java.lang.Object
- gov.nih.mipav.view.Preferences

```
public class Preferences
extends java.lang.Object
```
This class reads the MIPAV preference file. The preference file stores a number of user specific parameters of the application. It is stored in the < user directory >/mipav directory so that it can be read and written to by the user. It is a text file and can be manually edited - not recommended.

Nested Class Summary

Nested Classes
Modifier and Type	Class	Description
`static class`	`Preferences.ComplexDisplay`	Defines options for displaying pixel values of complex images.
`static class`	`Preferences.DefaultDisplay`	Defines options for defining color and brightness display based on pixel values.
`static class`	`Preferences.InterpolateDisplay`	Defines options for interpolating displayed image slices.
`static class`	`Preferences.LogConfig`
`static class`	`Preferences.LogLevel`
`static class`	`Preferences.OperatingSystem`	Defines operating system on which MIPAV is running.
`static class`	`Preferences.SystemArchitecture`	Defines system architecture on which MIPAV is running.

Field Summary

Fields
Modifier and Type	Field	Description
`static int`	`CACHED_MAX_DEBUG_LINES`	Constant used to identify the maximum number of lines in the debugging panel.
`private static javax.swing.KeyStroke`	`currentShortcut`	The current shortcut
`static java.lang.String`	`DATA_PROVENANCE_SCHEMA`	The schema for the data provenance xml files
`static int`	`DEBUG_ALGORITHM`	Constant used to identify debugging category for general output by algorithms.
`static int`	`DEBUG_COMMS`	Constant used to identify debugging category for general output by communications.
`static int`	`DEBUG_FILEIO`	Constant used to identify debugging category for general output by FileIO.
`static int`	`DEBUG_MINOR`	Constant used to identify debugging category for general output.
`static int`	`DEBUG_SCRIPTING`	Constant used to identify debugging category for output of scripting system messages.
`private static Preferences.LogLevel`	`DEFAULT_LOG_LEVEL`	The default log level
`private static java.util.Properties`	`defaultProps`	A default list of properties used if the mipav.preferences file cannot be found.
`private static java.util.Hashtable<java.lang.String,javax.swing.KeyStroke>`	`defaultShortcutTable`	Hashtable that holds the default shortcuts
`static java.lang.String`	`DEFINITION_SEPARATOR`	The character that separates an item from its value in a definition or mapping (such as in the user file type definitions).
`static java.lang.String`	`ITEM_SEPARATOR`	The character that separates items (such as in the user file type definitions).
`private static Preferences.LogConfig`	`logConfig`	The current logging configuration
`private static ViewJFrameMessage`	`messageFrame`	Reference to the message frame where debug information can be displayed.
`private static java.util.Properties`	`mipavProps`	A list of MIPAV properties.
`static java.lang.String`	`PREF_ACTIVE_IMAGE_COLOR`	Constant that indicates the active image color.
`static java.lang.String`	`PREF_ACTIVE_IMAGE_COLOR_BORDERSIZE`	Constant that indicates the active image color border size
`static java.lang.String`	`PREF_AFNI_ORDER_LOAD`	Constant that indicates whether DICOM ordering should be used by default for loading AFNI images
`static java.lang.String`	`PREF_ALWAYS_SAVE_IMG_AS_ANALYZE`	Constant that indicates whether .hdr/.img files should always be written in analyze format (as opposed to asking whether to save as interfile or nifti).
`static java.lang.String`	`PREF_ALWAYS_SAVE_IMG_AS_INTERFILE`	Constant that indicates whether .hdr/.img files should always be written in interfile format (as opposed to asking whether to save as analyze or nifti).
`static java.lang.String`	`PREF_ALWAYS_SAVE_IMG_AS_NIFTI`	Constant that indicates whether .hdr/.img files should always be written in nifti format (as opposed to asking whether to save as analyze or interfile).
`static java.lang.String`	`PREF_ALWAYS_SAVE_MNC_AS_MINC1`	Constant that indicates whether .mnc files should always be written in minc1 CDF format (as opposed to asking whether to save as minc1 or minc2).
`static java.lang.String`	`PREF_ALWAYS_SAVE_MNC_AS_MINC2`	Constant that indicates whether .mnc files should always be written in minc2 HDF5 format (as opposed to asking whether to save as minc1 or minc2).
`static java.lang.String`	`PREF_APP_ICON`	Constant that indicates the application icon.
`static java.lang.String`	`PREF_APP_TITLE`	Constant that indicates the application title.
`static java.lang.String`	`PREF_ASK_DICOM_RECEIVER`	Constant that indicates whether to ask about starting dicom receiver on startup.
`static java.lang.String`	`PREF_AUTOSTART_DICOM_RECEIVER`	Constant that indicates whether to enable the dicom receiver on startup.
`static java.lang.String`	`PREF_BRICS_CONFLICT_RESOLUTION`
`static java.lang.String`	`PREF_BRICS_PLUGIN_BIDS_DIR`
`static java.lang.String`	`PREF_BRICS_PLUGIN_CSV_DIR`
`static java.lang.String`	`PREF_BRICS_PLUGIN_OUTPUT_DIR`
`static java.lang.String`	`PREF_BUG_REPORT_EMAIL`
`static java.lang.String`	`PREF_BUG_REPORT_NAME`
`static java.lang.String`	`PREF_BUG_REPORT_URGENCY`
`static java.lang.String`	`PREF_CLOSE_FRAME_CHECK`	Constant that indicates if user should be prompted on closing a frame.
`static java.lang.String`	`PREF_COMPLEX_DISPLAY`	Constant that indicates method used to display complex data values on MIPAV toolbar (MIPAV visually always shows magnitude or log magnitude).
`static java.lang.String`	`PREF_CONTINUOUS_VOI_CONTOUR`	Constant that indicates whether [SHIFT] must be held down to draw continuous contours (false = hold-shift).
`static java.lang.String`	`PREF_CROSSHAIR_CURSOR`	Constant that indicates the crosshair cursor to be used.
`static java.lang.String`	`PREF_CROSSHAIR_PIXEL_GAP`	Constant that indicates the pixel gap away from the center of the crosshair (in one direction) actual gap is 2x.
`static java.lang.String`	`PREF_DATA_PROVENANCE`	Constant that indicates if data provenance is turned on.
`static java.lang.String`	`PREF_DATA_PROVENANCE_FILENAME`	Constant that indicates the path where the system data provenance should be stored
`static java.lang.String`	`PREF_DATA_PROVENANCE_MODE`	constant for logging.
`static java.lang.String`	`PREF_DEBUG`	Constant for debug string.
`static java.lang.String`	`PREF_DEBUG_ALGORITHM`
`static java.lang.String`	`PREF_DEBUG_COMMS`
`static java.lang.String`	`PREF_DEBUG_FILEIO`
`static java.lang.String`	`PREF_DEBUG_MINOR`
`static java.lang.String`	`PREF_DEBUG_SCRIPTING`
`static java.lang.String`	`PREF_DEFAULT_DISPLAY`	Constant to indicate default brightness and color display to screen
`static java.lang.String`	`PREF_DEFAULT_FRAME_RATE`	Constant that indicates the default frame rate
`static java.lang.String`	`PREF_DEFAULT_IMAGE_BROWSER_DIR`	Constant that indicates the initial directory in which to open the file chooser of the image browser.
`static java.lang.String`	`PREF_DICOM_BROWSER_CONFIG`	Constant indicating the DICOM browser configuration.
`static java.lang.String`	`PREF_DICOM_SAVE_DICTIONARY`	constant that indicates the dicom save dictionary.
`static java.lang.String`	`PREF_DICOM_STORAGE_DIR`	Constant that indicates the default dicom storage directory.
`static java.lang.String`	`PREF_EDIDTORWINDOW_SIZE`
`static java.lang.String`	`PREF_FAST_TRIPLANAR_REPAINT`	Constant that indicates whether the triplanar frame should wait for a mouse released event before repainting all 9 tri-planar images.
`static java.lang.String`	`PREF_FILE_LUT_DISPLAY`	Constant that indicates whether image will display using a stored LUT (from image file or generic to image type)
`static java.lang.String`	`PREF_FILE_TEMP_DIR`	Constant that indicates the file temp directory.
`static java.lang.String`	`PREF_FILENAME_FILTER`	Constant that indicates the filename filter.
`static java.lang.String`	`PREF_FLIP_NIFTI_READ`
`static java.lang.String`	`PREF_FORCE_HISTO_UBYTE`
`static java.lang.String`	`PREF_GPU_COMP_ENABLED`	Constant that indicates if computing on the GPU is enabled
`static java.lang.String`	`PREF_HISTOGRAM_DISPLAY`	Constant that indicates whether image is updated in real-time on histogram changes
`static java.lang.String`	`PREF_IMAGE_DIR`	Constant that indicates the current image directory.
`static java.lang.String`	`PREF_IMAGE_LEVEL_DATA_PROVENANCE`	Constant that indicates if data provenance is turned on for individual images (and saved on image-save).
`static java.lang.String`	`PREF_IMAGE_TOOLBAR_ON`	Constant identifying if the miscellaneous toolbar is on by default.
`static java.lang.String`	`PREF_INTENSITY_LABEL_BACKGROUND_COLOR`	Constant that indicates the intensity label background color.
`static java.lang.String`	`PREF_INTENSITY_LABEL_COLOR`	Constant that indicates the intensity label color.
`static java.lang.String`	`PREF_INTERPOLATE_MODE`	Constant that indicates the mode of image interpolation used for display
`static java.lang.String`	`PREF_LAST_PAINT_BRUSH`	Constant that indicates the last used paint brush so that it will be set as the default when new images are opened or mipav is restarted.
`static java.lang.String`	`PREF_LAST_SCRIPT`	Constant that indicates the last script that was run.
`static java.lang.String`	`PREF_LAST_STACK_FLAG`	Constant that indicates the last stack flag.
`static java.lang.String`	`PREF_LAST_X_IMAGES`	constant for the names of the last X number of images used to be shown in quicklist.
`static java.lang.String`	`PREF_LAX_CHECK`	Constant that indicates if lax file should be checked on mipav start.
`static java.lang.String`	`PREF_LB_BORDER_COLOR`	Constant that indicates the LightBox border color variable.
`static java.lang.String`	`PREF_LB_BORDER_SIZE`	Constant that indicates the LightBox border size variable.
`static java.lang.String`	`PREF_LB_CUPDATE`	Constant that indicates continuous update of LightBox
`static java.lang.String`	`PREF_LB_GRID_COL`	Constant that indicates the LightBox grid column variable.
