- get(int, int) - Method in interface edu.uthscsa.ric.roi.mask.ROIMaskBuffer
-
Returns the ROI mask value at the specified offset and series index.
- getAddedShapes() - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Returns a list of surfaces added to the base surface.
- getAllAnalyses() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns a list of all analyses.
- getAllAnalysisPoints() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns a list of all analysis points.
- getAllID() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Returns both ID and name.
- getAllPointsAndLines() - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Returns a list of all points and lines.
- getAllROIs() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns a list of all ROIs.
- getAllTime() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Deprecated.
- getAllVolumeManagers() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns a list of all the currently loaded VolumeManagers.
- getAllVolumeManagersFrom(VolumeManager) - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns a list of all currently loaded VolumeManagers, starting with the specified manager.
- getAnalysis() - Method in interface edu.uthscsa.ric.volume.Cluster
-
Returns an analysis of this cluster region.
- getAnonymizableFields() - Method in interface edu.uthscsa.ric.volume.EditableHeader
-
Returns a list of anonymizable fields or null if anonymization is not supported.
- getAssociatedFiles() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Returns an array of files associated with this image (e.g., a multifile image format).
- getAvailableMask() - Method in interface edu.uthscsa.ric.roi.ROIData
-
If there exists selected mask, it returns getSelectedMask(), otherwise it returns getUsedMaks().
- getAxialArea() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the area of a voxel in the axial plane.
- getBaseSurface() - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Returns the base surface
- getBaseVolume() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the base volume.
- getBinCounts() - Method in interface edu.uthscsa.ric.volume.Histogram
-
Returns an array of histogram bin counts.
- getBinRangeMaximums() - Method in interface edu.uthscsa.ric.volume.Histogram
-
Returns an array of histogram bin range maxs.
- getBinRangeMinimums() - Method in interface edu.uthscsa.ric.volume.Histogram
-
Returns an array of histogram bin range mins.
- getBitsStored() - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns the number of bits stored.
- getBuildNumber() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns the Mango build number.
- getByteType() - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns the byte type code.
- getByteTypeString(int) - Static method in class edu.uthscsa.ric.volume.ImageType
-
Returns the byte type name associated with a byte type code.
- getByteTypeString() - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns the byte type name.
- getCenter() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the center coordinate.
- getCentroidCoordinate() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the coordinate of the centroid value.
- getCentroidValue() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the value at the centroid coordinate.
- getCode() - Method in class edu.uthscsa.ric.volume.EditableHeader.CodeOption
-
Returns the code string.
- getColor() - Method in interface edu.uthscsa.ric.roi.ROI
-
Returns the color representation of this ROI as an index in the list of specified Mango ROI colors.
- getColor() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Shape
-
Returns a three float array of RGB values representing the surface color.
- getColor() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns the color components (one solid color) of this Surface.
- getColorsIterator() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns a colors iterator.
- getColorTableName() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Overlay
-
Returns the LUT name associated with this Overlay.
- getCols() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Gets the number of columns in a volume of this image.
- getColSize(boolean) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the size of a voxel's column dimension.
- getCommandLineName() - Method in interface edu.uthscsa.ric.cli.ConsolePlugin
-
The name of the command-line program.
- getCompressionType() - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns the compression type.
- getCompressionTypeString() - Method in class edu.uthscsa.ric.volume.ImageType
-
- getConsoleLogger() - Static method in class edu.uthscsa.ric.utilities.AppLogger
-
Returns the current ConsoleLogger.
- getCoordinate() - Method in interface edu.uthscsa.ric.volume.AnalysisPoint
-
The coordinate.
- getCoronalArea() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the area of a voxel in the coronal plane.
- getCount() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the voxel count.
- getCurrent() - Method in interface edu.uthscsa.ric.mango.ProgressMeter
-
Returns the current value.
- getCurrent(int) - Method in interface edu.uthscsa.ric.roi.mask.ROIMaskBuffer
-
Returns the ROI mask value at the specified offset for the current series index.
- getCurrentAtlas() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns the current Atlas.
- getCurrentPosition() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the currently selected position.
- getCurrentSeriesPoint() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the current series point.
- getCurrentVolume() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the currently selected volume.
- getCurrentVolumeManager() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns the currently selected VolumeManager.
- getCurrentVolumeManagerIndex() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns the index of the currently selected VolumeManager.
- getCurrentWorldPosition() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the currently selected position in world space.
- getData() - Method in interface edu.uthscsa.ric.mango.ImageLoader
-
(Not yet implemented.)
- getDataScaleIntercepts() - Method in class edu.uthscsa.ric.volume.ImageRange
-
Returns the data scale intercepts.
- getDataScaleSlopes() - Method in class edu.uthscsa.ric.volume.ImageRange
-
Returns the data scale slopes.
- getDate() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Deprecated.
- getDescription() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns a description of this Surface.
- getDescription() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns a string description of this analysis.
- getDescription() - Method in interface edu.uthscsa.ric.volume.AnalysisPoint
-
Returns a string description of this analysis.
- getDescription() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Returns the description.
- getDicomItems() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Returns a map of DICOM tag id to string value (see setDicomItems() for more explanation).
- getDisplayMax() - Method in class edu.uthscsa.ric.volume.ImageRange
-
Returns the display max.
- getDisplayMin() - Method in class edu.uthscsa.ric.volume.ImageRange
-
Returns the display min.
- getDistance() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Shape
-
Returns the length of the shape.
- getEditableFieldValues() - Method in interface edu.uthscsa.ric.volume.EditableHeader
-
Returns a map of field names to field values.
- getFile() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Returns the URI of this image.
- getFrame() - Method in interface edu.uthscsa.ric.mango.viewerprojection.ProjectionManager
-
Returns the parent window of the projection.
- getFrame() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the parent window of this viewer.
- getFrame() - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Returns the parent window of the surface view.
- getHistogramAnalysis() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the result of the last Histogram analysis.
- getHumanReadableFieldOptions() - Method in interface edu.uthscsa.ric.volume.EditableHeader
-
Returns a map of field names to lists of human readable code names.
- getID() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Returns the scan ID.
- getImage() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Deprecated.
- getImageBuffers() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Return null to have the application handle reading the image data or return an array of ByteBuffers.
- getImageDescription() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the ImageDescription.
- getImageDescription() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns the image description.
- getImageDimensions() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the ImageDimensions.
- getImageDimensions() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns the image dimensions.
- getImageFile() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns the image file (could be the same as the header file).
- getImageMax() - Method in class edu.uthscsa.ric.volume.ImageRange
-
Returns the image max.
- getImageMaxOffset() - Method in class edu.uthscsa.ric.volume.ImageRange
-
Returns the offset of the maximum voxel.
- getImageMin() - Method in class edu.uthscsa.ric.volume.ImageRange
-
Returns the image min.
- getImageMinOffset() - Method in class edu.uthscsa.ric.volume.ImageRange
-
Returns the offset of the minimum voxel.
- getImageOffset() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Gets the image offset.
- getImageOffsets() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Returns an array of image offsets for multi-file images.
- getImageRange() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the ImageRange.
- getImageRange() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns the image range.
- getImageSelectionPanel(JButton) - Method in interface edu.uthscsa.ric.mango.ImageLoader
-
This method should return a GUI allowing the user to select a base image.
- getImageTrailer() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Returns the number of bytes in the image trailer.
- getImageTransform() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the ImageTransform.
- getImageType() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the ImageType.
- getImageType() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns the image type.
- getImageTypeDescription() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Returns a description of the image type.
- getIndiciesIterator() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns a triangles iterator.
- getInputStream() - Method in interface edu.uthscsa.ric.mango.ImageLoader
-
(Not yet implemented.)
