an UploadBuffer.
TileAccess(GridDataAccess<S>, CopySubArray<S, ByteUtils.Address>, CacheSpec) - Constructor for class bvv.core.blocks.TileAccess
TileAccess.Cache - Class in bvv.core.blocks: Thread-local weak cache for TileAccess to avoid creating too many of them.
timepointId(int) - Method in class bvv.core.multires.SpimDataStacks
timepointId(int) - Method in interface bvv.core.multires.Stacks
timePointListeners() - Method in class bvv.core.VolumeViewerPanel: Add/remove TimePointListener to notify about time-point changes.
toString() - Method in class bvv.core.blockmath.RequiredBlocks
toString(ConvexPolytope) - Static method in class bvv.core.blockmath.GeomUtils
toString(HyperPlane) - Static method in class bvv.core.blockmath.GeomUtils
transformEventHandlerFactory(TransformEventHandlerFactory) - Method in class bvv.core.VolumeViewerOptions
transformListeners() - Method in class bvv.core.VolumeViewerPanel: Add/remove TransformListeners to notify about viewer transformation changes.
tryActivate(GpuContext) - Method in class bvv.core.cache.PboChain: Activate next Pbo if necessary and possible.
tryInitTransform() - Method in class bvv.vistools.BvvHandle
tryLoadSettings(String) - Method in class bvv.core.BigVolumeViewer
tryUpload(GpuContext) - Method in class bvv.core.cache.PboChain: Unmap and upload next Pbo if necessary.
Typed<T> - Interface in bvv.core.multires

U

UBYTE - bvv.core.render.VolumeShaderSignature.PixelType
unbind(GL3) - Method in class bvv.core.dither.DitherBuffer
unbind(GL3) - Method in class bvv.core.offscreen.OffScreenFrameBuffer: Unbind this framebuffer (bind framebuffer 0) and download the texture into a float array.
unbind(GL3) - Method in class bvv.core.offscreen.OffScreenFrameBufferWithDepth: Unbind this framebuffer (bind framebuffer 0) and download the texture into a float array.
unbind(GL3, boolean) - Method in class bvv.core.offscreen.OffScreenFrameBuffer
unbind(GL3, boolean) - Method in class bvv.core.offscreen.OffScreenFrameBufferWithDepth
UNDEFINED - bvv.core.multires.SourceStacks.SourceStackType
Uniform1f - Interface in bvv.core.shadergen
Uniform1fv - Interface in bvv.core.shadergen
Uniform1i - Interface in bvv.core.shadergen
Uniform1iv - Interface in bvv.core.shadergen
Uniform2f - Interface in bvv.core.shadergen
Uniform2fv - Interface in bvv.core.shadergen
Uniform2i - Interface in bvv.core.shadergen
Uniform2iv - Interface in bvv.core.shadergen
Uniform3f - Interface in bvv.core.shadergen
Uniform3fv - Interface in bvv.core.shadergen
Uniform3i - Interface in bvv.core.shadergen
Uniform3iv - Interface in bvv.core.shadergen
Uniform4f - Interface in bvv.core.shadergen
Uniform4fv - Interface in bvv.core.shadergen
Uniform4i - Interface in bvv.core.shadergen
Uniform4iv - Interface in bvv.core.shadergen
UniformMatrix3f - Interface in bvv.core.shadergen
UniformMatrix4f - Interface in bvv.core.shadergen
UniformSampler - Interface in bvv.core.shadergen
UNKNOWN - bvv.core.backend.Texture.InternalFormat
unmap(StagingBuffer) - Method in interface bvv.core.backend.GpuContext
unmap(StagingBuffer) - Method in class bvv.core.backend.jogl.JoglGpuContext
upload(GpuContext) - Method in class bvv.core.render.LookupTextureARGB
upload(GpuContext, Buffer) - Method in class bvv.core.render.VolumeTextureRGBA8
upload(GpuContext, Buffer) - Method in class bvv.core.render.VolumeTextureU16
upload(GpuContext, Buffer) - Method in class bvv.core.render.VolumeTextureU8
UploadBuffer - Class in bvv.core.cache
UploadBuffer(Buffer, int) - Constructor for class bvv.core.cache.UploadBuffer
use(GpuContext) - Method in class bvv.core.render.MultiVolumeShaderMip
use(GpuContext) - Method in class bvv.core.shadergen.AbstractShader
use(GpuContext) - Method in interface bvv.core.shadergen.Shader
use(Shader) - Method in interface bvv.core.backend.GpuContext
use(Shader) - Method in class bvv.core.backend.jogl.JoglGpuContext
useAtTimestamp(int) - Method in class bvv.core.cache.TextureCache.Tile
USHORT - bvv.core.render.VolumeShaderSignature.PixelType