`static java.lang.String`	`PREF_LB_GRID_COLOR`	Constant that indicates the LightBox grid color variable.
`static java.lang.String`	`PREF_LB_GRID_ROW`	Constant that indicates the LightBox grid row variable.
`static java.lang.String`	`PREF_LB_GRID_SIZE`	Constant that indicates the LightBox grid size variable.
`static java.lang.String`	`PREF_LB_INCREMENT`	Constant that indicates the increment between displayed lightbox slices
`static java.lang.String`	`PREF_LB_LOCATION`	Constant that indicates the LightBox location variable.
`static java.lang.String`	`PREF_LB_MAG`	Constant that indicates the LightBox magnification variable.
`static java.lang.String`	`PREF_LB_ROW_DEPENDENT`	Constant that indicates the LightBox row dependant variable.
`static java.lang.String`	`PREF_LB_SELECTED_BORDER_COLOR`	Constant that indicates the LightBox selected border color variable.
`static java.lang.String`	`PREF_LB_SELECTED_BORDER_SIZE`	Constant that indicates the LightBox selected border size variable.
`static java.lang.String`	`PREF_LB_TSLICE`	Constant that indicates the LightBox individual t-slice variable.
`static java.lang.String`	`PREF_LEVEL`
`static java.lang.String`	`PREF_LOG_FILENAME`	Constant that indicates the pathname of the log file.
`static java.lang.String`	`PREF_LOGGING_ENABLED`	Constant for whether logging is enabled
`static java.lang.String`	`PREF_LOGMAG_DISPLAY`	Constant that indicates whether the log of the magnitude of an image is used for image display
`static java.lang.String`	`PREF_MAINWINDOW_SIZE`
`static java.lang.String`	`PREF_MAX`
`static java.lang.String`	`PREF_MAX_DEBUG_LINES`
`static java.lang.String`	`PREF_MAX_HEAP_SIZE`	The maximum heap size.
`static java.lang.String`	`PREF_MENU_FONT`	Constant that indicates the menu font.
`static java.lang.String`	`PREF_MENU_FONT_COLOR`	Constant that indicates the menu font color.
`static java.lang.String`	`PREF_MENU_FONT_SIZE`	Constant that indicates the menu font size.
`static java.lang.String`	`PREF_MIN`
`static java.lang.String`	`PREF_MULTI_THREADING_ENABLED`	Constant that indicated if the multi-theading is enabled
`static java.lang.String`	`PREF_NDAR_PLUGIN_CSV_DIR`
`static java.lang.String`	`PREF_NDAR_PLUGIN_DATASTRUCT_NAME`
`static java.lang.String`	`PREF_NDAR_PLUGIN_OUTPUT_DIR`
`static java.lang.String`	`PREF_NDAR_PLUGIN_SERVER`
`static java.lang.String`	`PREF_NINDS_ANON_PLUGIN_CSVDIR`	?
`static java.lang.String`	`PREF_NINDS_ANON_PLUGIN_INPUTDIR`	?
`static java.lang.String`	`PREF_NINDS_ANON_PLUGIN_OUTPUTDIR`	?
`static java.lang.String`	`PREF_NUMBER_OF_THREADS`	Constant that specifies how many system threads user would like MIPAV to use
`static java.lang.String`	`PREF_OPEN_IMAGES_IN_TILED_FORMAT`	Constant that indicates if images are to be open im tiled format
`static java.lang.String`	`PREF_OVERWRITE_STATISTICS`	constant on whether to overwrite the voi statistics file automatically
`static java.lang.String`	`PREF_OVERWRITE_VOI_STATS`	Constant indicating if VOI statistics file should be overwritten.
`static java.lang.String`	`PREF_PAINT_OPACITY`
`static java.lang.String`	`PREF_PAINT_TO_MASK_NEW`	Constant that indicates if the Paint-to-Mask operation should output to a new image
`static java.lang.String`	`PREF_PAINT_TOOLBAR_ON`	Constant indicating if the Paint Toolbar is on by default.
`static java.lang.String`	`PREF_PLUGIN_ALGORITHM`	plugin of algorithm type.
`static java.lang.String`	`PREF_PLUGIN_FILE`	plugin of file type.
`static java.lang.String`	`PREF_PLUGIN_INSTALL_DIR`	Constant that indicates the current directory where plugins can be installed from.
`static java.lang.String`	`PREF_PLUGIN_VIEW`	plugin of view type.
`static java.lang.String`	`PREF_QUICK_MASK_NEW`	Constant that indicates if the Quick Mask operation should output to a new image
`static java.lang.String`	`PREF_QUICKLIST_NUMBER`	number of recently used images to store in quicklist.
`static java.lang.String`	`PREF_RAW_BIG_ENDIAN`	Constant that indicates the default raw image big endian.
`static java.lang.String`	`PREF_RAW_DATA_OFFSET`	Constant that indicates the default raw image data offset.
`static java.lang.String`	`PREF_RAW_EXTENTS`	Constant that indicates the default raw image extents.
`static java.lang.String`	`PREF_RAW_RESOLUTIONS`	Constant that indicates the default raw image resolutions.
`static java.lang.String`	`PREF_RAW_TYPE`	Constant that indicates the default raw image type.
`static java.lang.String`	`PREF_RAW_UNITS`	Constant that indicates the default raw image units.
`static java.lang.String`	`PREF_RELATIVE_WINDOW_LEVEL`	Constant that indicates if window/level changes should be relative to the current transfer function values
`static java.lang.String`	`PREF_RGB_PAINT_COMPONENTS`	Constant indicating which channels should be used for applying paint to a RGB image
`static java.lang.String`	`PREF_SAVE_ALL_ON_SAVE`	Constant that indicates use of saving images, vois, and transfer functions.
`static java.lang.String`	`PREF_SAVE_DEFAULTS`	Constant that indicates if the last used parameters for algorithm dialogs should be used when they are opened.
`static java.lang.String`	`PREF_SAVE_PROMPT_OVERWRITE`	Constant that indicates if a prompt should be shown before an image file is overwritten.
`static java.lang.String`	`PREF_SAVE_XML_THUMBNAIL`	Constant that indicates the saving of the xml thumbnail during a save.
`static java.lang.String`	`PREF_SCRIPT_DIR`	Constant that indicates the script directory.
`static java.lang.String`	`PREF_SCRIPTING_TOOLBAR_ON`	Constant that indicates if the Scripting toolbar should be shown by default.
`static java.lang.String`	`PREF_SHORTCUTS`	Constant indicating the application shortcuts (user defined).
`static java.lang.String`	`PREF_SHOW_DICOM_OVERLAYS`	Constant that indicates if the DICOM overlay should be shown.
`static java.lang.String`	`PREF_SHOW_IMAGE_OVERLAYS`	Constant that indicates if the image overlay should be shown.
`static java.lang.String`	`PREF_SHOW_INTENSITY_ON_LEFT_CLICK`	Constant that indicates if left mouse click inside image should cause intensity value to display
`static java.lang.String`	`PREF_SHOW_LINE_ANGLE`	Constant that indicates whether the angle of line VOIs should be shown on screen.
`static java.lang.String`	`PREF_SHOW_OUTPUT`	Constant that indicates whether to show output.
`static java.lang.String`	`PREF_SHOW_OVERLAYS`	Constant that indicates whether to show image overlays.
`static java.lang.String`	`PREF_SHOW_PAINT_BORDER`	Constant that indicates if the paint border shown.
`static java.lang.String`	`PREF_SHOW_PRIVATE_TAGS`	Constant that indicates if the private DICOM tags are to be shown
`static java.lang.String`	`PREF_SHOW_SPLASH`	Constant that indicates if the splash graphic should be shown when mipav starts.
`static java.lang.String`	`PREF_SHOW_UI_LF`	Class name for selected look and feel type, can also be "None" (default selection)
`static java.lang.String`	`PREF_SHOW_VOI_NAME`	Constant that indicates whether to show the VOI name.
`static java.lang.String`	`PREF_SHOW_WINLEV_ON_RIGHT_CLICK`	Constant that indicates if right mouse click inside image should cause window/level changes
`static java.lang.String`	`PREF_STARTING_HEAP_SIZE`	The starting heap size.
`static java.lang.String`	`PREF_TRIM_FLAG`	Constant that indicates the VOI Trim flag for trimming adjacent points.
`static java.lang.String`	`PREF_TRIM_MASK`	Constant that indicates the mask trim level variable.
`static java.lang.String`	`PREF_TRIM_VOI`	Constant that indicates the VOI Trim level variable.
`static java.lang.String`	`PREF_TRIPLANAR_2X2_LAYOUT`	Constant that indicates whether the triplanar frame should use the old 2x2 layout or the newer 3x1 layout.
`static java.lang.String`	`PREF_TRIPLANAR_SCROLL_ORIGINAL`	Constant that indicates if the triplanar should scroll the original image
`static java.lang.String`	`PREF_TRIPLANAR_SNAP90`	Constant that indicates if triplanar protractor should snap to nearest multiple of 90 degrees.
`static java.lang.String`	`PREF_USE_INCORRECT_ACPC_XDIM`
`static java.lang.String`	`PREF_USER_FILETYPE_ASSOC`	Constant that indicates the user defined file type associations.
`static java.lang.String`	`PREF_USER_FILETYPES`	Constant that indicates the user defined file types.
`static java.lang.String`	`PREF_USER_FILETYPES_TEXTFIELDS`	?
`static java.lang.String`	`PREF_VOI_DRAW_COLOR`	the voi draw color constant.
`static java.lang.String`	`PREF_VOI_LPS_SAVE`	Constant indicating if VOIs should be saved as LPS or file coordinates
`static java.lang.String`	`PREF_VOI_POINT_DRAW_TYPE`	Constant indicating the look of VOI Points drawn on an image.
`static java.lang.String`	`PREF_VOI_START_COLOR`	the starting color for VOIs (first drawn).
`static java.lang.String`	`PREF_VOI_TEXT_BACKGROUND_COLOR`	Constant that indicates the last used VOI text background color.
`static java.lang.String`	`PREF_VOI_TEXT_COLOR`	Constant that indicates the last used VOI text color.
`static java.lang.String`	`PREF_VOI_THICKNESS`	Constant indicating the VOI Thickness.
`static java.lang.String`	`PREF_VOI_TOOLBAR_ON`	Constant indicating if the VOI Toolbar is on by default.
`static java.lang.String`	`PREF_WARN_AUDIO_AVI`	constant for warning the user when audio will be discarded from opened AVIs.
`static java.lang.String`	`PREF_WINDOW`
`static java.lang.String`	`PREF_ZOOM_LINEAR`	Constant that indicates if the zoom should be linear (otherwise geometric)
`private static java.lang.String`	`preferencesDir`	The place where user-individual mipav files should be put.
`private static java.lang.String`	`preferencesFile`	The MIPAV preferences file path and name.
`private static java.lang.String`	`preferencesFileName`	The MIPAV preferences file name (without path).
`static java.lang.String`	`SAVE_DICOM_TAGS`	Dicom tags to be saved
`private static java.util.Hashtable<java.lang.String,javax.swing.KeyStroke>`	`userShortcutTable`	Hashtable that holds all user-defined shortcuts