- getLabel(double, double, double) - Method in interface edu.uthscsa.ric.mango.Atlas
-
Returns labels based on a coordinate position.
- getLabel(boolean) - Method in interface edu.uthscsa.ric.roi.ROI
-
Returns the label of this ROI.
- getLabel(int) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the series label for the specified index.
- getLabel(int, String) - Method in interface edu.uthscsa.ric.volume.LabelManager
-
Returns a label for the specified index.
- getLabelData() - Method in interface edu.uthscsa.ric.volume.LabelManager
-
Returns a serialized byte array of label data.
- getLabelManager() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns the ROI mask LabelManager.
- getLabelModel() - Method in interface edu.uthscsa.ric.volume.LabelManager
-
Returns the label model.
- getLabels() - Method in interface edu.uthscsa.ric.volume.AnalysisPoint
-
Returns the atlas labels at this point.
- getLibDir() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns the lib directory.
- getLines() - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Returns a list of lines.
- getLoadedURI() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the URI of the file used to load the base volume of this viewer.
- getLoadedURI(ImageVolume) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the URI of the file used to load the specified volume.
- getLogFile() - Static method in class edu.uthscsa.ric.utilities.AppLogger
-
Returns the log file.
- getMainImage() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns a rendering of the main slice view.
- getMainImage(boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns a rendering of the main slice view.
- getMainImage(BufferedImage, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns a rendering of the main slice view.
- getMainImage(BufferedImage, int, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns a rendering of the main slice view.
- getMainImage(BufferedImage, int, int, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns a rendering of the main slice view.
- getManagerTitle() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns a nicely formatted title for this VolumeManager
- getMangoData() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Deprecated.
- getMaskValue(int, int, int) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Gets the ROI value at a specified location.
- getMaskValue(int, int, int, int) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Gets the ROI value at a specified location.
- getMatrixCopy() - Method in interface edu.uthscsa.ric.volume.ImageTransform
-
Returns a copy of the 4x4 image transformation matrix.
- getMax() - Method in interface edu.uthscsa.ric.mango.ProgressMeter
-
Returns the maximum value.
- getMax() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Overlay
-
Returns the LUT maximum.
- getMax() - Method in interface edu.uthscsa.ric.volume.Histogram
-
Returns the histogram range max.
- getMaxCoordinate() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the coordinate of the max value.
- getMaximumColors() - Method in interface edu.uthscsa.ric.roi.ColorManager
-
Returns the current maximum number of colors.
- getMaximumColors() - Method in interface edu.uthscsa.ric.roi.mask.ROIMaskBuffer
-
Returns the maximum number of ROI colors that this buffer supports.
- getMaxReturnedLabels() - Method in interface edu.uthscsa.ric.mango.Atlas
-
This is the maximum number of labels that will be displayed using this atlas, not to exceed MAX_RETURN_LABELS_LENGTH;
- getMaxT() - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Returns T upper bound.
- getMaxValue() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the value at the max coordinate.
- getMaxX() - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Returns X upper bound.
- getMaxY() - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Returns Y upper bound.
- getMaxZ() - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Returns Z upper bound.
- getMean() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the mean.
- getMin() - Method in interface edu.uthscsa.ric.mango.ProgressMeter
-
Returns the minimum value.
- getMin() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Overlay
-
Returns the LUT minimum.
- getMin() - Method in interface edu.uthscsa.ric.volume.Histogram
-
Returns the histogram range min.
- getMinCoordinate() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the coordinate of the min value.
- getMinimumVersionSupported() - Method in interface edu.uthscsa.ric.mango.MangoPluginType
-
Returns the minimum version of Mango that will support this plugin (e.g., "2.5").
- getMinT() - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Returns T lower bound.
- getMinValue() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the value at the min coordinate.
- getMinX() - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Returns X lower bound.
- getMinY() - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Returns Y lower bound.
- getMinZ() - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Returns Z lower bound.
- getName(ImageVolume) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns a nice name for this volume;
- getName() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns the name of this Surface.
- getName() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the name of this analysis.
- getName() - Method in interface edu.uthscsa.ric.volume.AnalysisPoint
-
Returns the name of this analysis.
- getName() - Method in class edu.uthscsa.ric.volume.EditableHeader.CodeOption
-
Returns the human-readable name.
- getName() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Returns the scan name.
- getNativeIntegerValueAtIndex(int, int, int, int) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the native integer value at a specified image index.
- getNativeType() - Method in class edu.uthscsa.ric.volume.ImageType
-
If image data was loaded as a different type than what is specified in the header, store the native type here.
- getNormalsIterator() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns a normals iterator.
- getNumBins() - Method in interface edu.uthscsa.ric.volume.Histogram
-
Returns the number of histogram bins.
- getNumBytesPerVoxel() - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns the number of bytes per voxel.
- getNumPoints() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns the number of points in this Surface.
- getNumTriangles() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns the number of triangles in this Surface.
- getNumVoxels() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Deprecated.
- getNumVoxelsSlice() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Gets the number of voxels in a slice of this image.
- getNumVoxelsSlice(int) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Gets the number of voxels in a slice of this image.
- getNumVoxelsTimeseries() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Gets the number of voxels in this image.
- getNumVoxelsVolume() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Gets the number of voxels in a volume of this image.
- getOptions() - Method in interface edu.uthscsa.ric.visualization.surface.io.SurfaceFormat
-
Returns options.
- getOptionsPanel(Surface[], Shape[], SurfaceController) - Method in interface edu.uthscsa.ric.visualization.surface.io.SurfaceFormat
-
Deprecated.
- getOrientation() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns the orientation (e.g., XYZ+--).
- getOrientationCertainty() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns the orientation certainty (0=Unknown/Default, 1=Incomplete/Suspicious, 2=Complete/Sufficient).
- getOrientationString() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns a string representation of this volume's data orientation (e.g., XYZ+--).
- getOrigin() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the origin of the base volume.
- getOrigin() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the origin voxel location relative to the left-anterior-superior edge of the image.
- getOrigin() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns the origin voxel location relative to the native orientation of the data.
- getOriginNativeOffsets() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the original offsets.
- getOtherVolumeManagers(VolumeManager) - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns a list of all the currently loaded VolumeManagers, except the specified.
- getOverlays() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns a list of overlays volumes.
- getOverlays() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns an array of Overlay objects associated with this Surface.
- getOverlaySelectionPanel(String, ImageDimensions, VoxelDimensions, JButton) - Method in interface edu.uthscsa.ric.mango.ImageLoader
-
This method should return a GUI allowing the user to select an overlay image.
- getPluginName() - Method in interface edu.uthscsa.ric.mango.MangoPluginType
-
Returns the name of this plugin.
- getPluginURL() - Method in interface edu.uthscsa.ric.mango.MangoPluginType
-
Returns a URL to download this plugin.
- getPoints() - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Returns a list of points.
- getPoints() - Method in interface edu.uthscsa.ric.roi.Line
-
Returns the points in this line.
- getPoints(int) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Gets all points of a specified color.
- getPoints() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Shape
-
Returns point array
- getPointsIterator() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns a points iterator.
- getPreferredFileExtension() - Method in interface edu.uthscsa.ric.visualization.surface.io.SurfaceFormat
-
Returns the preferred file extension of this format.
- getPreferredFileExtension() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns the preferred file extension of this format.
- getPreviewImage() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Return null to have the application handle reading the image preview.
- getProjectionManager() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the ProjectionManager.
- getRawVoxelValueAtIndex(int, int, int) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the raw (without data scaling) voxel value at a specified image index.
- getRawVoxelValueAtIndex(int, int, int, int) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the raw (without data scaling) voxel value at a specified image index and timepoint.
- getRawVoxelValueAtIndex(int, int, int, int, ImageTransform) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the raw (without data scaling) voxel value at a specified image index and timepoint in transformed volume.