V

valueOf(String) - Static method in enum bvv.core.backend.Texture.InternalFormat: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum bvv.core.backend.Texture.MagFilter: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum bvv.core.backend.Texture.MinFilter: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum bvv.core.backend.Texture.Wrap: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum bvv.core.cache.TextureCache.ContentState: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum bvv.core.multires.DownSamplingScheme: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum bvv.core.multires.SourceStacks.SourceStackType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum bvv.core.render.VolumeRenderer.RepaintType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum bvv.core.render.VolumeShaderSignature.PixelType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum bvv.core.shadergen.generate.SegmentType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum bvv.core.shadergen.MinMax: Returns the enum constant of this type with the specified name.
values - Variable in class bvv.core.VolumeViewerOptions
values - Variable in class bvv.vistools.BvvOptions
values() - Static method in enum bvv.core.backend.Texture.InternalFormat: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum bvv.core.backend.Texture.MagFilter: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum bvv.core.backend.Texture.MinFilter: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum bvv.core.backend.Texture.Wrap: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum bvv.core.cache.TextureCache.ContentState: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum bvv.core.multires.DownSamplingScheme: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum bvv.core.multires.SourceStacks.SourceStackType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum bvv.core.render.VolumeRenderer.RepaintType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum bvv.core.render.VolumeShaderSignature.PixelType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum bvv.core.shadergen.generate.SegmentType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum bvv.core.shadergen.MinMax: Returns an array containing the constants of this enum type, in the order they are declared.
Values() - Constructor for class bvv.core.VolumeViewerOptions.Values
vertex(Segment) - Method in class bvv.core.shadergen.generate.SegmentedShaderBuilder
VertexShader - bvv.core.shadergen.generate.SegmentType
viewer - Variable in class bvv.vistools.BvvHandle
viewerStateChanged(ViewerStateChange) - Method in class bvv.core.VolumeViewerPanel
visibilityAndGrouping - Variable in class bvv.core.VolumeViewerPanel: Manages visibility and currentness of sources and groups, as well as grouping of sources, and display mode.
VolatileCells(AbstractCellImg<?, A, ? extends Cell<A>, ?>) - Constructor for class bvv.core.blocks.GridDataAccessImp.VolatileCells
VolumeBlocks - Class in bvv.core.render: For setting up the volume for one frame, call methods in this order: VolumeBlocks.init(MultiResolutionStack3D, TextureCache, int, Matrix4fc) VolumeBlocks.getFillTasks() VolumeBlocks.makeLut(int) VolumeBlocks.getLutBlockScales(int) can be called at any point after init().
VolumeBlocks() - Constructor for class bvv.core.render.VolumeBlocks
VolumeRenderer - Class in bvv.core.render
VolumeRenderer(int, int, int, int, int, int[], int) - Constructor for class bvv.core.render.VolumeRenderer
VolumeRenderer.RepaintType - Enum in bvv.core.render
VolumeShaderSignature - Class in bvv.core.render
VolumeShaderSignature(List<VolumeShaderSignature.VolumeSignature>) - Constructor for class bvv.core.render.VolumeShaderSignature
VolumeShaderSignature.PixelType - Enum in bvv.core.render
VolumeShaderSignature.VolumeSignature - Class in bvv.core.render
VolumeSignature(SourceStacks.SourceStackType, VolumeShaderSignature.PixelType) - Constructor for class bvv.core.render.VolumeShaderSignature.VolumeSignature
VolumeTextureRGBA8 - Class in bvv.core.render
VolumeTextureRGBA8() - Constructor for class bvv.core.render.VolumeTextureRGBA8
VolumeTextureU16 - Class in bvv.core.render
VolumeTextureU16() - Constructor for class bvv.core.render.VolumeTextureU16
VolumeTextureU8 - Class in bvv.core.render
VolumeTextureU8() - Constructor for class bvv.core.render.VolumeTextureU8
VolumeViewerFrame - Class in bvv.core: A JFrame containing a VolumeViewerPanel and associated InputActionBindings.
VolumeViewerFrame(List<SourceAndConverter<?>>, int, CacheControl, KeymapManager, AppearanceManager, VolumeViewerOptions) - Constructor for class bvv.core.VolumeViewerFrame
VolumeViewerFrame(List<SourceAndConverter<?>>, int, CacheControl, VolumeViewerOptions) - Constructor for class bvv.core.VolumeViewerFrame
VolumeViewerOptions - Class in bvv.core: Optional parameters for VolumeViewerPanel.
VolumeViewerOptions() - Constructor for class bvv.core.VolumeViewerOptions
VolumeViewerOptions.Values - Class in bvv.core: Read-only ViewerOptions values.
VolumeViewerPanel - Class in bvv.core
VolumeViewerPanel(List<SourceAndConverter<?>>, int, CacheControl, VolumeViewerOptions) - Constructor for class bvv.core.VolumeViewerPanel
VolumeViewerPanel.RenderScene - Interface in bvv.core

W

watch(Class<?>, String) - Method in class bvv.core.util.HotLoadingUtils.ShaderHotLoader
watch(String) - Method in class bvv.core.util.HotLoadingUtils.ShaderHotLoader
width(int) - Method in class bvv.core.VolumeViewerOptions: Set width of VolumeViewerPanel canvas.

X

x() - Method in class bvv.core.cache.ImageBlockKey
x() - Method in class bvv.core.cache.TextureCache.Tile: Tile X coordinate in texture grid (padded blocks)

Y

y() - Method in class bvv.core.cache.ImageBlockKey
y() - Method in class bvv.core.cache.TextureCache.Tile: Tile Y coordinate in texture grid (padded blocks)
yAxisFlipped() - Method in class bvv.core.InteractiveGLDisplayCanvas

Z

z() - Method in class bvv.core.cache.ImageBlockKey
z() - Method in class bvv.core.cache.TextureCache.Tile: Tile Z coordinate in texture grid (padded blocks)

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