Constructor Summary

Constructors
Constructor Description

Preferences()

Method Summary

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`static boolean`	`addShortcut(java.lang.String command)`	Adds a new shortcut to the hashtable. if there is already a command predefined for the keystroke set from `setShortcut()`, it will be removed then replaced with the new command.
`static boolean`	`addShortcut(java.lang.String command, javax.swing.KeyStroke shortcut)`	Adds a new shortcut to the hashtable with a given keystroke. if there is already a command predefined for the keystroke set from `setShortcut()`, it will be removed then replaced with the new command.
`private static java.util.Hashtable<java.lang.String,javax.swing.KeyStroke>`	`buildDefaultShortcuts()`	Builds the default shortcut hashtable (not user modifiable).
`static void`	`buildShortcutTable()`	Builds a hashtable of actioncommands (keys) with associated keystrokes from the Preferences file.
`static void`	`data(java.lang.String string)`	Prints to data tab
`static void`	`debug(java.lang.String string)`	If at least one debug level is turned on, output the string.
`static void`	`debug(java.lang.String string1, boolean string2, java.lang.String string3, int category)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, boolean string2, java.lang.String string3, int category, Preferences.LogLevel level)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, char string2, java.lang.String string3, int category)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, char string2, java.lang.String string3, int category, Preferences.LogLevel level)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, double string2, java.lang.String string3, int category)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, double string2, java.lang.String string3, int category, Preferences.LogLevel level)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string, int category)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string, int category, Preferences.LogLevel level)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, java.lang.Object string2, java.lang.String string3, int category)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, java.lang.Object string2, java.lang.String string3, int category, Preferences.LogLevel level)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, java.lang.String string2)`	If at least one debug level is turned on, output the string.
`static void`	`debug(java.lang.String string1, java.lang.String string2, int category)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, java.lang.String string2, int category, Preferences.LogLevel level)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, java.lang.String string2, java.lang.String string3)`	If at least one debug level is turned on, output the string.
`static void`	`debug(java.lang.String string1, java.lang.String string2, java.lang.String string3, int category)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, java.lang.String string2, java.lang.String string3, int category, Preferences.LogLevel level)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, java.lang.String string2, java.lang.String string3, java.lang.String string4)`	If at least one debug level is turned on, output the string.
`static void`	`debug(java.lang.String string1, java.lang.String string2, java.lang.String string3, java.lang.String string4, int category)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, java.lang.String string2, java.lang.String string3, java.lang.String string4, int category, Preferences.LogLevel level)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, java.lang.String string2, java.lang.String string3, java.lang.String string4, java.lang.String string5)`	If at least one debug level is turned on, output the string.
`static void`	`debug(java.lang.String string1, java.lang.String string2, java.lang.String string3, java.lang.String string4, java.lang.String string5, int category)`	If the debug is turned on for the given level, output to the messageFrame.
`static void`	`debug(java.lang.String string1, java.lang.String string2, java.lang.String string3, java.lang.String string4, java.lang.String string5, int category, Preferences.LogLevel level)`	If the debug is turned on for the given level, output to the messageFrame.
`static boolean`	`debugLevel(int category)`	Indicates whether debug is turned on for the given level.
`static void`	`debugMessageFrameAppend(java.lang.String string)`	Appends the specified message to the message frame.
`static Preferences.ComplexDisplay`	`getComplexDisplay()`	Returns how pixel values are displayed on the MIPAV toolbar for complex images.
`static java.lang.String`	`getData()`	Gets all the text printed to the data panel.
`static java.lang.String`	`getDebug()`	Gets all the text printed to the debug panel.
`static Preferences.LogConfig`	`getDebugPreferences()`	Gets the LogConfiguration for logging categories (minor, algorithm, fileIO, comms, scripting).
`static Preferences.DefaultDisplay`	`getDefaultDisplay()`	Returns how pixel values of images are displayed in terms or brightness values and possible colors.
`static float`	`getDefaultFrameRate()`	Gets the default frame rate used in saving AVI movies.
`static java.lang.String`	`getDefaultHostKey()`	Accessor to get the default chat/file server host key.
`static java.lang.String`	`getDefaultServerKey()`	Accessor to get default DICOM image server key.
`static java.util.Hashtable<java.lang.String,javax.swing.KeyStroke>`	`getDefaultShortcutTable()`	Gets the Default Hashtable used to store the shortcut keystrokes and commands.
`static java.lang.String`	`getDefaultStorageKey()`	Accessor to get default DICOM image storage location.
`static java.util.Vector<java.lang.String>`	`getDICOMBrowserTableConfiguration()`	Gets the user-configured columns that indicate the DICOM tags that are displayed in the DICOM browser table.
`static java.lang.String`	`getDICOMSaveDictionary()`	Accessor to get the default DICOM Save Dictionary (which tags to save into XML header.
`static int`	`getFileFilter()`	Returns the index of the latest used file filter.
`static java.lang.String`	`getFileTempDir()`	Returns the temporary directory which is used to store files to be deleted.
`static java.lang.String`	`getHostIP(java.lang.String AETitle)`	Accessor to get host (chat/file) server Internet Protocol for selected Name.
`static java.lang.String`	`getIconName()`	Returns the name of the application icon.
`static java.lang.String`	`getImageDirectory()`	Returns the image directory used last time.
`static Preferences.InterpolateDisplay`	`getInterpolateDisplay()`	Returns how pixel values are interpolated for displayed slices.
`static java.lang.String`	`getIP(java.lang.String AETitle)`	Accessor to get DICOM image server Internet Protocol for selected AETitle.
`static java.lang.String`	`getLastImageAt(int index)`	Returns the image name of "last X images" at the given index.
`static java.lang.String`	`getLastOpenSequenceChannels()`	Used by ViewOpenImageSequence to get the saved number of channels used when opening an image sequence.
`static java.lang.String`	`getLastOpenSequenceOrdering()`	Used by ViewOpenImageSequence to get the Z-C-T ordering of data used when opening an image sequence.
`static java.lang.String`	`getLastOpenSequencePath()`	Used by ViewOpenImageSequence to get the last path used when opening an image sequence.
`static java.lang.String`	`getLastOpenSequenceSlices()`	Used by ViewOpenImageSequence to get the saved number of slices used when opening an image sequence.
`static java.lang.String`	`getLastOpenSequenceTimePoints()`	Used by ViewOpenImageSequence to get the saved number of time points used when opening an image sequence.
`static java.lang.String[]`	`getLastXImages()`	Gets the names of the last X number of images that were loaded from the Preferences file.
`static int`	`getMaxDebugLines()`
`static java.util.Properties`	`getMipavProps()`
`static java.lang.String`	`getNextHostKey()`	Returns the next host key.
`static java.lang.String`	`getNextServerKey()`	Returns the next server key.
`static java.lang.String`	`getNextStorageKey()`	Returns the next storage key.
`static int`	`getNumberOfThreads()`	The number of threads available for MIPAV for processing.
`static java.lang.String[]`	`getOverlayNames(boolean isDicom)`	Retrieves the list of overlay names (user can type whatever).
`static java.lang.String[]`	`getOverlays(boolean isDicom)`	Gets the image overlay codes (they identify what to display in the corners of the image), from the preference file.
`static java.lang.String`	`getPluginInstallDirectory()`	Returns the directory last used for installing plugins.
`static java.lang.String`	`getPluginUserDir()`	Returns String indicating the directory where plugin class files are stored.
`static int`	`getPort(java.lang.String AETitle)`	Accessor to get DICOM image server's port for selected AETitle.
`static java.lang.String`	`getPreferencesDir()`	Return the directory where mipav-generated, user-specific files should be placed.
`static java.lang.String`	`getProperty(java.lang.String key)`	Accessor to return a specfic properties given a key.
`static java.lang.String`	`getScriptFile()`	DOCUMENT ME!
`static java.lang.String`	`getScriptsDirectory()`	Returns the default script directory. if null, returns the user's current working directory + "scripts"
`static javax.swing.KeyStroke`	`getShortcut(java.lang.String command)`	Returns a keystroke shortcut for the given command.
`static java.lang.String`	`getShortcutCommand(javax.swing.KeyStroke ks)`	Gets the command associated with the shortcut (if there is one).
`static java.awt.Dimension`	`getSubsampleDimensions()`	Used by ViewOpenImageSequence to get the subsample dimensions that were saved in the preferences file.
`static boolean`	`getTrimAdjacient()`	Accessor to get the trim parameter (trimming contour of adjacent points).
`static float`	`getTrimMask()`	Accessor to get the TRIM parameter (trimming VOIcontour of points).
`static float`	`getTrimVoi()`	Accessor to get the TRIM parameter (trimming VOIcontour of points).
`static java.util.Hashtable<java.lang.String,javax.swing.KeyStroke>`	`getUserShortcutTable()`	Gets the User defined Hashtable used to store the shortcut keystrokes and commands.
`static int`	`getVOIColorIncrement()`	Gets the VOI color increment value.
`static java.awt.Color`	`getVOIDrawColor()`	Gets the VOI draw color.
`static int`	`getVOIThickness()`	DOCUMENT ME!
`static void`	`initDebugPreferences()`	this method must be invoked very early on in the startup sequence (typically in the startup main method or ViewUserInterface.
`static boolean`	`is(java.lang.String propertyName)`	Gets the boolean state of the property, where in the preferences file the "yes", "on", "true" all return `true`, but anything else (or non-existent property) returns `false`.
`static boolean`	`isDebug()`	Returns flag indicating if the debug flag is true or false.
`static boolean`	`isDefaultCommand(java.lang.String command)`	DOCUMENT ME!
`static boolean`	`isDefaultKeyStroke(javax.swing.KeyStroke ks)`	DOCUMENT ME!
`static boolean`	`isGpuCompEnabled()`	Indicates whether GPU-computing should be enabled.
`static boolean`	`isHistogramDisplay()`	Indicates whether the image display should be updated in real-time as histogram LUTs are changed
`static boolean`	`isInterpolateDisplay()`	Maintained for backwards compatibility.
`static boolean`	`isLogAlgorithmEnabled()`
`boolean`	`isLogCommsEnabled()`
`static boolean`	`isLogFileIOEnabled()`
`static boolean`	`isLogMinorEnabled()`
`boolean`	`isLogScriptingEnabled()`
`static boolean`	`isMultiThreadingEnabled()`	Indicates whether multi-threading should be enabled for algorithms.
`static boolean`	`isPreference(java.lang.String propertyName)`	Gets the boolean state of the property, where in the preferences file the "yes", "on", "true" all return `true`, but anything else (or non-existent property) returns `false`.
`static boolean`	`isPreferenceSet(java.lang.String propertyName)`	Returns whether the user has a preference indicated for a particular property.
`static void`	`print()`	Prints mipav.preferences to System.out.
`static boolean`	`read()`	Reads the "mipav.preferences" file from the user's 'home' directory.
`static void`	`removeProperty(java.lang.String key)`	Removes the property key from the MIPAV property list.
`static void`	`removeShortcut(java.lang.String commandToRemove)`	Removes a shortcut from the table.
`static void`	`resetToDefaults()`	Resets the current MIPAV properties to the defaults and saves the preferences file.
`static boolean`	`save()`	Saves preference file to the user's 'home' directory.
`static void`	`saveShortcuts()`	Sets the property for shortcuts by building string from ViewUserInterface's Shortcut Hashtable.
`static void`	`saveSubsampleDimensions(java.awt.Dimension subsampleDimension)`	Used by ViewOpenImageSequence to save its subsample dimensions for the next time it is opened.
`static void`	`setAlwaysSaveImgAsAnalyze(boolean doSaveAnalyze)`	Sets whether all imgs should be saved in analyze format (i.e., don't ask about whether to save as analyze/interfile/nifti).
`static void`	`setAlwaysSaveImgAsInterfile(boolean doSaveInterfile)`	Sets whether all imgs should be saved in interfile format (i.e., don't ask about whether to save as analyze/interfile/nifti).
`static void`	`setAlwaysSaveImgAsNifti(boolean doSaveNifti)`	Sets whether all imgs should be saved in nifti format (i.e., don't ask about whether to save as analyze/interfile/nifti).
`static void`	`setAlwaysSaveMncAsMinc1(boolean doSaveMinc1)`	Sets whether all mncs should be saved in minc1 cdf format (i.e., don't ask about whether to save as minc1/minc2).
`static void`	`setAlwaysSaveMncAsMinc2(boolean doSaveMinc2)`	Sets whether all mncs should be saved in minc2 hdf5 format (i.e., don't ask about whether to save as minc1/minc2).
`static void`	`setCurrentShortcut(javax.swing.KeyStroke ks)`	Sets the current keystroke shortcut for assignment once a command has been passed in.
`static void`	`setDebugLevels(java.util.Map<java.lang.Integer,java.lang.String> debugLevels)`	Sets the debug levels
`static void`	`setDefaultDisplay(Preferences.DefaultDisplay display)`	Sets the default display mode for 2D/3D image display.
`static boolean`	`setDICOMBrowserTableConfiguration(java.util.Vector<java.lang.String> newConfiguration)`	Sets the user-configured columns that indicate the DICOM tags that are displayed in the DICOM browser table.
`static void`	`setFileFilter(int fileFilterIndex)`	Sets the current used file filter as the latest used file filter.
`static void`	`setFileTempDir(java.lang.String tempDir)`	Sets the temporary directory which is used for files which will be deleted.
`static void`	`setImageDirectory(java.io.File imageDirectory)`	Sets the image directory as the latest used image directory.
`static void`	`setInterpolationMode(Preferences.InterpolateDisplay interp)`	Sets the display interpolation mode for 2D image display.
`static void`	`setLastImage(java.lang.String name, boolean multiFile, int numDims)`	Sets the last image loaded in the Preferences file.
`static void`	`setLastOpenSequenceParams(java.lang.String slices, java.lang.String channels, java.lang.String timePoints, java.lang.String ordering)`	Used by ViewOpenImageSequence to save the user's most recent slices, channels, time points, and ordering that were specified in the component.
`static void`	`setLastOpenSequencePath(java.lang.String path)`	Used by ViewOpenImageSequence to save the path used when opening an image sequence.
`void`	`setLogLevelAlgorithm(Preferences.LogLevel level)`
`void`	`setLogLevelComms(Preferences.LogLevel level)`
`void`	`setLogLevelFileIO(Preferences.LogLevel level)`
`void`	`setLogLevelMinor(Preferences.LogLevel level)`
`void`	`setLogLevelScripting(Preferences.LogLevel level)`
`static void`	`setMaxDebugLines(int lines)`	Sets the maximum number of debug lines that are output
`static void`	`setMessageFrame(ViewJFrameMessage mFrame)`	Sets the message frame.
`static void`	`setOverlayNames(boolean isDicom, java.lang.String[] overlays)`	Sets the labels for each overlay position.
`static void`	`setOverlays(boolean isDicom, java.lang.String[] overlays)`	Sets the overlay tag identifiers in the preference file.
`static void`	`setPluginInstallDirectory(java.io.File pluginInstallDirectory)`	Sets the plugin install directory.
`static void`	`setPreferencesFileDirectory(java.lang.String fileDir)`	Change the file directory of the preferences file.
`static void`	`setPreferencesFileName(java.lang.String fileName)`	Change the file name of the preferences file we should use (without any path).
`static boolean`	`setProperty(java.lang.String key, java.lang.Object value)`	Sets the property key in the MIPAV property list and saves it to a file.
`static void`	`setScriptFile(java.lang.String scriptFile)`	DOCUMENT ME!
`static void`	`setScriptsDirectory(java.lang.String scriptsDirectory)`	Sets the scripts directory to the new scripts directory.
`static void`	`setShowDICOMOverlays(boolean doShow)`	Sets whether to show the DICOM overlays.
`static void`	`setShowImageOverlays(boolean doShow)`	Sets whether to show the Image overlays.

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Field Detail
  - PREF_SAVE_ALL_ON_SAVE
```
public static final java.lang.String PREF_SAVE_ALL_ON_SAVE
```
    Constant that indicates use of saving images, vois, and transfer functions.
    
    See Also:
    
    Constant Field Values
  - PREF_SAVE_XML_THUMBNAIL
```
public static final java.lang.String PREF_SAVE_XML_THUMBNAIL
```
    Constant that indicates the saving of the xml thumbnail during a save.
    
    See Also:
    
    Constant Field Values
  - PREF_FLIP_NIFTI_READ
```
public static final java.lang.String PREF_FLIP_NIFTI_READ
```
    See Also:
    
    Constant Field Values
  - PREF_FILE_TEMP_DIR
```
public static final java.lang.String PREF_FILE_TEMP_DIR
```
    Constant that indicates the file temp directory.
    
    See Also:
    
    Constant Field Values
  - PREF_LAX_CHECK
```
public static final java.lang.String PREF_LAX_CHECK
```
    Constant that indicates if lax file should be checked on mipav start.
    
    See Also:
    
    Constant Field Values
  - PREF_CLOSE_FRAME_CHECK
```
public static final java.lang.String PREF_CLOSE_FRAME_CHECK
```
    Constant that indicates if user should be prompted on closing a frame.
    
    See Also:
    
    Constant Field Values
  - PREF_OVERWRITE_VOI_STATS
```
public static final java.lang.String PREF_OVERWRITE_VOI_STATS
```
    Constant indicating if VOI statistics file should be overwritten.
    
    See Also:
    
    Constant Field Values
  - PREF_DATA_PROVENANCE
```
public static final java.lang.String PREF_DATA_PROVENANCE
```
    Constant that indicates if data provenance is turned on.
    
    See Also:
    
    Constant Field Values
  - PREF_IMAGE_LEVEL_DATA_PROVENANCE
```
public static final java.lang.String PREF_IMAGE_LEVEL_DATA_PROVENANCE
```
    Constant that indicates if data provenance is turned on for individual images (and saved on image-save).
    
    See Also:
    
    Constant Field Values
  - PREF_DATA_PROVENANCE_FILENAME
```
public static final java.lang.String PREF_DATA_PROVENANCE_FILENAME
```
    Constant that indicates the path where the system data provenance should be stored
    
    See Also:
    
    Constant Field Values
  - PREF_DEBUG
```
public static final java.lang.String PREF_DEBUG
```
    Constant for debug string.
    
    See Also:
    
    Constant Field Values
  - PREF_LOGGING_ENABLED
```
public static final java.lang.String PREF_LOGGING_ENABLED
```
    Constant for whether logging is enabled
    
    See Also:
    
    Constant Field Values
  - PREF_QUICK_MASK_NEW
```
public static final java.lang.String PREF_QUICK_MASK_NEW
```
    Constant that indicates if the Quick Mask operation should output to a new image
    
    See Also:
    
    Constant Field Values
  - PREF_PAINT_TO_MASK_NEW
```
public static final java.lang.String PREF_PAINT_TO_MASK_NEW
```
    Constant that indicates if the Paint-to-Mask operation should output to a new image
    
    See Also:
    
    Constant Field Values
  - PREF_ZOOM_LINEAR
```
public static final java.lang.String PREF_ZOOM_LINEAR
```
    Constant that indicates if the zoom should be linear (otherwise geometric)
    
    See Also:
    
    Constant Field Values
  - PREF_INTENSITY_LABEL_COLOR
```
public static final java.lang.String PREF_INTENSITY_LABEL_COLOR
```
    Constant that indicates the intensity label color.
    