- getRawVoxelValueForOffset(long) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the raw (without data scaling) voxel value at a specified offset.
- getReadableHeader() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the ReadableHeader of this ImageVolume.
- getRegionSize() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the size of the region of this analysis.
- getROI() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the ROI color index.
- getROI() - Method in interface edu.uthscsa.ric.volume.AnalysisPoint
-
Returns the ROI color index.
- getROIBounds(long, int) - Method in interface edu.uthscsa.ric.roi.mask.ROIMaskBuffer
-
Returns the ImageBounds of the specified mask and series index.
- getROIBounds(boolean) - Method in interface edu.uthscsa.ric.roi.ROI
-
Returns the bounds of this ROI.
- getROIBoundsCurrent(long) - Method in interface edu.uthscsa.ric.roi.mask.ROIMaskBuffer
-
Returns the ImageBounds of the specified mask for the current series index.
- getRoiColor() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the currently selected ROI color index.
- getROIColor(int) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns the color of this ROI.
- getRoiData() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns a ROIData object.
- getROIDataBuffer() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns the ROI data buffer.
- getROILabel(int) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns the label of this ROI.
- getROIMaskBuffer() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- getROIMaskValue(int, int, int) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- getROIMaskValue(int, int, int, int) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- getROISelectedMask() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- getROISelectionPanel(String, ImageDimensions, VoxelDimensions, JButton) - Method in interface edu.uthscsa.ric.mango.ImageLoader
-
This method should return a GUI allowing the user to select a ROI.
- getROIUsedMask() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- getRows() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Gets the number of rows in a volume of this image.
- getRowSize(boolean) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the size of a voxel's row dimension.
- getSagittalArea() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the area of a voxel in the sagittal plane.
- getScalars() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Overlay
-
Returns an array of scalar buffers.
- getScalarsIterator() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Overlay
-
Returns the scalars iterator.
- getScalarsSize() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Overlay
-
Returns the number of scalar values.
- getScriptObjectName() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the name reference of this viewer during the recording of a script.
- getSelectedAbsolutePath() - Method in interface edu.uthscsa.ric.mango.ImageLoader
-
This method is called after the dialog has been closed using the load button.
- getSelectedBinEndIndex(int) - Method in interface edu.uthscsa.ric.volume.Histogram
-
Returns the selection end bin index for the specified ROI color.
- getSelectedBinStartIndex(int) - Method in interface edu.uthscsa.ric.volume.Histogram
-
Returns the selection start bin index for the specified ROI color.
- getSelectedColors() - Method in interface edu.uthscsa.ric.volume.Histogram
-
Returns a list of ROI color indices currently used in selection.
- getSelectedLines() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns a list of selected ROI lines.
- getSelectedMask() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns a bit mask of selected ROI colors.
- getSelectedMasks() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns a list of selected ROI masks.
- getSelectedPoints() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns a list of selected ROI points.
- getSelectedRelativePath() - Method in interface edu.uthscsa.ric.mango.ImageLoader
-
This method is called after the dialog has been closed using the load button (applet use only).
- getSelectedROIs() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns a list of selected ROIs.
- getSeriesIndex() - Method in interface edu.uthscsa.ric.roi.mask.ROIMaskBuffer
-
Returns the current ROI series index.
- getSeriesLength() - Method in interface edu.uthscsa.ric.roi.mask.ROIMaskBuffer
-
Returns the length of the ROI series.
- getSeriesLength() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the series length.
- getSeriesPoint() - Method in class edu.uthscsa.ric.volume.Coordinate4D
-
Returns the series point.
- getShapes(int, int, int) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Gets all shapes of a specified color within a slice.
- getSliceAnnotation(int, int) - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns a bitmap of annotation data associated with the specified slice.
- getSliceDirection() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the currently selected slice direction.
- getSliceDirection() - Method in interface edu.uthscsa.ric.roi.Line
-
The slice direction of this line (see VolumeManager constants).
- getSliceDirection() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the slice direction.
- getSliceMetadata(int, int) - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns a formatted text representation of the image header associated with the specified slice.
- getSliceNum() - Method in interface edu.uthscsa.ric.roi.Line
-
The slice number of this line.
- getSliceNum() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the slice number.
- getSliceNumber() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the currently selected slice number.
- getSlices() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Gets the number of slices in a volume of this image.
- getSliceThickness(boolean) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the size of a voxel's slice dimension.
- getSpatialUnit() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the spatial unit code.
- getSpatialUnitMultiplier() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns a multiplier to convert units to mm.
- getSpecialPoints(Color) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Gets all special points of a specified color.
- getSpecialShapes(int, int, Color) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Gets all special shapes of a specified color within a slice.
- getStandardDev() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the standard deviation.
- getStats() - Method in interface edu.uthscsa.ric.roi.ROI
-
Returns the stats of this ROI
- getStats(int) - Method in interface edu.uthscsa.ric.roi.ROI
-
Returns the stats at a specified series point.
- getStudyDate() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Returns the study date.
- getStudyDateString() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
- getStudyDateTimeString() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
- getStudyTimeString() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
- getSum() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the sum.
- getSupportedBytesForType(int) - Method in interface edu.uthscsa.ric.volume.WritableHeader
-
Returns an array of byte counts that supported for a datatype.
- getSupportedOrientations() - Method in interface edu.uthscsa.ric.volume.WritableHeader
-
Returns an array of valid data orientations in the format "XYZ+--" where the first character represents the fastest moving dimension and that third
character represents the slowest moving dimension.
- getSupportedTypesForBytes(int) - Method in interface edu.uthscsa.ric.volume.WritableHeader
-
Returns an array of datatypes that are supported for a number of bytes.
- getSurfaceManager() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the SurfaceManager
- getSurfaces() - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Returns an array of loaded surfaces.
- getTE1() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the TE1.
- getTE2() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the TE2.
- getTemporalUnit() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the temporal unit code.
- getTemporalUnitMultiplier() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns a multiplier to convert units to seconds.
- getThreshold() - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Returns the threshold used to build the base surface.
- getThreshold() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns the threshold used to build this Surface.
- getTime() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Deprecated.
- getTimepoints() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Gets the number of timepoints in this image.
- getTitle() - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Returns a nice title for this image.
- getTool() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns the current ROI tool (see tool code constants).
- getTR() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the TR.
- getTransforms() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns an array of any transforms stored in the header.
- getType() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the analysis type (see constants).
- getType() - Method in interface edu.uthscsa.ric.volume.AnalysisPoint
-
Returns the analysis type.
- getTypeMax(boolean) - Method in class edu.uthscsa.ric.volume.ImageType
-
Get the maximum value of this type.
- getTypeMin(boolean) - Method in class edu.uthscsa.ric.volume.ImageType
-
Get the minimum value of this type.
- getTypeMin(boolean, boolean) - Method in class edu.uthscsa.ric.volume.ImageType
-
Get the minimum value of this type.
- getUnitSize() - Method in interface edu.uthscsa.ric.volume.Analysis
-
Returns the unit size.
- getUsage() - Method in interface edu.uthscsa.ric.cli.ConsolePlugin
-
A Unix-style usage message
- getUsedLines() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns a list of used ROI lines.
- getUsedMask() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns a bit mask of used ROI colors.
- getUsedMasks() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns a list of used ROIs.
- getUsedPoints() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Returns a list of used ROI points.
- getValue() - Method in interface edu.uthscsa.ric.volume.AnalysisPoint
-
Returns the value at this point.
- getValues() - Method in class edu.uthscsa.ric.volume.Coordinate
-
Returns an array of coordinate values.
- getVariableSpacing() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns an array of variable slice spacings.
- getVariableTiming() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns an array of variable volume durations.
