Changed parcel coloring mode 'Normal' to 'Off'.  Disable pan/zoom of chart matrix when Mode is 'Manual'.

Updated data- and time-series chart horizontal axis ('time' or 'maps') so that the auto-scaled range is the same as the range of data values (no gaps on left or right).

improve help info of -*-label-to-roi

new -cifti-find-clusters command, add -start capabilities to metric/volume versions and expose via command line

improve parameter checking in AlgorithmCiftiSeparate
simplify cifti roi logic in -cifti-smoothing

fixed toolbox glitch.  If one was in chart view with chart selected in toolbox, switching the view to montage incorrectly changed the toolbox tab to connectivity.

Added control of selected matrix parcel highlighting to new 'Parcel's tab in Overlay and Map Settings Dialog.  Also, fixed scene bug for matrix parcel files.

Moved getParcelNodesElementForSelectedParcel() from CiftiMappableDataFile to CiftiMappableConnectivityMatrixDataFile.  Also removed m_selectionIndex from CiftiMappableDataFile since it was never set in that class and it is no longer needed since the loaded row is tracked by CiftiMappableConnectivityMatrixDataFile's ConnectivityDataLoaded class.  Use the last selected row to highlight the correspondingn parcel.

Issue a graphics update after changing the matrix file selection in the toolbox so that graphics are updated for linux.

fix long-standing parameters bug in -cifti-replace-structure -volume*, fix bug in AlgorithmCiftiSeparate::getCroppedVolSpace introduced in CIFTI-2 switch

For parcel connectivity data: On its matrix chart, highlight the last valid selected row.  If a row in the matrix chart is clicked, load the data for that row and update the brainordinate coloring.

check cifti files for being nifti-2

note that many of the years were already wrong due to copy/paste, so just change them all

initial cleanup before license changing (line endings to unix, remove random files, move commit info script)

Removed all obsolte matrix charting classes and code.  Matrix charts are now displayed in the graphics region.

Removed all classes/code for display of charts in the TimeCourseDialog.  Charts are now displayed in the graphics region.

Resolve WB-369: Border Selection Bug.  Function that found nearest border failed to update the 'nearest distance' as distance comparisons were performed with other borders.  As a result, the last border that was within the 'maximum allowable distance (15 mm)' was always selected as the nearest border.

Finish resolving WB-370 Volume Bugs.  Changed Dorsal/Ventral (D/V) labels to Superior/Inferior (S/I).

Draw volume surface outline over the slices but under fibers/foci/crosshairs.  Use lines for volume crosshairs instead of small radii cylinders.

Removed Trolltech copyright notices from the 'WuQ' classes since they have not copied code from Qt but may have copied a few API methods that are not copyrightable.

Removed a few unused methods from Matrix4x4 (UpperTriangle3, UpperTriangle4, and Determinant3) that were from the Java Matrix Calculator which eliminates the need for the license from the Java Matrix Calculator

Restore Qt's font system for use in Workbench since there are some issues with font alignment with the Glf Font system.  Glf Font system is still used for '-show-scene' since Qt's font system does not work without a GUI.

Resolve WB-371: Default layers to being default toolbox tab.  The 'chart model' was mistakenly valid, even if no chartable files were loaded and this has been corrected.

Fixed creation of scenes with tile tabs selected using the default configuration so that the number of rows and columns is updated for the default configuration and saved to the scene.

Hide Toolbar:Chart Axes component when a matrix chart is displayed (it has no axes).  Fixed update of Toolbar:Chart Axes component.