    See Also:
    
    Constant Field Values
  - PREF_INTENSITY_LABEL_BACKGROUND_COLOR
```
public static final java.lang.String PREF_INTENSITY_LABEL_BACKGROUND_COLOR
```
    Constant that indicates the intensity label background color.
    
    See Also:
    
    Constant Field Values
  - PREF_DEFAULT_FRAME_RATE
```
public static final java.lang.String PREF_DEFAULT_FRAME_RATE
```
    Constant that indicates the default frame rate
    
    See Also:
    
    Constant Field Values
  - PREF_SAVE_DEFAULTS
```
public static final java.lang.String PREF_SAVE_DEFAULTS
```
    Constant that indicates if the last used parameters for algorithm dialogs should be used when they are opened.
    
    See Also:
    
    Constant Field Values
  - PREF_SAVE_PROMPT_OVERWRITE
```
public static final java.lang.String PREF_SAVE_PROMPT_OVERWRITE
```
    Constant that indicates if a prompt should be shown before an image file is overwritten.
    
    See Also:
    
    Constant Field Values
  - PREF_SHOW_DICOM_OVERLAYS
```
public static final java.lang.String PREF_SHOW_DICOM_OVERLAYS
```
    Constant that indicates if the DICOM overlay should be shown.
    
    See Also:
    
    Constant Field Values
  - PREF_SHOW_IMAGE_OVERLAYS
```
public static final java.lang.String PREF_SHOW_IMAGE_OVERLAYS
```
    Constant that indicates if the image overlay should be shown.
    
    See Also:
    
    Constant Field Values
  - PREF_SHOW_PAINT_BORDER
```
public static final java.lang.String PREF_SHOW_PAINT_BORDER
```
    Constant that indicates if the paint border shown.
    
    See Also:
    
    Constant Field Values
  - PREF_SHOW_PRIVATE_TAGS
```
public static final java.lang.String PREF_SHOW_PRIVATE_TAGS
```
    Constant that indicates if the private DICOM tags are to be shown
    
    See Also:
    
    Constant Field Values
  - PREF_SHOW_SPLASH
```
public static final java.lang.String PREF_SHOW_SPLASH
```
    Constant that indicates if the splash graphic should be shown when mipav starts.
    
    See Also:
    
    Constant Field Values
  - PREF_SHOW_UI_LF
```
public static final java.lang.String PREF_SHOW_UI_LF
```
    Class name for selected look and feel type, can also be "None" (default selection)
    
    See Also:
    
    Constant Field Values
  - PREF_LOG_FILENAME
```
public static final java.lang.String PREF_LOG_FILENAME
```
    Constant that indicates the pathname of the log file.
    
    See Also:
    
    Constant Field Values
  - PREF_IMAGE_TOOLBAR_ON
```
public static final java.lang.String PREF_IMAGE_TOOLBAR_ON
```
    Constant identifying if the miscellaneous toolbar is on by default.
    
    See Also:
    
    Constant Field Values
  - PREF_PAINT_TOOLBAR_ON
```
public static final java.lang.String PREF_PAINT_TOOLBAR_ON
```
    Constant indicating if the Paint Toolbar is on by default.
    
    See Also:
    
    Constant Field Values
  - PREF_SCRIPTING_TOOLBAR_ON
```
public static final java.lang.String PREF_SCRIPTING_TOOLBAR_ON
```
    Constant that indicates if the Scripting toolbar should be shown by default.
    
    See Also:
    
    Constant Field Values
  - PREF_VOI_TOOLBAR_ON
```
public static final java.lang.String PREF_VOI_TOOLBAR_ON
```
    Constant indicating if the VOI Toolbar is on by default.
    
    See Also:
    
    Constant Field Values
  - PREF_SHORTCUTS
```
public static final java.lang.String PREF_SHORTCUTS
```
    Constant indicating the application shortcuts (user defined).
    
    See Also:
    
    Constant Field Values
  - PREF_DICOM_BROWSER_CONFIG
```
public static final java.lang.String PREF_DICOM_BROWSER_CONFIG
```
    Constant indicating the DICOM browser configuration.
    
    See Also:
    
    Constant Field Values
  - PREF_FAST_TRIPLANAR_REPAINT
```
public static final java.lang.String PREF_FAST_TRIPLANAR_REPAINT
```
    Constant that indicates whether the triplanar frame should wait for a mouse released event before repainting all 9 tri-planar images. Inserted here because repainting 9 images in real time gets to be tedious.
    
    See Also:
    
    Constant Field Values
  - PREF_TRIPLANAR_SNAP90
```
public static final java.lang.String PREF_TRIPLANAR_SNAP90
```
    Constant that indicates if triplanar protractor should snap to nearest multiple of 90 degrees.
    
    See Also:
    
    Constant Field Values
  - PREF_TRIPLANAR_SCROLL_ORIGINAL
```
public static final java.lang.String PREF_TRIPLANAR_SCROLL_ORIGINAL
```
    Constant that indicates if the triplanar should scroll the original image
    
    See Also:
    
    Constant Field Values
  - PREF_SHOW_LINE_ANGLE
```
public static final java.lang.String PREF_SHOW_LINE_ANGLE
```
    Constant that indicates whether the angle of line VOIs should be shown on screen.
    
    See Also:
    
    Constant Field Values
  - PREF_CONTINUOUS_VOI_CONTOUR
```
public static final java.lang.String PREF_CONTINUOUS_VOI_CONTOUR
```
    Constant that indicates whether [SHIFT] must be held down to draw continuous contours (false = hold-shift).
    
    See Also:
    
    Constant Field Values
  - PREF_VOI_POINT_DRAW_TYPE
```
public static final java.lang.String PREF_VOI_POINT_DRAW_TYPE
```
    Constant indicating the look of VOI Points drawn on an image.
    
    See Also:
    
    Constant Field Values
  - PREF_VOI_LPS_SAVE
```
public static final java.lang.String PREF_VOI_LPS_SAVE
```
    Constant indicating if VOIs should be saved as LPS or file coordinates
    
    See Also:
    
    Constant Field Values
  - PREF_TRIPLANAR_2X2_LAYOUT
```
public static final java.lang.String PREF_TRIPLANAR_2X2_LAYOUT
```
    Constant that indicates whether the triplanar frame should use the old 2x2 layout or the newer 3x1 layout.
    
    See Also:
    
    Constant Field Values
  - PREF_CROSSHAIR_PIXEL_GAP
```
public static final java.lang.String PREF_CROSSHAIR_PIXEL_GAP
```
    Constant that indicates the pixel gap away from the center of the crosshair (in one direction) actual gap is 2x.
    
    See Also:
    
    Constant Field Values
  - PREF_MENU_FONT
```
public static final java.lang.String PREF_MENU_FONT
```
    Constant that indicates the menu font.
    
    See Also:
    
    Constant Field Values
  - PREF_MENU_FONT_SIZE
```
public static final java.lang.String PREF_MENU_FONT_SIZE
```
    Constant that indicates the menu font size.
    
    See Also:
    
    Constant Field Values
  - PREF_MENU_FONT_COLOR
```
public static final java.lang.String PREF_MENU_FONT_COLOR
```
    Constant that indicates the menu font color.
    
    See Also:
    
    Constant Field Values
  - PREF_SHOW_VOI_NAME
```
public static final java.lang.String PREF_SHOW_VOI_NAME
```
    Constant that indicates whether to show the VOI name.
    
    See Also:
    
    Constant Field Values
  - PREF_SHOW_OUTPUT
```
public static final java.lang.String PREF_SHOW_OUTPUT
```
    Constant that indicates whether to show output.
    
    See Also:
    
    Constant Field Values
  - PREF_LAST_STACK_FLAG
```
public static final java.lang.String PREF_LAST_STACK_FLAG
```
    Constant that indicates the last stack flag.
    
    See Also:
    
    Constant Field Values
  - PREF_DEFAULT_IMAGE_BROWSER_DIR
```
public static final java.lang.String PREF_DEFAULT_IMAGE_BROWSER_DIR
```
    Constant that indicates the initial directory in which to open the file chooser of the image browser.
    
    See Also:
    
    Constant Field Values
  - PREF_MULTI_THREADING_ENABLED
```
public static final java.lang.String PREF_MULTI_THREADING_ENABLED
```
    Constant that indicated if the multi-theading is enabled
    
    See Also:
    
    Constant Field Values
  - PREF_GPU_COMP_ENABLED
```
public static final java.lang.String PREF_GPU_COMP_ENABLED
```
    Constant that indicates if computing on the GPU is enabled
    
    See Also:
    
    Constant Field Values
  - PREF_NUMBER_OF_THREADS
```
public static final java.lang.String PREF_NUMBER_OF_THREADS
```
    Constant that specifies how many system threads user would like MIPAV to use
    
    See Also:
    
    Constant Field Values
  - PREF_SHOW_INTENSITY_ON_LEFT_CLICK
```
public static final java.lang.String PREF_SHOW_INTENSITY_ON_LEFT_CLICK
```
    Constant that indicates if left mouse click inside image should cause intensity value to display
    
    See Also:
    
    Constant Field Values
  - PREF_SHOW_WINLEV_ON_RIGHT_CLICK
```
public static final java.lang.String PREF_SHOW_WINLEV_ON_RIGHT_CLICK
```
    Constant that indicates if right mouse click inside image should cause window/level changes
    
    See Also:
    
    Constant Field Values
  - PREF_RELATIVE_WINDOW_LEVEL
```
public static final java.lang.String PREF_RELATIVE_WINDOW_LEVEL
```
    Constant that indicates if window/level changes should be relative to the current transfer function values
    
    See Also:
    
    Constant Field Values
  - PREF_OPEN_IMAGES_IN_TILED_FORMAT
```
public static final java.lang.String PREF_OPEN_IMAGES_IN_TILED_FORMAT
```
    Constant that indicates if images are to be open im tiled format
    
    See Also:
    
    Constant Field Values
  - PREF_LAST_PAINT_BRUSH
```
public static final java.lang.String PREF_LAST_PAINT_BRUSH
```
    Constant that indicates the last used paint brush so that it will be set as the default when new images are opened or mipav is restarted.
    
    See Also:
    
    Constant Field Values
  - PREF_USER_FILETYPE_ASSOC
```
public static final java.lang.String PREF_USER_FILETYPE_ASSOC
```
    Constant that indicates the user defined file type associations.
    
    See Also:
    
    Constant Field Values
  - PREF_USER_FILETYPES
```
public static final java.lang.String PREF_USER_FILETYPES
```
    Constant that indicates the user defined file types.
    
    See Also:
    
    Constant Field Values
  - PREF_USER_FILETYPES_TEXTFIELDS
```
public static final java.lang.String PREF_USER_FILETYPES_TEXTFIELDS
```
    ?
    
    See Also:
    
    Constant Field Values
  - PREF_FILENAME_FILTER
```
public static final java.lang.String PREF_FILENAME_FILTER
```
    Constant that indicates the filename filter.
    
    See Also:
    
    Constant Field Values
  - PREF_IMAGE_DIR
```
public static final java.lang.String PREF_IMAGE_DIR
```
    Constant that indicates the current image directory.
    
    See Also:
    
    Constant Field Values
  - PREF_PLUGIN_INSTALL_DIR
```
public static final java.lang.String PREF_PLUGIN_INSTALL_DIR
```
    Constant that indicates the current directory where plugins can be installed from.
    
    See Also:
    
    Constant Field Values
  - PREF_VOI_TEXT_COLOR
```
public static final java.lang.String PREF_VOI_TEXT_COLOR
```
    Constant that indicates the last used VOI text color.
    
    See Also:
    
    Constant Field Values
  - PREF_VOI_TEXT_BACKGROUND_COLOR
```
public static final java.lang.String PREF_VOI_TEXT_BACKGROUND_COLOR
```
    Constant that indicates the last used VOI text background color.
    
    See Also:
    
    Constant Field Values
  - PREF_DICOM_STORAGE_DIR
```
public static final java.lang.String PREF_DICOM_STORAGE_DIR
```
    Constant that indicates the default dicom storage directory.
    
    See Also:
    
    Constant Field Values
  - PREF_AUTOSTART_DICOM_RECEIVER
```
public static final java.lang.String PREF_AUTOSTART_DICOM_RECEIVER
```
    Constant that indicates whether to enable the dicom receiver on startup.
    
    See Also:
    
    Constant Field Values
  - PREF_ASK_DICOM_RECEIVER
```
public static final java.lang.String PREF_ASK_DICOM_RECEIVER
```
    Constant that indicates whether to ask about starting dicom receiver on startup.
    
    See Also:
    
    Constant Field Values
  - PREF_ACTIVE_IMAGE_COLOR
```
public static final java.lang.String PREF_ACTIVE_IMAGE_COLOR
```
    Constant that indicates the active image color.
    
    See Also:
    
    Constant Field Values
  - PREF_ACTIVE_IMAGE_COLOR_BORDERSIZE
```
public static final java.lang.String PREF_ACTIVE_IMAGE_COLOR_BORDERSIZE
```
    Constant that indicates the active image color border size
    
    See Also:
    
    Constant Field Values
  - PREF_QUICKLIST_NUMBER
```
public static final java.lang.String PREF_QUICKLIST_NUMBER
```
    number of recently used images to store in quicklist.
    
    See Also:
    
    Constant Field Values
  - PREF_LAST_X_IMAGES
```
public static final java.lang.String PREF_LAST_X_IMAGES
```
    constant for the names of the last X number of images used to be shown in quicklist.
    