- getVersion() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns the Mango version.
- getVersion() - Method in interface edu.uthscsa.ric.mango.MangoPluginType
-
Returns the version of this plugin (e.g., "1.0").
- getVersion() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the Mango version.
- getViewTransform() - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Returns the view transform (4x4).
- getVolume(int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Gets the ImageVolume at the specified index.
- getVolume() - Method in interface edu.uthscsa.ric.volume.Cluster
-
Returns the ImageVolume associated with this cluster.
- getVolume() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the volume of a voxel.
- getVolumeDisplayAlpha(ImageVolume) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the screen display alpha value of the specified ImageVolume.
- getVolumeDisplayColorTable(ImageVolume) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the screen display color table for the specified ImageVolume.
- getVolumeDisplayRangeMax(ImageVolume) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the screen display range maximum for the specified ImageVolume.
- getVolumeDisplayRangeMin(ImageVolume) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the screen display range minimum for the specified ImageVolume.
- getVolumeIndex(ImageVolume) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns the index of the specified volume.
- getVolumeIntercept() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the intercept value of the image [(0 - intercept) / scale] -- the value that should be on disk so that the screen value is 0.
- getVolumeInterceptScreen() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the intercept value of the image [(intercept) / scale] -- if the value on disk is 0, this is the screen value.
- getVolumes() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns a list of all loaded ImageVolumes.
- getVoxelDimensions() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the VoxelDimensions.
- getVoxelDimensions() - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Returns the voxel dimensions.
- getVoxelValueAtCoordinate(double, double, double) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the voxel value at a specified coordinate in real world space.
- getVoxelValueAtCoordinate(double, double, double, int) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the voxel value at a specified coordinate and timepoint in real world space.
- getVoxelValueAtCoordinate(double, double, double, int, ImageTransform) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the voxel value at a specified coordinate and timepoint in a transformed world space.
- getVoxelValueAtIndex(int, int, int) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the voxel value at a specified image index.
- getVoxelValueAtIndex(int, int, int, int) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the voxel value at a specified image index and timepoint.
- getVoxelValueAtIndex(int, int, int, int, ImageTransform) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the voxel value at a specified image index and timepoint in transformed volume.
- getVoxelValueForOffset(long) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the voxel value at a specified offset.
- getWorkBuffer() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Deprecated.
- getWorkBufferImageType() - Static method in class edu.uthscsa.ric.volume.ImageType
-
Returns an ImageType which is a 4-byte float, 32 bits stored, and big endian.
- getWorkBuffers() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns the work buffer (a float buffer), for use with advanced methods.
- getX() - Method in interface edu.uthscsa.ric.roi.Point
-
The X location of the point.
- getX() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Gets the X dimension.
- getXDim() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns x image dimension.
- getXSize() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns x voxel size.
- getXSize() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the size of a voxel along the X dimension.
- getY() - Method in interface edu.uthscsa.ric.roi.Point
-
The Y location of the point.
- getY() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Gets the Y dimension.
- getYDim() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns y image dimension.
- getYSize() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns y voxel size.
- getYSize() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the size of a voxel along the Y dimension.
- getZ() - Method in interface edu.uthscsa.ric.roi.Point
-
The Z location of the point.
- getZ() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Gets the Z dimension.
- getZDim() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns z image dimension.
- getZSize() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Returns z voxel size.
- getZSize() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Returns the size of a voxel along the Z dimension.
- goToShape(Shape) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Move the current coordinate to the specified line or point shape.
- GREEN_INDEX - Static variable in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- GREEN_MASK - Static variable in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- ImageBounds - Class in edu.uthscsa.ric.volume
-
Stores image bounds.
- ImageBounds() - Constructor for class edu.uthscsa.ric.volume.ImageBounds
-
Default constructor.
- ImageBounds(ImageBounds) - Constructor for class edu.uthscsa.ric.volume.ImageBounds
-
Copy constructor.
- ImageBounds(int, int) - Constructor for class edu.uthscsa.ric.volume.ImageBounds
-
- ImageBounds(int, int, int, int, int, int) - Constructor for class edu.uthscsa.ric.volume.ImageBounds
-
Constructor.
- ImageDescription - Class in edu.uthscsa.ric.volume
-
ImageDescription contains textual information describing the image.
- ImageDescription() - Constructor for class edu.uthscsa.ric.volume.ImageDescription
-
The default class constructor.
- ImageDescription(String, String, String, String, String) - Constructor for class edu.uthscsa.ric.volume.ImageDescription
-
Deprecated.
- ImageDescription(String, String, Date, String) - Constructor for class edu.uthscsa.ric.volume.ImageDescription
-
Class constructor.
- ImageDimensions - Class in edu.uthscsa.ric.volume
-
ImageDimensions contains information related to image size in columns/rows/slices and x/y/z orientations, as well as timepoints and offset.
- ImageDimensions(int, int, int, int) - Constructor for class edu.uthscsa.ric.volume.ImageDimensions
-
The only class constructor.
- ImageLoader - Interface in edu.uthscsa.ric.mango
-
An ImageLoader provides the application with a way to access an online library of images.
- ImageRange - Class in edu.uthscsa.ric.volume
-
ImageRange stores information related to the value range of the image and value scaling.
- ImageRange(double, double, double, double) - Constructor for class edu.uthscsa.ric.volume.ImageRange
-
The only class constructor.
- ImageTransform - Interface in edu.uthscsa.ric.volume
-
ImageTransform provides access to volume transform.
- ImageType - Class in edu.uthscsa.ric.volume
-
ImageType stores information related to data type and data mask.
- ImageType(int, int, int, boolean) - Constructor for class edu.uthscsa.ric.volume.ImageType
-
The only class constructor.
- ImageVolume - Interface in edu.uthscsa.ric.volume
-
ImageVolume is an interface that allows access to the image volume, with methods to get and put voxel values.
- inBounds(int, int, int) - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Returns true of the specified location is within bounds.
- increment(int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Increments the slice in the specified direction.
- INDEX_BLUE - Static variable in interface edu.uthscsa.ric.roi.ROIData
-
- INDEX_GREEN - Static variable in interface edu.uthscsa.ric.roi.ROIData
-
- INDEX_RED - Static variable in interface edu.uthscsa.ric.roi.ROIData
-
- IndexIterator - Class in edu.uthscsa.ric.visualization.surface.io
-
An iterator of surface index data.
- IndexIterator(IntBuffer[], int[]) - Constructor for class edu.uthscsa.ric.visualization.surface.io.IndexIterator
-
Constructor.
- info(String) - Static method in class edu.uthscsa.ric.utilities.AppLogger
-
Log info.
- info(Throwable) - Static method in class edu.uthscsa.ric.utilities.AppLogger
-
Log info.
- initMask(long) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Initializes one or more ROI colors.
- initROIMask(byte) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- inRange(Coordinate) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Returns true if the specified coordinate is within the range of these dimensions.
- INTERPOLATION_TYPE_LINEAR - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- INTERPOLATION_TYPE_NN - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- INTERPOLATION_TYPE_SINC - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- InvalidHeaderException - Exception in edu.uthscsa.ric.volume
-
An exception class used to pass along specific error messages about why a file header cannot be read or is read successfully but found not to be valid.
- InvalidHeaderException() - Constructor for exception edu.uthscsa.ric.volume.InvalidHeaderException
-
Default constructor.
- InvalidHeaderException(String) - Constructor for exception edu.uthscsa.ric.volume.InvalidHeaderException
-
Constructor that takes a string.
- InvalidHeaderException(String, Exception) - Constructor for exception edu.uthscsa.ric.volume.InvalidHeaderException
-
Constructor.
- isAllZeros() - Method in class edu.uthscsa.ric.volume.Coordinate
-
This method can be used to check if all values are zero.