    See Also:
    
    Constant Field Values
  - PREF_WARN_AUDIO_AVI
```
public static final java.lang.String PREF_WARN_AUDIO_AVI
```
    constant for warning the user when audio will be discarded from opened AVIs.
    
    See Also:
    
    Constant Field Values
  - PREF_OVERWRITE_STATISTICS
```
public static final java.lang.String PREF_OVERWRITE_STATISTICS
```
    constant on whether to overwrite the voi statistics file automatically
    
    See Also:
    
    Constant Field Values
  - PREF_CROSSHAIR_CURSOR
```
public static final java.lang.String PREF_CROSSHAIR_CURSOR
```
    Constant that indicates the crosshair cursor to be used.
    
    See Also:
    
    Constant Field Values
  - PREF_DEFAULT_DISPLAY
```
public static final java.lang.String PREF_DEFAULT_DISPLAY
```
    Constant to indicate default brightness and color display to screen
    
    See Also:
    
    Constant Field Values
  - PREF_COMPLEX_DISPLAY
```
public static final java.lang.String PREF_COMPLEX_DISPLAY
```
    Constant that indicates method used to display complex data values on MIPAV toolbar (MIPAV visually always shows magnitude or log magnitude).
    
    See Also:
    
    Constant Field Values
  - PREF_LOGMAG_DISPLAY
```
public static final java.lang.String PREF_LOGMAG_DISPLAY
```
    Constant that indicates whether the log of the magnitude of an image is used for image display
    
    See Also:
    
    Constant Field Values
  - PREF_AFNI_ORDER_LOAD
```
public static final java.lang.String PREF_AFNI_ORDER_LOAD
```
    Constant that indicates whether DICOM ordering should be used by default for loading AFNI images
    
    See Also:
    
    Constant Field Values
  - PREF_FILE_LUT_DISPLAY
```
public static final java.lang.String PREF_FILE_LUT_DISPLAY
```
    Constant that indicates whether image will display using a stored LUT (from image file or generic to image type)
    
    See Also:
    
    Constant Field Values
  - PREF_INTERPOLATE_MODE
```
public static final java.lang.String PREF_INTERPOLATE_MODE
```
    Constant that indicates the mode of image interpolation used for display
    
    See Also:
    
    Constant Field Values
  - PREF_HISTOGRAM_DISPLAY
```
public static final java.lang.String PREF_HISTOGRAM_DISPLAY
```
    Constant that indicates whether image is updated in real-time on histogram changes
    
    See Also:
    
    Constant Field Values
  - PREF_TRIM_VOI
```
public static final java.lang.String PREF_TRIM_VOI
```
    Constant that indicates the VOI Trim level variable.
    
    See Also:
    
    Constant Field Values
  - PREF_TRIM_MASK
```
public static final java.lang.String PREF_TRIM_MASK
```
    Constant that indicates the mask trim level variable.
    
    See Also:
    
    Constant Field Values
  - PREF_TRIM_FLAG
```
public static final java.lang.String PREF_TRIM_FLAG
```
    Constant that indicates the VOI Trim flag for trimming adjacent points.
    
    See Also:
    
    Constant Field Values
  - PREF_VOI_THICKNESS
```
public static final java.lang.String PREF_VOI_THICKNESS
```
    Constant indicating the VOI Thickness.
    
    See Also:
    
    Constant Field Values
  - PREF_VOI_DRAW_COLOR
```
public static final java.lang.String PREF_VOI_DRAW_COLOR
```
    the voi draw color constant.
    
    See Also:
    
    Constant Field Values
  - PREF_VOI_START_COLOR
```
public static final java.lang.String PREF_VOI_START_COLOR
```
    the starting color for VOIs (first drawn).
    
    See Also:
    
    Constant Field Values
  - PREF_DATA_PROVENANCE_MODE
```
public static final java.lang.String PREF_DATA_PROVENANCE_MODE
```
    constant for logging.
    
    See Also:
    
    Constant Field Values
  - PREF_RGB_PAINT_COMPONENTS
```
public static final java.lang.String PREF_RGB_PAINT_COMPONENTS
```
    Constant indicating which channels should be used for applying paint to a RGB image
    
    See Also:
    
    Constant Field Values
  - PREF_ALWAYS_SAVE_IMG_AS_ANALYZE
```
public static final java.lang.String PREF_ALWAYS_SAVE_IMG_AS_ANALYZE
```
    Constant that indicates whether .hdr/.img files should always be written in analyze format (as opposed to asking whether to save as interfile or nifti).
    
    See Also:
    
    Constant Field Values
  - PREF_ALWAYS_SAVE_IMG_AS_INTERFILE
```
public static final java.lang.String PREF_ALWAYS_SAVE_IMG_AS_INTERFILE
```
    Constant that indicates whether .hdr/.img files should always be written in interfile format (as opposed to asking whether to save as analyze or nifti).
    
    See Also:
    
    Constant Field Values
  - PREF_ALWAYS_SAVE_IMG_AS_NIFTI
```
public static final java.lang.String PREF_ALWAYS_SAVE_IMG_AS_NIFTI
```
    Constant that indicates whether .hdr/.img files should always be written in nifti format (as opposed to asking whether to save as analyze or interfile).
    
    See Also:
    
    Constant Field Values
  - PREF_ALWAYS_SAVE_MNC_AS_MINC1
```
public static final java.lang.String PREF_ALWAYS_SAVE_MNC_AS_MINC1
```
    Constant that indicates whether .mnc files should always be written in minc1 CDF format (as opposed to asking whether to save as minc1 or minc2).
    
    See Also:
    
    Constant Field Values
  - PREF_ALWAYS_SAVE_MNC_AS_MINC2
```
public static final java.lang.String PREF_ALWAYS_SAVE_MNC_AS_MINC2
```
    Constant that indicates whether .mnc files should always be written in minc2 HDF5 format (as opposed to asking whether to save as minc1 or minc2).
    
    See Also:
    
    Constant Field Values
  - PREF_SCRIPT_DIR
```
public static final java.lang.String PREF_SCRIPT_DIR
```
    Constant that indicates the script directory.
    
    See Also:
    
    Constant Field Values
  - PREF_LAST_SCRIPT
```
public static final java.lang.String PREF_LAST_SCRIPT
```
    Constant that indicates the last script that was run.
    
    See Also:
    
    Constant Field Values
  - PREF_DICOM_SAVE_DICTIONARY
```
public static final java.lang.String PREF_DICOM_SAVE_DICTIONARY
```
    constant that indicates the dicom save dictionary.
    
    See Also:
    
    Constant Field Values
  - PREF_STARTING_HEAP_SIZE
```
public static final java.lang.String PREF_STARTING_HEAP_SIZE
```
    The starting heap size.
    
    See Also:
    
    Constant Field Values
  - PREF_MAX_HEAP_SIZE
```
public static final java.lang.String PREF_MAX_HEAP_SIZE
```
    The maximum heap size.
    
    See Also:
    
    Constant Field Values
  - PREF_RAW_EXTENTS
```
public static final java.lang.String PREF_RAW_EXTENTS
```
    Constant that indicates the default raw image extents.
    
    See Also:
    
    Constant Field Values
  - PREF_RAW_BIG_ENDIAN
```
public static final java.lang.String PREF_RAW_BIG_ENDIAN
```
    Constant that indicates the default raw image big endian.
    
    See Also:
    
    Constant Field Values
  - PREF_RAW_RESOLUTIONS
```
public static final java.lang.String PREF_RAW_RESOLUTIONS
```
    Constant that indicates the default raw image resolutions.
    
    See Also:
    
    Constant Field Values
  - PREF_RAW_UNITS
```
public static final java.lang.String PREF_RAW_UNITS
```
    Constant that indicates the default raw image units.
    
    See Also:
    
    Constant Field Values
  - PREF_RAW_TYPE
```
public static final java.lang.String PREF_RAW_TYPE
```
    Constant that indicates the default raw image type.
    
    See Also:
    
    Constant Field Values
  - PREF_RAW_DATA_OFFSET
```
public static final java.lang.String PREF_RAW_DATA_OFFSET
```
    Constant that indicates the default raw image data offset.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_ROW_DEPENDENT
```
public static final java.lang.String PREF_LB_ROW_DEPENDENT
```
    Constant that indicates the LightBox row dependant variable.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_GRID_ROW
```
public static final java.lang.String PREF_LB_GRID_ROW
```
    Constant that indicates the LightBox grid row variable.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_GRID_COL
```
public static final java.lang.String PREF_LB_GRID_COL
```
    Constant that indicates the LightBox grid column variable.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_GRID_SIZE
```
public static final java.lang.String PREF_LB_GRID_SIZE
```
    Constant that indicates the LightBox grid size variable.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_INCREMENT
```
public static final java.lang.String PREF_LB_INCREMENT
```
    Constant that indicates the increment between displayed lightbox slices
    
    See Also:
    
    Constant Field Values
  - PREF_LB_GRID_COLOR
```
public static final java.lang.String PREF_LB_GRID_COLOR
```
    Constant that indicates the LightBox grid color variable.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_BORDER_SIZE
```
public static final java.lang.String PREF_LB_BORDER_SIZE
```
    Constant that indicates the LightBox border size variable.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_BORDER_COLOR
```
public static final java.lang.String PREF_LB_BORDER_COLOR
```
    Constant that indicates the LightBox border color variable.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_SELECTED_BORDER_SIZE
```
public static final java.lang.String PREF_LB_SELECTED_BORDER_SIZE
```
    Constant that indicates the LightBox selected border size variable.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_SELECTED_BORDER_COLOR
```
public static final java.lang.String PREF_LB_SELECTED_BORDER_COLOR
```
    Constant that indicates the LightBox selected border color variable.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_MAG
```
public static final java.lang.String PREF_LB_MAG
```
    Constant that indicates the LightBox magnification variable.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_LOCATION
```
public static final java.lang.String PREF_LB_LOCATION
```
    Constant that indicates the LightBox location variable.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_TSLICE
```
public static final java.lang.String PREF_LB_TSLICE
```
    Constant that indicates the LightBox individual t-slice variable.
    
    See Also:
    
    Constant Field Values
  - PREF_LB_CUPDATE
```
public static final java.lang.String PREF_LB_CUPDATE
```
    Constant that indicates continuous update of LightBox
    
    See Also:
    
    Constant Field Values
  - PREF_APP_TITLE
```
public static final java.lang.String PREF_APP_TITLE
```
    Constant that indicates the application title.
    
    See Also:
    
    Constant Field Values
  - PREF_APP_ICON
```
public static final java.lang.String PREF_APP_ICON
```
    Constant that indicates the application icon.
    
    See Also:
    
    Constant Field Values
  - PREF_SHOW_OVERLAYS
```
public static final java.lang.String PREF_SHOW_OVERLAYS
```
    Constant that indicates whether to show image overlays.
    
    See Also:
    
    Constant Field Values
  - PREF_PLUGIN_ALGORITHM
```
public static final java.lang.String PREF_PLUGIN_ALGORITHM
```
    plugin of algorithm type.
    
    See Also:
    
    Constant Field Values
  - PREF_PLUGIN_FILE
```
public static final java.lang.String PREF_PLUGIN_FILE
```
    plugin of file type.
    
    See Also:
    
    Constant Field Values
  - PREF_PLUGIN_VIEW
```
public static final java.lang.String PREF_PLUGIN_VIEW
```
    plugin of view type.
    
    See Also:
    
    Constant Field Values
  - PREF_NINDS_ANON_PLUGIN_INPUTDIR
```
public static final java.lang.String PREF_NINDS_ANON_PLUGIN_INPUTDIR
```
    ?
    
    See Also:
    
    Constant Field Values
  - PREF_NINDS_ANON_PLUGIN_OUTPUTDIR
```
public static final java.lang.String PREF_NINDS_ANON_PLUGIN_OUTPUTDIR
```
    ?
    
    See Also:
    
    Constant Field Values
  - PREF_NINDS_ANON_PLUGIN_CSVDIR
```
public static final java.lang.String PREF_NINDS_ANON_PLUGIN_CSVDIR
```
    ?
    
    See Also:
    
    Constant Field Values
  - ITEM_SEPARATOR
```
public static final java.lang.String ITEM_SEPARATOR
```
    The character that separates items (such as in the user file type definitions).
    
    See Also:
    
    Constant Field Values
  - PREF_LEVEL
```
public static final java.lang.String PREF_LEVEL
```
    See Also:
    
    Constant Field Values
  - PREF_WINDOW
```
public static final java.lang.String PREF_WINDOW
```
    See Also:
    
    Constant Field Values
  - PREF_MIN
```
public static final java.lang.String PREF_MIN
```
    See Also:
    
    Constant Field Values
  - PREF_MAX
```
public static final java.lang.String PREF_MAX
```
    See Also:
    
    Constant Field Values
  - PREF_NDAR_PLUGIN_SERVER
```
public static final java.lang.String PREF_NDAR_PLUGIN_SERVER
```
    See Also:
    
    Constant Field Values
  - PREF_NDAR_PLUGIN_DATASTRUCT_NAME
```
public static final java.lang.String PREF_NDAR_PLUGIN_DATASTRUCT_NAME
```
    See Also:
    
    Constant Field Values
  - PREF_NDAR_PLUGIN_OUTPUT_DIR
```
public static final java.lang.String PREF_NDAR_PLUGIN_OUTPUT_DIR
```
    See Also:
    
    Constant Field Values
  - PREF_NDAR_PLUGIN_CSV_DIR
```
public static final java.lang.String PREF_NDAR_PLUGIN_CSV_DIR
```
    See Also:
    
    Constant Field Values
  - PREF_BRICS_PLUGIN_OUTPUT_DIR
```
public static final java.lang.String PREF_BRICS_PLUGIN_OUTPUT_DIR
```
    See Also:
    
    Constant Field Values
  - PREF_BRICS_PLUGIN_CSV_DIR
```
public static final java.lang.String PREF_BRICS_PLUGIN_CSV_DIR
```
    See Also:
    
    Constant Field Values
  - PREF_BRICS_PLUGIN_BIDS_DIR
```
public static final java.lang.String PREF_BRICS_PLUGIN_BIDS_DIR
```
    See Also:
    
    Constant Field Values
  - PREF_BRICS_CONFLICT_RESOLUTION
```
public static final java.lang.String PREF_BRICS_CONFLICT_RESOLUTION
```
    See Also:
    
    Constant Field Values
  - PREF_PAINT_OPACITY
```
public static final java.lang.String PREF_PAINT_OPACITY
```
    See Also:
    
    Constant Field Values
  - PREF_BUG_REPORT_NAME
```
public static final java.lang.String PREF_BUG_REPORT_NAME
```
    See Also:
    
    Constant Field Values
  - PREF_BUG_REPORT_EMAIL
```
public static final java.lang.String PREF_BUG_REPORT_EMAIL
```
    See Also:
    
    Constant Field Values
  - PREF_BUG_REPORT_URGENCY
```
public static final java.lang.String PREF_BUG_REPORT_URGENCY
```
    See Also:
    
    Constant Field Values
  - PREF_USE_INCORRECT_ACPC_XDIM
```
public static final java.lang.String PREF_USE_INCORRECT_ACPC_XDIM
```
    See Also:
    
    Constant Field Values
  - PREF_FORCE_HISTO_UBYTE
```
public static final java.lang.String PREF_FORCE_HISTO_UBYTE
```
    See Also:
    
    Constant Field Values
  - PREF_MAX_DEBUG_LINES
```
public static final java.lang.String PREF_MAX_DEBUG_LINES
```
    See Also:
    
    Constant Field Values
  - PREF_DEBUG_MINOR
```
public static final java.lang.String PREF_DEBUG_MINOR
```
    See Also:
    
    Constant Field Values
  - PREF_DEBUG_ALGORITHM
```
public static final java.lang.String PREF_DEBUG_ALGORITHM
```
    See Also:
    
    Constant Field Values
  - PREF_DEBUG_FILEIO
```
public static final java.lang.String PREF_DEBUG_FILEIO
```
    See Also:
    
    Constant Field Values
  - PREF_DEBUG_COMMS
```
public static final java.lang.String PREF_DEBUG_COMMS
```
    See Also:
    
    Constant Field Values
  - PREF_DEBUG_SCRIPTING
```
public static final java.lang.String PREF_DEBUG_SCRIPTING
```
    See Also:
    
    Constant Field Values
  - PREF_MAINWINDOW_SIZE
```
public static final java.lang.String PREF_MAINWINDOW_SIZE
```
    See Also:
    
    Constant Field Values
  - PREF_EDIDTORWINDOW_SIZE
```
public static final java.lang.String PREF_EDIDTORWINDOW_SIZE
```
    See Also:
    
    Constant Field Values
  - DEFINITION_SEPARATOR
```
public static final java.lang.String DEFINITION_SEPARATOR
```
    The character that separates an item from its value in a definition or mapping (such as in the user file type definitions).
    
    See Also:
    
    Constant Field Values
  - DEBUG_MINOR
```
public static final int DEBUG_MINOR
```
    Constant used to identify debugging category for general output.
    
    See Also:
    
    Constant Field Values
  - DEBUG_ALGORITHM
```
public static final int DEBUG_ALGORITHM
```
    Constant used to identify debugging category for general output by algorithms.
    
    See Also:
    
    Constant Field Values
  - DEBUG_FILEIO
```
public static final int DEBUG_FILEIO
```
    Constant used to identify debugging category for general output by FileIO.
    
    See Also:
    
    Constant Field Values
  - DEBUG_COMMS
```
public static final int DEBUG_COMMS
```
    Constant used to identify debugging category for general output by communications.
    
    See Also:
    
    Constant Field Values
  - DEBUG_SCRIPTING
```
public static final int DEBUG_SCRIPTING
```
    Constant used to identify debugging category for output of scripting system messages.
    
    See Also:
    
    Constant Field Values
  - CACHED_MAX_DEBUG_LINES
```
public static int CACHED_MAX_DEBUG_LINES
```
    Constant used to identify the maximum number of lines in the debugging panel. This is initialized from the properties file and updated whenever changed via the options panel (this value is used every time a debug line is output so access to this value needs to be as fast as possible)
  - DATA_PROVENANCE_SCHEMA
```
public static final java.lang.String DATA_PROVENANCE_SCHEMA
```
    The schema for the data provenance xml files
    
    See Also:
    
    Constant Field Values
  - SAVE_DICOM_TAGS
```
public static final java.lang.String SAVE_DICOM_TAGS
```
    Dicom tags to be saved
    
    See Also:
    
    Constant Field Values
  - mipavProps
```
private static java.util.Properties mipavProps
```
    A list of MIPAV properties.
  - defaultProps
```
private static java.util.Properties defaultProps
```
    A default list of properties used if the mipav.preferences file cannot be found.
  - messageFrame
```
private static ViewJFrameMessage messageFrame
```
    Reference to the message frame where debug information can be displayed.
  - preferencesFileName
```
private static java.lang.String preferencesFileName
```
    The MIPAV preferences file name (without path).
  - preferencesDir
```
private static java.lang.String preferencesDir
```
    The place where user-individual mipav files should be put.
  - preferencesFile
```
private static java.lang.String preferencesFile
```
    The MIPAV preferences file path and name.
  - userShortcutTable
```
private static java.util.Hashtable<java.lang.String,javax.swing.KeyStroke> userShortcutTable
```
    Hashtable that holds all user-defined shortcuts
  - defaultShortcutTable
```
private static java.util.Hashtable<java.lang.String,javax.swing.KeyStroke> defaultShortcutTable
```
    Hashtable that holds the default shortcuts
  - currentShortcut
```
private static javax.swing.KeyStroke currentShortcut
```
    The current shortcut
  - logConfig
```
private static Preferences.LogConfig logConfig
```
    The current logging configuration
  - DEFAULT_LOG_LEVEL
```
private static Preferences.LogLevel DEFAULT_LOG_LEVEL
```
    The default log level
- Constructor Detail
  - Preferences
```
public Preferences()
```
- Method Detail
  - addShortcut
```
public static boolean addShortcut(java.lang.String command)
```
    Adds a new shortcut to the hashtable. if there is already a command predefined for the keystroke set from setShortcut(), it will be removed then replaced with the new command.
    
    Parameters:
    
    command - the command to map
    
    Returns:
    
    DOCUMENT ME!
  - addShortcut
```
public static boolean addShortcut(java.lang.String command,
                                  javax.swing.KeyStroke shortcut)
```
    Adds a new shortcut to the hashtable with a given keystroke. if there is already a command predefined for the keystroke set from setShortcut(), it will be removed then replaced with the new command.
    
    Parameters:
    
    command - the command to map
    
    Returns:
    
    DOCUMENT ME!
  - buildShortcutTable
```
public static final void buildShortcutTable()
```
    Builds a hashtable of actioncommands (keys) with associated keystrokes from the Preferences file.
  - getDebug
```
public static final java.lang.String getDebug()
```
    Gets all the text printed to the debug panel.
    
    Returns:
    
    String representation of debug panel (new lines are removed)
  - data
```
public static final void data(java.lang.String string)
```
    Prints to data tab
    
    Parameters:
    
    string - String string to be output
  - getData
```
public static final java.lang.String getData()
```
    Gets all the text printed to the data panel.
    
    Returns:
    
    String representation of data panel (new lines are removed)
  - debug
```
public static final void debug(java.lang.String string)
```
    If at least one debug level is turned on, output the string.
    
    Parameters:
    
    string - String string to be output
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.String string2)
```
    If at least one debug level is turned on, output the string. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String string to be output
    
    string2 - String string to be output
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.String string2,
                               java.lang.String string3)
```
    If at least one debug level is turned on, output the string. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String string to be output
    
    string2 - String string to be output
    
    string3 - String string to be output
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.String string2,
                               java.lang.String string3,
                               java.lang.String string4)
```
    If at least one debug level is turned on, output the string. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String string to be output
    
    string2 - String string to be output
    
    string3 - String string to be output
    
    string4 - String string to be output
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.String string2,
                               java.lang.String string3,
                               java.lang.String string4,
                               java.lang.String string5)
```
    If at least one debug level is turned on, output the string. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String string to be output
    
    string2 - String string to be output
    
    string3 - String string to be output
    
    string4 - String string to be output
    
    string5 - String string to be output
  - debug
```
public static final void debug(java.lang.String string,
                               int category)
```
    If the debug is turned on for the given level, output to the messageFrame.
    
    Parameters:
    
    string - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.String string2,
                               int category)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.String string2,
                               java.lang.String string3,
                               int category)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               char string2,
                               java.lang.String string3,
                               int category)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               boolean string2,
                               java.lang.String string3,
                               int category)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               double string2,
                               java.lang.String string3,
                               int category)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.Object string2,
                               java.lang.String string3,
                               int category)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.String string2,
                               java.lang.String string3,
                               java.lang.String string4,
                               int category)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    string4 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.String string2,
                               java.lang.String string3,
                               java.lang.String string4,
                               java.lang.String string5,
                               int category)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    string4 - String to be output
    