- isAscii() - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns true if ascii state flag is set.
- isBaseSurface() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
True if this Surface is the base surface, false otherwise.
- isCompressed() - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns true if this data was compressed.
- isCurrentVolumeOverlay() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns true if the currently selected volume is an overlay.
- isCurrentVolumeUsingTransform() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns true if the currently selected volume is using a transform.
- isDebugEnabled() - Static method in class edu.uthscsa.ric.utilities.AppLogger
-
Returns true if debug is enabled.
- isEmptyOf(int) - Method in interface edu.uthscsa.ric.roi.mask.ROIMaskBuffer
-
Returns true if the ROI color index is not found.
- isFlip() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
- isHidden() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns true if the surface is hidden.
- isImportingInWorldSpace() - Method in interface edu.uthscsa.ric.mango.ImageLoader
-
In the case of ROIs, this method should return true if the ROI is to be imported in world space.
- isImportingROI() - Method in interface edu.uthscsa.ric.mango.ImageLoader
-
In the case of ROIs, this method should return true if the ROI is to be imported as an image, rather than ROI format.
- isInsideSelectedMaskAtOffset(int) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Test if there is a selected ROI mask at the specified offset.
- isInteger() - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns true if the byte type is integer.
- isLittleEndian() - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns the byte order state.
- isMultisliceMode() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns true if multislice mode is set, false otherwise
- isMultiSliceMode() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns true if the application is in multi-slice ROI mode.
- isOutOfRange() - Method in class edu.uthscsa.ric.volume.Coordinate
-
Returns true if any coordinate value is NaN.
- isParametricOverlay() - Method in interface edu.uthscsa.ric.mango.ImageLoader
-
In the case of overlay, this method should return true if the overlay should load both in the positive and negative range.
- isPublic() - Method in interface edu.uthscsa.ric.mango.ImageLoader
-
If an image is not public, its address will not be displayed (e.g., in the Image Info dialog) and it will not be added to the recent files list.
- isRadiologicalMode() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns true for radiological display, false for neurological display
- isRGB() - Method in class edu.uthscsa.ric.volume.ImageType
-
- isRGBBySample() - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns true if RGB data is stored by sample, rather than location.
- isRGBMode() - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns true if the RGB data is to interpreted as color rather than intensity.
- isRGBPalette() - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns true if this data uses a RGB palette.
- isSaveable() - Method in interface edu.uthscsa.ric.mango.ImageLoader
-
(Not yet implemented.)
- isSelected(int) - Method in interface edu.uthscsa.ric.roi.ColorManager
-
Returns true if the specified color is currently selected.
- isSingleSlice() - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Returns true if the upper and lower bounds of X, Y, or Z are the same.
- isSupportedBigEndian() - Method in interface edu.uthscsa.ric.volume.WritableHeader
-
Returns true if this image format supports writing in big endian byte order.
- isSupportedDataScaleIntercept() - Method in interface edu.uthscsa.ric.volume.WritableHeader
-
Returns true if this image format supports a data scale intercept.
- isSupportedDataScaleSlope() - Method in interface edu.uthscsa.ric.volume.WritableHeader
-
Returns true if this image format supports a data scale slope.
- isSupportedLittleEndian() - Method in interface edu.uthscsa.ric.volume.WritableHeader
-
Returns true if this image format supports writing in little endian byte order.
- isSupportedMultipleDataScales() - Method in interface edu.uthscsa.ric.volume.WritableHeader
-
Returns true if this image format supports multiple data scale values, such as a data scale per slice or per volume.
- isTextEditableHeader() - Method in interface edu.uthscsa.ric.volume.EditableHeader
-
Returns true if this header is text-editable.
- isThisFormat(File) - Method in interface edu.uthscsa.ric.visualization.surface.io.SurfaceFormat
-
Used to determine if a file is of this format (e.g., read magic number, check file size, check file extension, etc).
- isThisFormat(File) - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Used to determine if a file is of this format (e.g., read magic number, check file size, check file extension, etc.).
- isTiled() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Returns true if the data is tiled (e.g., DICOM mosaic data).
- isUsed(int) - Method in interface edu.uthscsa.ric.roi.ColorManager
-
Returns true if the specified color is currently used.
- isUseTransform() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Returns whether the viewer transform is applied to the surface.
- isValid() - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Use to verify that columns, rows, slices, and timepoints have valid values.
- isValid(StringBuffer) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Use to verify that columns, rows, slices, and timepoints have valid values.
- isValid() - Method in class edu.uthscsa.ric.volume.ImageType
-
Use to verify that values are valid.
- isValid(StringBuffer) - Method in class edu.uthscsa.ric.volume.ImageType
-
Returns true if this ImageType is valid, false otherwise.
- isValid() - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Use to verify that column, row, and slice sizes and TR have valid values.
- isValid(StringBuffer) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Use to verify that column, row, and slice sizes and TR have valid values.
- isVisible() - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Shape
-
Returns true if the shape is visible
- isVolumeDisplayHidden(ImageVolume) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns true if the screen display of the specified ImageVolume is hidden
- isVolumeDisplayNegative(ImageVolume) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns true if the screen display range is negative.
- isVolumeOverlay(ImageVolume) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns true if the specified ImageVolume is an overlay.
- isVolumeUsingTransform(ImageVolume) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns true if the specified ImageVolume is using a transform.
- isWorldMode() - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Returns true if world mode is set, false otherwise
- isWorldMode() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Returns true if the application is using world mode.
- RANK_TYPE_MAX - Static variable in interface edu.uthscsa.ric.mango.viewerprojection.ProjectionManager
-
- RANK_TYPE_MAX - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- RANK_TYPE_MEDIAN - Static variable in interface edu.uthscsa.ric.mango.viewerprojection.ProjectionManager
-
- RANK_TYPE_MEDIAN - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- RANK_TYPE_MIN - Static variable in interface edu.uthscsa.ric.mango.viewerprojection.ProjectionManager
-
- RANK_TYPE_MIN - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- ReadableHeader - Interface in edu.uthscsa.ric.volume
-
A class that implements ReadableHeader can be registered with Mango to extend the types of image header formats that can be read.
- readFiles(File) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Deprecated.
- readFiles(URI) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Reads a file into an ImageVolume.
- readFiles(URI, boolean) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Reads a file into an ImageVolume.
- readHeader(File, File) - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Reads the file.
- readHeader(URI, File) - Method in interface edu.uthscsa.ric.volume.ReadableHeader
-
Reads the URI.
- readSurfaceFile(File, ViewerController, Vector<Shape>, boolean) - Method in interface edu.uthscsa.ric.visualization.surface.io.SurfaceFormat
-
Deprecated.
- readSurfaceHeader(File, Vector<Shape>) - Method in interface edu.uthscsa.ric.visualization.surface.io.SurfaceFormat
-
Reads surface header (meta data) from file.
- recordPluginAction(String, String...) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Records a scripted plugin action.
- RED_INDEX - Static variable in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- RED_MASK - Static variable in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- reload() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Reload this VolumeManager.
- removeAll() - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Remove all the added surface shapes, lines, and points.
- removeAllOverlays() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Remove all overlays from this VolumeManager.
- removeOverlay(ImageVolume) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Remove overlay from this VolumeManager.
- removePluginOverlay(BufferedImage, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Remove a plugin overlay.
- removePluginOverlays() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Deprecated.
- removePoint(Coordinate, int) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Removes a point.
- removeShape(Shape) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Remove a line or point shape.
- removeShape(int, Shape) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Remove a shape.
- removeSliceListener(SliceListener, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Removes a slice listener.
- removeSpecialPoint(Coordinate, Color) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Removes a special point.
- removeSpecialShape(int, Shape) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Remove a special shape.
- removeSurface(Surface) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Remove an added surface shape.