    string5 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string,
                               int category,
                               Preferences.LogLevel level)
```
    If the debug is turned on for the given level, output to the messageFrame.
    
    Parameters:
    
    string - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.String string2,
                               int category,
                               Preferences.LogLevel level)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.String string2,
                               java.lang.String string3,
                               int category,
                               Preferences.LogLevel level)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               char string2,
                               java.lang.String string3,
                               int category,
                               Preferences.LogLevel level)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               boolean string2,
                               java.lang.String string3,
                               int category,
                               Preferences.LogLevel level)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               double string2,
                               java.lang.String string3,
                               int category,
                               Preferences.LogLevel level)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.Object string2,
                               java.lang.String string3,
                               int category,
                               Preferences.LogLevel level)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.String string2,
                               java.lang.String string3,
                               java.lang.String string4,
                               int category,
                               Preferences.LogLevel level)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    string4 - String to be output
    
    level - int level of debug to check
  - debug
```
public static final void debug(java.lang.String string1,
                               java.lang.String string2,
                               java.lang.String string3,
                               java.lang.String string4,
                               java.lang.String string5,
                               int category,
                               Preferences.LogLevel level)
```
    If the debug is turned on for the given level, output to the messageFrame. This is a overriden method variant that takes multiple string parameters.
    
    Parameters:
    
    string1 - String to be output
    
    string2 - String to be output
    
    string3 - String to be output
    
    string4 - String to be output
    
    string5 - String to be output
    
    level - int level of debug to check
  - debugLevel
```
public static final boolean debugLevel(int category)
```
    Indicates whether debug is turned on for the given level.
    
    Parameters:
    
    level - debugging level to check for
    
    Returns:
    
    true if the given debugging level is activated
  - getDefaultDisplay
```
public static Preferences.DefaultDisplay getDefaultDisplay()
```
    Returns how pixel values of images are displayed in terms or brightness values and possible colors.
    
    Returns:
    
    The default display enumeration.
  - getComplexDisplay
```
public static Preferences.ComplexDisplay getComplexDisplay()
```
    Returns how pixel values are displayed on the MIPAV toolbar for complex images. Although MIPAV always displays the magnitude or log magnitude when viewing an image, the toolbar can display both real and complex components.
    
    Returns:
    
    The complex display enumeration, includes number of parts that the complex display requires
  - getInterpolateDisplay
```
public static Preferences.InterpolateDisplay getInterpolateDisplay()
```
    Returns how pixel values are interpolated for displayed slices. Default is nearest neighbor.
  - initDebugPreferences
```
public static final void initDebugPreferences()
```
    this method must be invoked very early on in the startup sequence (typically in the startup main method or ViewUserInterface. This sets up the logging which other initialization code relies on - for example, if there is another error later in the initialization process, that error might call a debug method which means the debug variables must already have been initialized.
  - getDebugPreferences
```
public static final Preferences.LogConfig getDebugPreferences()
```
    Gets the LogConfiguration for logging categories (minor, algorithm, fileIO, comms, scripting).
    
    Returns:
    
    LogConfig the logging configuration
  - getDefaultFrameRate
```
public static float getDefaultFrameRate()
```
    Gets the default frame rate used in saving AVI movies. Default value is 10.0.
    
    Returns:
    
    the default frame rate as a floating point number.
  - getDefaultHostKey
```
public static java.lang.String getDefaultHostKey()
```
    Accessor to get the default chat/file server host key.
    
    Returns:
    
    default host key
  - getDefaultServerKey
```
public static java.lang.String getDefaultServerKey()
```
    Accessor to get default DICOM image server key.
    
    Returns:
    
    default server key
  - getDefaultShortcutTable
```
public static java.util.Hashtable<java.lang.String,javax.swing.KeyStroke> getDefaultShortcutTable()
```
    Gets the Default Hashtable used to store the shortcut keystrokes and commands.
    
    Returns:
    
    Hashtable the shortcut hashtable
  - getDefaultStorageKey
```
public static java.lang.String getDefaultStorageKey()
```
    Accessor to get default DICOM image storage location.
    
    Returns:
    
    default storage information
  - getDICOMBrowserTableConfiguration
```
public static java.util.Vector<java.lang.String> getDICOMBrowserTableConfiguration()
```
    Gets the user-configured columns that indicate the DICOM tags that are displayed in the DICOM browser table.
    
    Returns:
    
    Vector List of strings that identify the columns.
  - getDICOMSaveDictionary
```
public static final java.lang.String getDICOMSaveDictionary()
```
    Accessor to get the default DICOM Save Dictionary (which tags to save into XML header.
    
    Returns:
    
    String The full path of the dictionary in which a subset of the DICOM tags are stored.
  - getFileFilter
```
public static int getFileFilter()
```
    Returns the index of the latest used file filter.
    
    Returns:
    
    the index of the latest used file filter.
  - getFileTempDir
```
public static java.lang.String getFileTempDir()
```
    Returns the temporary directory which is used to store files to be deleted.
    
    Returns:
    
    the temporary directory which is used to store files to be deleted.
  - getHostIP
```
public static java.lang.String getHostIP(java.lang.String AETitle)
```
    Accessor to get host (chat/file) server Internet Protocol for selected Name.
    
    Parameters:
    
    AETitle - application entity title
    
    Returns:
    
    IP address of asssociated Name
  - getIconName
```
public static final java.lang.String getIconName()
```
    Returns the name of the application icon.
    
    Returns:
    
    string containing the name of the system icon
  - getImageDirectory
```
public static java.lang.String getImageDirectory()
```
    Returns the image directory used last time.
    
    Returns:
    
    the image directory used last time.
  - getIP
```
public static java.lang.String getIP(java.lang.String AETitle)
```
    Accessor to get DICOM image server Internet Protocol for selected AETitle.
    
    Parameters:
    
    AETitle - application entity title
    
    Returns:
    
    IP address of asssociated AETitle
  - getLastImageAt
```
public static final java.lang.String getLastImageAt(int index)
```
    Returns the image name of "last X images" at the given index. Index should be between 0 and 3.
    
    Parameters:
    
    index - Index of image.
    
    Returns:
    
    Name of image at index.
  - getLastOpenSequenceChannels
```
public static final java.lang.String getLastOpenSequenceChannels()
```
    Used by ViewOpenImageSequence to get the saved number of channels used when opening an image sequence.
    
    Returns:
    
    String - the value that was saved to the preferences file, represented by a String, of the number of channels that were used in the corresponding text box of this frame the last time the value was saved
  - getLastOpenSequenceOrdering
```
public static final java.lang.String getLastOpenSequenceOrdering()
```
    Used by ViewOpenImageSequence to get the Z-C-T ordering of data used when opening an image sequence.
    
    Returns:
    
    String - the value that was saved to the preferences file, represented by a String, of the Z-C-T ordering of data that was used in the corresponding text box of this frame the last time the value was saved
  - getLastOpenSequencePath
```
public static final java.lang.String getLastOpenSequencePath()
```
    Used by ViewOpenImageSequence to get the last path used when opening an image sequence.
    
    Returns:
    
    String
  - getLastOpenSequenceSlices
```
public static final java.lang.String getLastOpenSequenceSlices()
```
    Used by ViewOpenImageSequence to get the saved number of slices used when opening an image sequence.
    
    Returns:
    
    String - the value that was saved to the preferences file, represented by a String, of the number of slices that were used in the corresponding text box of this frame the last time the value was saved
  - getLastOpenSequenceTimePoints
```
public static final java.lang.String getLastOpenSequenceTimePoints()
```
    Used by ViewOpenImageSequence to get the saved number of time points used when opening an image sequence.
    
    Returns:
    
    String - the value that was saved to the preferences file, represented by a String, of the number of time points that were used in the corresponding text box of this frame the last time the value was saved
  - getLastXImages
```
public static final java.lang.String[] getLastXImages()
```
    Gets the names of the last X number of images that were loaded from the Preferences file. Shortens the names so the menu isn't too wide.
    
    Returns:
    
    Array of strings representing the last images that were loaded
  - getMaxDebugLines
```
public static int getMaxDebugLines()
```
    Returns:
    
    the max number of debug lines that are output
  - getMipavProps
```
public static java.util.Properties getMipavProps()
```
    Returns:
    
    the mipavProps
  - getNextHostKey
```
public static java.lang.String getNextHostKey()
```
    Returns the next host key.
    
    Returns:
    
    The next host key.
  - getNextServerKey
```
public static java.lang.String getNextServerKey()
```
    Returns the next server key.
    
    Returns:
    
    The next server key.
  - getNextStorageKey
```
public static java.lang.String getNextStorageKey()
```
    Returns the next storage key.
    
    Returns:
    
    The next storage key.
  - getNumberOfThreads
```
public static int getNumberOfThreads()
```
    The number of threads available for MIPAV for processing. MIPAV typically uses this number for highly-parallel algorithm computations.
    
    Returns:
    
    the number of threads available for mipav
  - getOverlayNames
```
public static final java.lang.String[] getOverlayNames(boolean isDicom)
```
    Retrieves the list of overlay names (user can type whatever).
    
    Parameters:
    
    isDicom - boolean is this a dicom image
    
    Returns:
    
    String[] array of strings for overlay labeling
  - getOverlays
```
public static final java.lang.String[] getOverlays(boolean isDicom)
```
    Gets the image overlay codes (they identify what to display in the corners of the image), from the preference file.
    
    Parameters:
    
    isDicom - if true loads the overlay IDs for a DICOM image
    
    Returns:
    
    the overlay codes that identifies what should be displayed.
  - getPluginUserDir
```
public static final java.lang.String getPluginUserDir()
```
    Returns String indicating the directory where plugin class files are stored. If this property has not been set, then the image Directory is returned.
    
    Returns:
    
    directory name for the property PluginUserDir or the directory name for the property ImageDirectory if PluginUserDir is not set.
  - getPluginInstallDirectory
```
public static java.lang.String getPluginInstallDirectory()
```
    Returns the directory last used for installing plugins.
    
    Returns:
    
    the directory last used for installing plugins.
  - getPort
```
public static int getPort(java.lang.String AETitle)
```
    Accessor to get DICOM image server's port for selected AETitle.
    
    Parameters:
    
    AETitle - application entity title
    
    Returns:
    
    port address of asssociated AETitle
  - getPreferencesDir
```
public static final java.lang.String getPreferencesDir()
```
    Return the directory where mipav-generated, user-specific files should be placed.
    
    Returns:
    
    the place to put user-specific files
  - getProperty
```
public static final java.lang.String getProperty(java.lang.String key)
```
    Accessor to return a specfic properties given a key.
    
    Parameters:
    
    key - the property key.
    
    Returns:
    
    the mipav property. The method returns null if the property is not found.
  - getScriptFile
```
public static final java.lang.String getScriptFile()
```
    DOCUMENT ME!
    
    Returns:
    
    DOCUMENT ME!
  - getScriptsDirectory
```
public static final java.lang.String getScriptsDirectory()
```
    Returns the default script directory. if null, returns the user's current working directory + "scripts"
    
    Returns:
    
    script dir
  - getShortcut
```
public static javax.swing.KeyStroke getShortcut(java.lang.String command)
```
    Returns a keystroke shortcut for the given command.
    
    Parameters:
    
    command - String the command to check
    
    Returns:
    
    KeyStroke the shortcut's keystroke
  - getShortcutCommand
```
public static java.lang.String getShortcutCommand(javax.swing.KeyStroke ks)
```
    Gets the command associated with the shortcut (if there is one).
    
    Parameters:
    
    ks - KeyStroke the keystroke to check
    
    Returns:
    
    String the command associated (or null if none)
  - getSubsampleDimensions
```
public static final java.awt.Dimension getSubsampleDimensions()
```
    Used by ViewOpenImageSequence to get the subsample dimensions that were saved in the preferences file.
    
    Returns:
    
    Dimension - the dimension that was last used to subsample an image while using the ViewOpenImageSequence tool, null if dimension is invalid in the preferences file
  - getTrimVoi
```
public static final float getTrimVoi()
```
    Accessor to get the TRIM parameter (trimming VOIcontour of points). Default value is 0.3 which trims some of the points of the contours.
    
    Returns:
    
    the trim value.
  - getTrimMask
```
public static final float getTrimMask()
```
    Accessor to get the TRIM parameter (trimming VOIcontour of points). Default value is 0.3 which trims no points in the contours.
    
    Returns:
    
    the trim value.
  - getTrimAdjacient
```
public static boolean getTrimAdjacient()
```
    Accessor to get the trim parameter (trimming contour of adjacent points).
    
    Returns:
    
    the trim boolean to indicate if the directly adjacent points should be trimmed.
  - getUserShortcutTable
```
public static java.util.Hashtable<java.lang.String,javax.swing.KeyStroke> getUserShortcutTable()
```
    Gets the User defined Hashtable used to store the shortcut keystrokes and commands.
    
    Returns:
    
    Hashtable the shortcut hashtable
  - getVOIColorIncrement
```
public static int getVOIColorIncrement()
```
    Gets the VOI color increment value. Ben add here.
    
    Returns:
    
    int
  - getVOIDrawColor
```
public static java.awt.Color getVOIDrawColor()
```
    Gets the VOI draw color.
    
    Returns:
    
    Color color to draw with
  - getVOIThickness
```
public static int getVOIThickness()
```
    DOCUMENT ME!
    
    Returns:
    
    DOCUMENT ME!
  - is
```
public static final boolean is(java.lang.String propertyName)
```
    Gets the boolean state of the property, where in the preferences file the "yes", "on", "true" all return true, but anything else (or non-existent property) returns false. This method is provided for semantic preference, but is exactly the same as (in fact, calls) isPreference.
    
    Parameters:
    
    propertyName - Name of a property in preferences to check.
    
    Returns:
    