- RENDER_TYPE_POINTS - Static variable in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
- RENDER_TYPE_TRIANGLES - Static variable in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
- RENDER_TYPE_WIREFRAME - Static variable in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
- replaceMaskValue(int, int, int, int, long) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Replace a ROI value at a specified location.
- replaceMaskValue(int, int, int, long) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Replace a ROI value at a specified location.
- replaceROIMaskValue(int, int, int, byte) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- replaceROIMaskValue(int, int, int, int, byte) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- reset() - Static method in class edu.uthscsa.ric.utilities.AppLogger
-
- ROI - Interface in edu.uthscsa.ric.roi
-
A ROI.
- ROIData - Interface in edu.uthscsa.ric.roi
-
ROIData can be used to access and edit ROI mask, line, and point data.
- ROIMaskBuffer - Interface in edu.uthscsa.ric.roi.mask
-
A ROI data buffer.
- roiMaskOperationCompleted() - Method in interface edu.uthscsa.ric.roi.ROIData
-
Call this following an ROI operation (e.g., after iterating through the entire volume making changes).
- roiMaskOperationCompleted(String) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Call this following an ROI operation (e.g., after iterating through the entire volume making changes).
- ROTATION_AXIS_X - Static variable in interface edu.uthscsa.ric.mango.viewerprojection.ProjectionManager
-
- ROTATION_AXIS_Y - Static variable in interface edu.uthscsa.ric.mango.viewerprojection.ProjectionManager
-
- ROTATION_AXIS_Z - Static variable in interface edu.uthscsa.ric.mango.viewerprojection.ProjectionManager
-
- runAddROI(Coordinate, double, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds ROI mask data in the currently selected ROI color at the specified location.
- runAddROISlice(int, Coordinate, double, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds ROI mask data in the currently selected ROI color at the specified location.
- runAllSliceStats(int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs slice statistics on all slices of the currently selected ImageVolume in the specified slice direction.
- runAllSliceStatsROI(int, long, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs slice statistics on all ROI slices of the currently selected ImageVolume in the specified slice direction.
- runAllVolumeStats() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs volume statistics on all volumes in a series of the currently selected ImageVolume.
- runAllVolumeStatsROI(long, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs volume statistics on all ROI volumes in a series of the currently selected ImageVolume.
- runCloseROI(long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a close ROI operation.
- runCloseROISlice(int, int, long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a close ROI slice operation.
- runClusterAnalysis(ImageVolume, double) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a cluster analysis.
- runComponentAnalysisROI(int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a ROI component anlaysis.
- runComponentSplitROI(int, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Splits ROI components into different colors [runComponentAnalysisROI() must precede this call].
- runConvexHull(ROI) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a convex hull on the specified ROI.
- runConvexHullROI(long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs convex hull on the specified ROI mask.
- runConvexHullROISlice(int, int, long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs convex hull on the specified ROI mask.
- runCrosssectionMM(Line, double) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a cross-section on the specified Line.
- runCrosssectionVoxels(Line) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a cross-section on the specified line.
- runDilateROI(long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a dilate ROI operation.
- runDilateROISlice(int, int, long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a dilate ROI slice operation.
- runErodeROI(long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs an erode ROI operation.
- runErodeROISlice(int, int, long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a erode ROI slice operation.
- runFilter(String) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a filter.
- runGenerateClusterROI(ImageVolume, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Generate ROIs from clusters [runClusterAnalysis() must precede this call].
- runGenerateHistogramROI(Histogram) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds new ROI mask data for voxels included in this histogram.
- runGenerateHistogramROISlice(int, int, Histogram) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds new ROI mask data for voxels included in this histogram.
- runGenerateHistogramWithinROI(Histogram, long) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds new ROI mask data for voxels included in this histogram, but only within the specified ROI mask.
- runGenerateHistogramWithinROISlice(int, int, Histogram, long) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds new ROI mask data for voxels included in this histogram, but only within the specified ROI mask.
- runGenerateLogicalROI(List<ImageVolume>) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Creates a ROI based on the intersection of a list of ImageVolumes.
- runHistogram(int, double, double, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a histogram.
- runHistogramROI(int, double, double, long, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a histogram within a ROI mask.
- runLogicalAnalysis(List<ImageVolume>) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs statistics on the intersection of a list of ImageVolumes.
- runOpenROI(long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs an open ROI operation.
- runOpenROISlice(int, int, long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs an open ROI slice operation.
- runOperation(String, int, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs an operation.
- runOperationROILogic(String, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a ROI logic operation.
- runOperationSeriesStatistic(int, int, int, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a series operation.
- runPlugin(String, String[]) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a plugin.
- runPlugin(String, String[]) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Runs a surface plugin.
- runPropagateROISlice(int, int, int, int, long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Propagates an ROI slice.
- runRangeToROI(double, double, boolean, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Creates new ROI mask data based on a range.
- runRangeToROISlice(double, double, int, int, boolean, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Creates new ROI mask data based on a range.
- runRankFilter(int, int, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a rank filter.
- runReflectROI(int, int, boolean, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Reflects a ROI.
- runReflectROISlice(int, int, int, boolean, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- runScript(String) - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Runs the specified script.
- runScript(String) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs a script.
- runSeriesROI(ROI) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs statistics on a series ROI.
- runSeriesStats() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs series statistics on the currently selected ImageVolume.
- runSeriesStatsROI(long, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs ROI series statistics.
- runShrinkWrapROI(double, long, int, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Shrink wraps (3D) a ROI mask.
- runShrinkWrapROI(long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Shrink wraps (3D) a ROI mask.
- runShrinkWrapROIAllSlices(double, int, long, int, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Shrink wraps (2D) a ROI mask in a specified slice direction.
- runShrinkWrapROIAllSlices(int, long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Shrink wraps (2D) a ROI mask in a specified slice direction.
- runShrinkWrapROISlice(double, int, int, long, int, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Shrink wraps (2D) a ROI mask in a specified slice direction.
- runShrinkWrapROISlice(int, int, long, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Shrink wraps (2D) a ROI mask in a specified slice direction.
- runSliceStats(int, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Run statistics on a slice.
- runSliceStatsROI(int, int, long, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs statistics on a ROI slice.
- runSmooth(ROI) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Smooths a ROI (only applies to Lines).
- runStat(ROI) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs statistics on a specified ROI.
- runSurfaceAreaStats(Surface) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Runs surface area stats on the specified surface.
- runSurfaceVolumeStats(Surface) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Runs surface volume stats on the specified surface.
- runThresholdToConvexHullROI(double, boolean, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds new ROI mask data based on a threshold and in a convex hull.
- runThresholdToConvexHullROISlice(double, int, int, boolean, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds new ROI mask data based on a threshold and in a convex hull.
- runThresholdToROI(double, boolean, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds new ROI mask data based on a threshold.
- runThresholdToROISlice(double, int, int, boolean, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds new ROI mask data based on a threshold.
- runThresholdToShrinkWrapROI(double, boolean, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds new ROI mask data based on a threshold and shrink wrap (3D).
- runThresholdToShrinkWrapROIAllSlices(double, int, boolean, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds new ROI mask data based on a threshold and shrink wrap (2D).
- runThresholdToShrinkWrapROISlice(double, int, int, boolean, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Adds new ROI mask data based on a threshold and shrink wrap (2D).
- runVolumeStats() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs volume statistics on the currently selected series point of the currently selected ImageVolume.
- runVolumeStatsROI(long, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Runs volume ROI statistics.
- save() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Saves this VolumeManager.
- saveAs(String, String, int, int, boolean, boolean, int, int, int, int, int, int, int, int, double, double, double, double, String, boolean, boolean, boolean, boolean, int, boolean, boolean, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Saves this VolumeManager.
- saveAs(String, Surface, boolean) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Saves the surface data in the Mango surface format.
- saveOverlays() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Saves overlays.
- saveROI(String) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Saves ROI.
- saveSingleROI(String, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Saves a single ROI color.
- saveWithName(String) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Saves this VolumeManager
- ScriptablePlugin - Interface in edu.uthscsa.ric.cli
-
A plugin that can be called by a script.
- select(ROI, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Selects or unselects a specified ROI.
- selectAll() - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Selects all ROI masks, lines, and points.
- SELECTION_TYPE_ROI_INSIDE - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- SELECTION_TYPE_ROI_OUTSIDE - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- SELECTION_TYPE_SLICE - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- SELECTION_TYPE_VOLUME - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- selectMenuOption(String) - Method in interface edu.uthscsa.ric.mango.viewerprojection.ProjectionManager
-
Selects menu options.
- selectMenuOption(String) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Selects a menu option.
- selectMenuOption(String) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Selects menu options.
- SERIES_TYPE_MAX - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- SERIES_TYPE_MEAN - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- SERIES_TYPE_MIN - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- SERIES_TYPE_STDEV - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- SERIES_TYPE_SUM - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- seriesPoint - Variable in class edu.uthscsa.ric.volume.Coordinate4D
-
- setAscii(boolean) - Method in class edu.uthscsa.ric.volume.ImageType
-
Set the ASCII state flag.
- setAssociatedFiles(URI[]) - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Sets an array of files associated with this image.
- setAtlas(String) - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Sets the current Atlas.
- setBackground(int) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Sets the surface background
- setColNegativeState(boolean) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the negative state of voxel column size.
- setColSize(double) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the size of a voxel along the column dimension.
- setCompressionType(int) - Method in class edu.uthscsa.ric.volume.ImageType
-
Sets the compression type.
- setConsole(ConsoleLogger) - Static method in class edu.uthscsa.ric.utilities.AppLogger
-
Set the ConsoleLogger to use.
- setCoordinateSpace(int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Deprecated.
- setCurrentPosition(Coordinate) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the current position.
- setCurrentSeriesPoint(int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the current series point.
- setCurrentSeriesPoint(int) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Sets the current series point.
- setCurrentVolumeIndex(int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the current volume by index.
- setCurrentVolumeManager(VolumeManager) - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Sets the specified VolumeManager to be currently selected.
- setCurrentVolumeManagerIndex(int) - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Sets the VolumeManager at the specified index to be currently selected.
- setDataScaleIntercepts(float[]) - Method in class edu.uthscsa.ric.volume.ImageRange
-
Sets the data scale intercepts.
- setDataScaleSlopes(float[]) - Method in class edu.uthscsa.ric.volume.ImageRange
-
Sets the data scale slopes.
- setDate(String) - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Deprecated.
- setDescription(String) - Method in interface edu.uthscsa.ric.mango.ProgressMeter
-
Sets the text of the progress meter.
- setDescription(String) - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Sets the surface description.
- setDescription(String) - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Sets the description.
- setDicomItems(Map<Long, String>) - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Sets a map of DICOM tag id to string value.
- setDisplayMax(double) - Method in class edu.uthscsa.ric.volume.ImageRange
-
Sets the display max.
- setDisplayMin(double) - Method in class edu.uthscsa.ric.volume.ImageRange
-
Sets the display min.
- setDisplayRangeToImageRange(ImageVolume, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the display range of the specified ImageVolume to its image min/max.
- setEditableFieldValue(String, String, int) - Method in interface edu.uthscsa.ric.volume.EditableHeader
-
Sets a header field.
- setFile(URI) - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Sets the URI of this image.
- setFlip(boolean) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
- setForceLoadInThead(boolean) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Set to true to force loading this image in the current thread, instead of a background thread.
- setGlobalDataScaleIntercept(int, float) - Method in class edu.uthscsa.ric.volume.ImageRange
-
Sets global data scale intercept.
- setGlobalDataScaleSlope(int, float) - Method in class edu.uthscsa.ric.volume.ImageRange
-
Sets global data scale slope.
- setHidden(boolean) - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Sets the surface visibility.
- setHighlighted(boolean) - Method in interface edu.uthscsa.ric.roi.ROI
-
Sets the highlight state of this ROI.
- setID(String) - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Sets the scan ID.
- setImageAsDirty() - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Flag the image as dirty (needs to be saved).
- setImageMax(double) - Method in class edu.uthscsa.ric.volume.ImageRange
-
Sets the image max.
- setImageMaxOffset(long) - Method in class edu.uthscsa.ric.volume.ImageRange
-
Sets the offset of the maximum voxel.
- setImageMin(double) - Method in class edu.uthscsa.ric.volume.ImageRange
-
Sets the image min.
- setImageMinOffset(long) - Method in class edu.uthscsa.ric.volume.ImageRange
-
Sets the offset of the minimum voxel.
- setImageOffset(int) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Sets the image offset.
- setImageOffsets(int[]) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Sets an array of image offsets for multi-file images.
- setImageTrailer(int) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Sets the number of bytes in the image trailer
- setImageTypeDescription(String) - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Sets the image type description.
- setIndeterminateMode(boolean) - Method in interface edu.uthscsa.ric.mango.ProgressMeter
-
Sets the indeterminate state (progress meter with no current value).
- setLabel(ROI, String) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the label of the specified ROI.
- setLabel(int, String) - Method in interface edu.uthscsa.ric.volume.LabelManager
-
Sets the specified label at the specified index.
- setLabel(int, String, boolean) - Method in interface edu.uthscsa.ric.volume.LabelManager
-
Sets the specified label at the specified index.
- setLabelData(byte[]) - Method in interface edu.uthscsa.ric.volume.LabelManager
-
Sets the label data.
- setLighting(double, double, double, double, double) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Sets the lighting parameters.
- setMaterial(Surface, int, boolean, boolean, boolean, int, double, double, double, double) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Sets the material parameters.
- setMenuOption(String, boolean) - Method in interface edu.uthscsa.ric.mango.viewerprojection.ProjectionManager
-
Sets menu items (typically checkboxes).
- setMenuOption(String, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets a menu option.
- setMenuOption(String, boolean) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Sets menu items (typically checkboxes).
- setMultisliceMode(boolean) - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Sets ROI "multislice" mode.
- setName(String) - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Sets the scan name.
- setNativeType(ImageType) - Method in class edu.uthscsa.ric.volume.ImageType
-
Set the native image type.
- setNotes(String) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the note of the base volume.
- setOptions(String, double, double) - Method in interface edu.uthscsa.ric.mango.viewerprojection.ProjectionManager
-
Sets projection options.
- setOptions(String) - Method in interface edu.uthscsa.ric.visualization.surface.io.SurfaceFormat
-
Sets the options.
- setOrientationOption(ImageVolume, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the orientation option (e.g., NIFTI s-form or q-form) of the currently selected ImageVolume.
- setOrigin(Coordinate) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the origin of the base volume.
- setOrigin(Coordinate) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Sets the origin of this ImageVolume.
- setPointHighlightState(Coordinate, Color, boolean) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Sets the highlight state of a special point.
- setRadiologicalMode(boolean) - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Sets radiological display mode.
- setRangeT(int, int) - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Set series bounds.
- setRangeX(int, int) - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Set X bounds.
- setRangeY(int, int) - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Set Y bounds.
- setRangeZ(int, int) - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Set Z bounds.
- setReadOnly(boolean) - Method in interface edu.uthscsa.ric.volume.ImageVolume
-
Set this image as read-only.
- setRGBBySample(boolean) - Method in class edu.uthscsa.ric.volume.ImageType
-
Sets whether RGB data is grouped by location or sample.
- setRGBMode(boolean) - Method in class edu.uthscsa.ric.volume.ImageType
-
Set to true to interpret this RGB data as color rather than intensity
- setRGBPalette(boolean) - Method in class edu.uthscsa.ric.volume.ImageType
-
Sets to true if this data uses a RGB palette.