    boolean true when the named property has the String the "yes", "on", "true". false for any other string, or if the property does not exist.
    
    See Also:
    
    isPreference(String)
  - isDebug
```
public static final boolean isDebug()
```
    Returns flag indicating if the debug flag is true or false. (and in preferences v2, if debug level is zero, returns false. Returns true if debug level is greater than 0.)
    debug level is the amount of output given for debugging mipav.
    
    Returns:
    
    returns true if either debug flag is true or level is greater than zero and false if either debug flag is false or level is zero.
  - isDefaultCommand
```
public static boolean isDefaultCommand(java.lang.String command)
```
    DOCUMENT ME!
    
    Parameters:
    
    command - DOCUMENT ME!
    
    Returns:
    
    DOCUMENT ME!
  - isDefaultKeyStroke
```
public static boolean isDefaultKeyStroke(javax.swing.KeyStroke ks)
```
    DOCUMENT ME!
    
    Parameters:
    
    ks - DOCUMENT ME!
    
    Returns:
    
    DOCUMENT ME!
  - isGpuCompEnabled
```
public static boolean isGpuCompEnabled()
```
    Indicates whether GPU-computing should be enabled. The renderer and algorithms use this information for processing
    
    Returns:
    
    true if gpu compinting is enabled
  - isInterpolateDisplay
```
public static boolean isInterpolateDisplay()
```
    Maintained for backwards compatibility. If interpolation mode is equal to nearest neighbor, then returns false, otherwise returns true.
    
    Returns:
  - isMultiThreadingEnabled
```
public static boolean isMultiThreadingEnabled()
```
    Indicates whether multi-threading should be enabled for algorithms. Most algorithms check this before launching highly-parallel processes (such as FFT).
    
    Returns:
    
    true if multi-threading is enabled
  - isHistogramDisplay
```
public static boolean isHistogramDisplay()
```
    Indicates whether the image display should be updated in real-time as histogram LUTs are changed
    
    Returns:
    
    true if real-time operation should occur
  - isPreference
```
public static final boolean isPreference(java.lang.String propertyName)
```
    Gets the boolean state of the property, where in the preferences file the "yes", "on", "true" all return true, but anything else (or non-existent property) returns false. While not as intuitive, perhaps, as some of the specially named property-retrieval methods (eg., isSplashScreen), this method can be used to replace all of those methods when the preferences property is known. It can also be convenient for limited-use properties used in debugging.
    
    Parameters:
    
    propertyName - Name of a property in preferences to check.
    
    Returns:
    
    boolean true when the named property has the String the "yes", "on", "true". false for any other string, or if the property does not exist.
  - isPreferenceSet
```
public static final boolean isPreferenceSet(java.lang.String propertyName)
```
    Returns whether the user has a preference indicated for a particular property. Note that this just checks for some value, not necessarily a "true" value.
    
    Parameters:
    
    propertyName - the name of the property to check for
    
    Returns:
    
    true if there is some preference set for the given property name
  - print
```
public static void print()
```
    Prints mipav.preferences to System.out.
  - read
```
public static boolean read()
```
    Reads the "mipav.preferences" file from the user's 'home' directory.
    
    Returns:
    
    true if found else false
  - removeProperty
```
public static final void removeProperty(java.lang.String key)
```
    Removes the property key from the MIPAV property list.
    
    Parameters:
    
    key - the property key.
  - removeShortcut
```
public static void removeShortcut(java.lang.String commandToRemove)
```
    Removes a shortcut from the table.
    
    Parameters:
    
    commandToRemove - String
  - save
```
public static boolean save()
```
    Saves preference file to the user's 'home' directory.
    
    Returns:
    
    boolean true if successful, false otherwise
  - saveShortcuts
```
public static final void saveShortcuts()
```
    Sets the property for shortcuts by building string from ViewUserInterface's Shortcut Hashtable.
  - saveSubsampleDimensions
```
public static final void saveSubsampleDimensions(java.awt.Dimension subsampleDimension)
```
    Used by ViewOpenImageSequence to save its subsample dimensions for the next time it is opened. The dimension is actually saved as its two parts, width and height
    
    Parameters:
    
    subsampleDimension - Dimension - the subsample dimension to save
  - setAlwaysSaveImgAsAnalyze
```
public static final void setAlwaysSaveImgAsAnalyze(boolean doSaveAnalyze)
```
    Sets whether all imgs should be saved in analyze format (i.e., don't ask about whether to save as analyze/interfile/nifti).
    
    Parameters:
    
    doSaveAnalyze - whether to always save .hdr/.img files as analyze format files
  - setAlwaysSaveImgAsInterfile
```
public static final void setAlwaysSaveImgAsInterfile(boolean doSaveInterfile)
```
    Sets whether all imgs should be saved in interfile format (i.e., don't ask about whether to save as analyze/interfile/nifti).
    
    Parameters:
    
    doSaveInterfile - whether to always save .hdr/.img files as interfile format files
  - setAlwaysSaveImgAsNifti
```
public static final void setAlwaysSaveImgAsNifti(boolean doSaveNifti)
```
    Sets whether all imgs should be saved in nifti format (i.e., don't ask about whether to save as analyze/interfile/nifti).
    
    Parameters:
    
    doSaveNifti - whether to always save .hdr/.img files as nifti format files
  - setAlwaysSaveMncAsMinc1
```
public static final void setAlwaysSaveMncAsMinc1(boolean doSaveMinc1)
```
    Sets whether all mncs should be saved in minc1 cdf format (i.e., don't ask about whether to save as minc1/minc2).
    
    Parameters:
    
    doSaveMinc1 - whether to always save .mnc files as minc1 cdf format files
  - setAlwaysSaveMncAsMinc2
```
public static final void setAlwaysSaveMncAsMinc2(boolean doSaveMinc2)
```
    Sets whether all mncs should be saved in minc2 hdf5 format (i.e., don't ask about whether to save as minc1/minc2).
    
    Parameters:
    
    doSaveMinc2 - whether to always save .mnc files as minc2 hdf5 format files
  - setCurrentShortcut
```
public static void setCurrentShortcut(javax.swing.KeyStroke ks)
```
    Sets the current keystroke shortcut for assignment once a command has been passed in.
    
    Parameters:
    
    ks - KeyStroke the shortcut keystroke
  - setDebugLevels
```
public static final void setDebugLevels(java.util.Map<java.lang.Integer,java.lang.String> debugLevels)
```
    Sets the debug levels
    
    Parameters:
    
    levels - a Map of Category (int) -> LogLevel.
  - setDefaultDisplay
```
public static void setDefaultDisplay(Preferences.DefaultDisplay display)
```
    Sets the default display mode for 2D/3D image display.
    
    Parameters:
    
    display - the DefaultDisplay type
  - setDICOMBrowserTableConfiguration
```
public static boolean setDICOMBrowserTableConfiguration(java.util.Vector<java.lang.String> newConfiguration)
```
    Sets the user-configured columns that indicate the DICOM tags that are displayed in the DICOM browser table.
    
    Parameters:
    
    newConfiguration - Vector List of strings that identify the columns.
    
    Returns:
    
    boolean Success or failure of the setting the columns.
  - setFileFilter
```
public static void setFileFilter(int fileFilterIndex)
```
    Sets the current used file filter as the latest used file filter.
    
    Parameters:
    
    fileFilterIndex - the index of the current used file filter.
  - setFileTempDir
```
public static void setFileTempDir(java.lang.String tempDir)
```
    Sets the temporary directory which is used for files which will be deleted.
    
    Parameters:
    
    tempDir - the temporary directory.
  - setImageDirectory
```
public static void setImageDirectory(java.io.File imageDirectory)
```
    Sets the image directory as the latest used image directory.
    
    Parameters:
    
    imageDirectory - the current used image directory.
  - setInterpolationMode
```
public static void setInterpolationMode(Preferences.InterpolateDisplay interp)
```
    Sets the display interpolation mode for 2D image display.
    
    Parameters:
    
    interp - the InterpolateDisplay type
  - setLastImage
```
public static final void setLastImage(java.lang.String name,
                                      boolean multiFile,
                                      int numDims)
```
    Sets the last image loaded in the Preferences file. If it is a duplicate, moves it up on the list.
    
    Parameters:
    
    name - Full pathname of last image loaded.
    
    multiFile - true if the last image was a multi-file image, false otherwise
    
    numDims - DOCUMENT ME!
  - setLastOpenSequenceParams
```
public static final void setLastOpenSequenceParams(java.lang.String slices,
                                                   java.lang.String channels,
                                                   java.lang.String timePoints,
                                                   java.lang.String ordering)
```
    Used by ViewOpenImageSequence to save the user's most recent slices, channels, time points, and ordering that were specified in the component.
    
    Parameters:
    
    slices - String - number of slices in the slices text box of the ViewOpenImageSequence frame
    
    channels - String - number of channels in the channels text box of the ViewOpenImageSequence frame
    
    timePoints - String - number of time points in the time points text box of the ViewOpenImageSequence frame
    
    ordering - String - ordering sequence used in the radio button panel of the ViewOpenImageSequence frame
  - setLastOpenSequencePath
```
public static final void setLastOpenSequencePath(java.lang.String path)
```
    Used by ViewOpenImageSequence to save the path used when opening an image sequence.
    
    Parameters:
    
    path - DOCUMENT ME!
  - setMessageFrame
```
public static final void setMessageFrame(ViewJFrameMessage mFrame)
```
    Sets the message frame.
    
    Parameters:
    
    mFrame - Message frame to set.
  - setMaxDebugLines
```
public static void setMaxDebugLines(int lines)
```
    Sets the maximum number of debug lines that are output
    
    Parameters:
    
    int - max number of debug lines
  - setOverlayNames
```
public static final void setOverlayNames(boolean isDicom,
                                         java.lang.String[] overlays)
```
    Sets the labels for each overlay position. The labels can be user input with any text and will be displayed before the overlay values
    
    Parameters:
    
    isDicom - boolean is the image DICOM
    
    overlays - String[] array of strings (16) for each of the overlay positions
  - setOverlays
```
public static final void setOverlays(boolean isDicom,
                                     java.lang.String[] overlays)
```
    Sets the overlay tag identifiers in the preference file.
    
    Parameters:
    
    isDicom - if true identifies the tags as a list of DICOMOverlays else identifies the tags as ImageOverlays (i.e., it is not a DICOM image)
    
    overlays - an array of 16 strings (4 for each corner) that identifies what is to be displayed in the image.
  - setPluginInstallDirectory
```
public static void setPluginInstallDirectory(java.io.File pluginInstallDirectory)
```
    Sets the plugin install directory.
  - setPreferencesFileName
```
public static final void setPreferencesFileName(java.lang.String fileName)
```
    Change the file name of the preferences file we should use (without any path).
    
    Parameters:
    
    fileName - the file name (eg mipav.preferences), which should be in $HOME/mipav/
  - setPreferencesFileDirectory
```
public static final void setPreferencesFileDirectory(java.lang.String fileDir)
```
    Change the file directory of the preferences file.
    
    Parameters:
    
    fileDir - the file directory, defaults to $HOME/mipav/
  - setProperty
```
public static final boolean setProperty(java.lang.String key,
                                        java.lang.Object value)
```
    Sets the property key in the MIPAV property list and saves it to a file.
    
    Parameters:
    
    key - the property key.
    
    value - the value of the property key.
    
    Returns:
    
    true if the property was set and saved successfully, false otherwise
  - setScriptFile
```
public static final void setScriptFile(java.lang.String scriptFile)
```
    DOCUMENT ME!
    
    Parameters:
    
    scriptFile - DOCUMENT ME!
  - setScriptsDirectory
```
public static final void setScriptsDirectory(java.lang.String scriptsDirectory)
```
    Sets the scripts directory to the new scripts directory.
    
    Parameters:
    
    scriptsDirectory - the new scripts directory
  - setShowDICOMOverlays
```
public static final void setShowDICOMOverlays(boolean doShow)
```
    Sets whether to show the DICOM overlays.
    
    Parameters:
    
    doShow - boolean true means show DICOM overlays
  - setShowImageOverlays
```
public static final void setShowImageOverlays(boolean doShow)
```
    Sets whether to show the Image overlays.
    
    Parameters:
    
    doShow - boolean true means show image overlays
  - buildDefaultShortcuts
```
private static java.util.Hashtable<java.lang.String,javax.swing.KeyStroke> buildDefaultShortcuts()
```
    Builds the default shortcut hashtable (not user modifiable).
    
    Returns:
    
    default shortcut hashtable
  - resetToDefaults
```
public static void resetToDefaults()
```
    Resets the current MIPAV properties to the defaults and saves the preferences file. Cannot be undone.
  - debugMessageFrameAppend
```
public static void debugMessageFrameAppend(java.lang.String string)
```
    Appends the specified message to the message frame. Clears the message frame first if the number of lines exceeds the maximum number of lines allowed in the frame.
  - isLogMinorEnabled
```
public static boolean isLogMinorEnabled()
```
  - isLogAlgorithmEnabled
```
public static boolean isLogAlgorithmEnabled()
```
  - isLogFileIOEnabled
```
public static boolean isLogFileIOEnabled()
```
  - isLogCommsEnabled
```
public boolean isLogCommsEnabled()
```
  - isLogScriptingEnabled
```
public boolean isLogScriptingEnabled()
```
  - setLogLevelMinor
```
public void setLogLevelMinor(Preferences.LogLevel level)
```
  - setLogLevelAlgorithm
```
public void setLogLevelAlgorithm(Preferences.LogLevel level)
```
  - setLogLevelFileIO
```
public void setLogLevelFileIO(Preferences.LogLevel level)
```
  - setLogLevelComms
```
public void setLogLevelComms(Preferences.LogLevel level)
```
  - setLogLevelScripting
```
public void setLogLevelScripting(Preferences.LogLevel level)
```

Class Preferences

Nested Class Summary

Field Summary

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Field Detail

PREF_SAVE_ALL_ON_SAVE

PREF_SAVE_XML_THUMBNAIL

PREF_FLIP_NIFTI_READ

PREF_FILE_TEMP_DIR

PREF_LAX_CHECK

PREF_CLOSE_FRAME_CHECK

PREF_OVERWRITE_VOI_STATS

PREF_DATA_PROVENANCE

PREF_IMAGE_LEVEL_DATA_PROVENANCE

PREF_DATA_PROVENANCE_FILENAME

PREF_DEBUG

PREF_LOGGING_ENABLED

PREF_QUICK_MASK_NEW

PREF_PAINT_TO_MASK_NEW

PREF_ZOOM_LINEAR

PREF_INTENSITY_LABEL_COLOR

PREF_INTENSITY_LABEL_BACKGROUND_COLOR

PREF_DEFAULT_FRAME_RATE

PREF_SAVE_DEFAULTS

PREF_SAVE_PROMPT_OVERWRITE

PREF_SHOW_DICOM_OVERLAYS

PREF_SHOW_IMAGE_OVERLAYS

PREF_SHOW_PAINT_BORDER

PREF_SHOW_PRIVATE_TAGS

PREF_SHOW_SPLASH

PREF_SHOW_UI_LF

PREF_LOG_FILENAME

PREF_IMAGE_TOOLBAR_ON

PREF_PAINT_TOOLBAR_ON

PREF_SCRIPTING_TOOLBAR_ON

PREF_VOI_TOOLBAR_ON

PREF_SHORTCUTS

PREF_DICOM_BROWSER_CONFIG

PREF_FAST_TRIPLANAR_REPAINT

PREF_TRIPLANAR_SNAP90

PREF_TRIPLANAR_SCROLL_ORIGINAL

PREF_SHOW_LINE_ANGLE

PREF_CONTINUOUS_VOI_CONTOUR

PREF_VOI_POINT_DRAW_TYPE

PREF_VOI_LPS_SAVE

PREF_TRIPLANAR_2X2_LAYOUT

PREF_CROSSHAIR_PIXEL_GAP

PREF_MENU_FONT

PREF_MENU_FONT_SIZE

PREF_MENU_FONT_COLOR

PREF_SHOW_VOI_NAME

PREF_SHOW_OUTPUT

PREF_LAST_STACK_FLAG

PREF_DEFAULT_IMAGE_BROWSER_DIR

PREF_MULTI_THREADING_ENABLED

PREF_GPU_COMP_ENABLED

PREF_NUMBER_OF_THREADS

PREF_SHOW_INTENSITY_ON_LEFT_CLICK

PREF_SHOW_WINLEV_ON_RIGHT_CLICK

PREF_RELATIVE_WINDOW_LEVEL

PREF_OPEN_IMAGES_IN_TILED_FORMAT

PREF_LAST_PAINT_BRUSH

PREF_USER_FILETYPE_ASSOC

PREF_USER_FILETYPES

PREF_USER_FILETYPES_TEXTFIELDS

PREF_FILENAME_FILTER

PREF_IMAGE_DIR

PREF_PLUGIN_INSTALL_DIR

PREF_VOI_TEXT_COLOR

PREF_VOI_TEXT_BACKGROUND_COLOR

PREF_DICOM_STORAGE_DIR

PREF_AUTOSTART_DICOM_RECEIVER

PREF_ASK_DICOM_RECEIVER

PREF_ACTIVE_IMAGE_COLOR

PREF_ACTIVE_IMAGE_COLOR_BORDERSIZE

PREF_QUICKLIST_NUMBER

PREF_LAST_X_IMAGES

PREF_WARN_AUDIO_AVI