- setRoiColor(int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the current ROI color.
- setRowNegativeState(boolean) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the negative state of voxel row size.
- setRowSize(double) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the size of a voxel along the row dimension.
- setShapeHighlightState(int, Shape, boolean) - Method in interface edu.uthscsa.ric.roi.ROIData
-
Sets the highlight state of a special shape.
- setSliceDirection(int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the current slice direction.
- setSliceNegativeState(boolean) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the negative state of voxel slice size.
- setSliceNumber(int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the current slice number.
- setSliceThickness(double) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the size of a voxel along the slice dimension.
- setSpatialUnit(int) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the spatial unit of the voxel.
- setSpatialUnit(String) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the spatial unit of the voxel.
- setStudyDate(Date) - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Sets the study date.
- setTE1(double) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the TE1.
- setTE2(double) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the TE2.
- setTemporalUnit(int) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the temporal unit of the voxel.
- setTemporalUnit(String) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the temporal unit of the voxel.
- setThreshold(float) - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Sets the surface threshold.
- setTiled(boolean) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Set to true if the data is tiled.
- setTime(String) - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Deprecated.
- setTimepoints(int) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Sets the number of timepoints in this image.
- setTitle(String) - Method in class edu.uthscsa.ric.volume.ImageDescription
-
Sets a nice title for this image.
- setTool(int) - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Sets the current ROI tool (see tool code constants).
- setToolRange(boolean, double, double, boolean) - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Sets the ROI tool intensity range.
- setToolRelativeRange(double) - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Sets the ROI tool relative range (only applies to "magic wand" Add tool).
- setTR(double) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the TR.
- setTransformMode(boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the transform mode.
- setUseROISeries(boolean) - Method in interface edu.uthscsa.ric.roi.ROIData
-
True to use a ROI series, false otherwise.
- setUseTransform(boolean) - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Surface
-
Sets if the viewer transform is applied to the surface.
- setValue(int) - Method in interface edu.uthscsa.ric.mango.ProgressMeter
-
Sets the current value of the meter.
- setValues(Coordinate) - Method in class edu.uthscsa.ric.volume.Coordinate
-
Sets the values of this Coordinate to that of another Coordinate
- setValues(double, double, double) - Method in class edu.uthscsa.ric.volume.Coordinate
-
Sets the values of this Coordinate.
- setValues(double, double, double, int) - Method in class edu.uthscsa.ric.volume.Coordinate4D
-
Sets the values of this Coordinate4D.
- setValues(int, int, int, int, int, int) - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Set XYZ bounds.
- setValues(int, int, int, int, int, int, int, int) - Method in class edu.uthscsa.ric.volume.ImageBounds
-
Set XYZT bounds.
- setValues(ImageDimensions) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Set the values of this ImageDimensions to that of another.
- setValues(ImageDimensions, boolean) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Set the values of this ImageDimensions to that of another.
- setValues(ImageType) - Method in class edu.uthscsa.ric.volume.ImageType
-
Set the values of this ImageType to that of another.
- setValues(VoxelDimensions) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Set the values of this VoxelDimensions to that of another.
- setValues(VoxelDimensions, boolean) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Set the values of this VoxelDimensions to that of another.
- setValuesRound(double, double, double) - Method in class edu.uthscsa.ric.volume.Coordinate
-
Sets the values of this Coordinate and rounds the integer values.
- setVariableSpacing(float[]) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets an array of variable slice spacings.
- setVariableTiming(float[]) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets an array of variable volume durations.
- setVisible(boolean) - Method in interface edu.uthscsa.ric.visualization.surface.primitives.Shape
-
Sets the visibility of the shape.
- setVolumeDisplayAlpha(ImageVolume, double) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the alpha value of the specified ImageVolume.
- setVolumeDisplayColorTable(ImageVolume, String) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the color table of the specified ImageVolume.
- setVolumeDisplayHidden(ImageVolume, boolean) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the hidden state of the specified ImageVolume.
- setVolumeDisplayIndex(ImageVolume, int) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the display index of the specified ImageVolume (cannot change base volume index).
- setVolumeDisplayRange(ImageVolume, double, double) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets the display range of the specified ImageVolume.
- setVoxelValue(Coordinate, int, double) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Sets a voxel value at the specified coordinate.
- setWorldMode(boolean) - Method in interface edu.uthscsa.ric.mango.MangoContext
-
Sets "world space" mode.
- setX(int) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Sets the X dimension.
- setXSize(double) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the size of a voxel along the X dimension.
- setY(int) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Sets the Y dimension.
- setYSize(double) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the size of a voxel along the Y dimension.
- setZ(int) - Method in class edu.uthscsa.ric.volume.ImageDimensions
-
Sets the Z dimension.
- setZSize(double) - Method in class edu.uthscsa.ric.volume.VoxelDimensions
-
Sets the size of a voxel along the Z dimension.
- Shape - Interface in edu.uthscsa.ric.visualization.surface.primitives
-
A Shape represents a surface line or point.
- showErrorMessage(String, String) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Shows an error message.
- showWarningMessage(String, String) - Method in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
Shows a warning message.
- SLATE_INDEX - Static variable in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- SLATE_MASK - Static variable in interface edu.uthscsa.ric.roi.ROIData
-
Deprecated.
- SLICE_DIRECTION_AXIAL - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- SLICE_DIRECTION_AXIAL - Static variable in interface edu.uthscsa.ric.roi.ROIData
-
- SLICE_DIRECTION_AXIAL - Static variable in class edu.uthscsa.ric.volume.ImageDimensions
-
- SLICE_DIRECTION_CORONAL - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- SLICE_DIRECTION_CORONAL - Static variable in interface edu.uthscsa.ric.roi.ROIData
-
- SLICE_DIRECTION_CORONAL - Static variable in class edu.uthscsa.ric.volume.ImageDimensions
-
- SLICE_DIRECTION_SAGITTAL - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- SLICE_DIRECTION_SAGITTAL - Static variable in interface edu.uthscsa.ric.roi.ROIData
-
- SLICE_DIRECTION_SAGITTAL - Static variable in class edu.uthscsa.ric.volume.ImageDimensions
-
- SLICE_DIRECTION_TEMPORAL - Static variable in interface edu.uthscsa.ric.mango.viewerslice.VolumeManager
-
- start(int, int, int) - Method in interface edu.uthscsa.ric.mango.ProgressMeter
-
Starts the progress meter.
- start(int, int, int, boolean) - Method in interface edu.uthscsa.ric.mango.ProgressMeter
-
Starts the progress meter.
- Surface - Interface in edu.uthscsa.ric.visualization.surface.primitives
-
A surface.
- SurfaceFormat - Interface in edu.uthscsa.ric.visualization.surface.io
-
A class that implements SurfaceFormat can be registered with Mango to extend the number of surface formats supported.
- SurfaceFormatException - Exception in edu.uthscsa.ric.visualization.surface.io
-
- SurfaceFormatException(String) - Constructor for exception edu.uthscsa.ric.visualization.surface.io.SurfaceFormatException
-
Constructor
- SurfaceFormatException(Throwable) - Constructor for exception edu.uthscsa.ric.visualization.surface.io.SurfaceFormatException
-
Constructor.
- SurfaceManager - Interface in edu.uthscsa.ric.mango.viewersurface
-
Manages surface data.
- SurfacePlugin - Interface in edu.uthscsa.ric.visualization.surface
-
A class which implements SurfacePlugin can be registered with Mango and have access to surface-related data.
- surfaceToShape(Shape, Shape) - Method in interface edu.uthscsa.ric.mango.viewersurface.SurfaceManager
-
Adds a line along the surface bewteen two shapes.