MIPAV change list
From MIPAV
Contents
Version 7.x.x change list
7.0.1 (4/5/2013)
- File handling
- DICOM: When trying to open an image with a Transfer Syntax UID that indicates that it is a compressed DICOM, but with an image tag length that implies that it is not compressed, try reading it in without decompression.
- DICOM: Fixed a problem in the DICOMDIR browser that prevented it from opening.
- Fixed a problem in the Open sequence tool with the use of progress bars that caused crashes for some file formats (this means that there are no progress bars when opening the sequence).
- Algorithms and utilities
- Added new utility for correction of non-helical CT gantry tilt correction.
- Fixed some issues running the Prostate segementation algorithm on some systems.
- The DialogDefaultsInterface has been added back. JDialogBase now implements this interface and provides default versions of the loadDefaults() and saveDefaults() methods.
- VOIs and paint
- The backspace key now behaves the same as delete when working with VOIs to delete points or entire curves (which fixes issues with using an Apple keyboard on Windows).
- Image views and visualization
- Added better handling of when the GPU volume renderer when the videocard doesn't support the required OpenGL or GLSL version.
- When opening the renderer, apply the LUT that is already set for the image.
- Miscellaneous
- Fixed some issues with scripting plugins that have JDialog in their name.
- PlugInAlgorithm plugins now are displayed even when no image is open (but are disabled).
- Fixed some issues in handling command line arguments that start with two dashes instead of one.
- Added buildSlider() method to GuiBuilder.
- Auto-restart of MIPAV after a memory change on Windows is no longer supported.
- MIPAV is now started the same way on 32 and 64 bit systems. Shortcuts to start with or without a debugging window are now installed.
7.0.0 (3/22/2013)
Updated the JREs and libraries distributed with MIPAV. On Windows and Linux, the JRE installed is based on version 1.7.0_17. The installed native libraries used are the same, except for Jogamp, which is now the Jogamp JOGL/JOCL release from 2012-11-01.
- File handling
- PARREC: Fixed bug reading orientations and FOV from some files.
- PARREC: Fixed reading of 4th dim unit of measure and resolution.
- PARREC: Added patient name reading and included it in file header dialog information.
- PARREC: When reading sagittal files for sliceAngle and offCentre arrays put minus signs in front of sliceAngle[2] and offCentre[2] to reflect change from RL in PARREC to LR in MIPAV.
- Added support for reading AFNI matrix (.1D file) to TransMatrix.
- Allowed ViewImageFileFilter to be extended, added .1d file format to list, made accept() method insensitive to capitalization differences.
- ViewImageFileFilter now explicitly implements java.io.FileFilter to improve performance.
- DICOM: Fixed the reading of some chunked DICOM encapsulated lossless JPEG files.
- DICOM: Added a dictionary of private tags, which supplies them with names in the view header dialog.
- DICOM: Fixed error reading some images that included an icon image in a sequence tag.
- DICOM: Changed tag reading to assume that finding 0028,0008 - Number of Frames means that the DICOM is multi-frame. Before, a 0002,0002 - Media Storage SOP Class UID that indicated enhanced MR, CT or XA was required. This caused a problem for a multi-frame OCT dataset from JHU.
- DICOM: Changed error message when the slice data extents are 0. Indicate that there was a problem in reading extents/image data, not that we think it's a spectroscopy dataset.
- Added TrackVis file support.
- AFNI: Added afni implementation of subBrick names and statistical distributions.
- Implemented ability to programmatically read in just the header of most images, those images where this is not possible print out that information to the Preferences.debug output and return null.
- Algorithms and utilities
- Added Multi-exponential to Time fitting Systems analysis tool.
- The Time fitting tool can now use a custom DICOM tag for the time values.
- In the utility Match images, fixed a bug in the handling of when the images' units of measure are unknown or do not match.
- Added Spectral clustering tool to Systems analysis.
- K-means algorithm no longer trys to read text points file twice.
- Added Spatial color compactness algorithm to Segmentation menu.
- Added OpenCL-based image Deconvolution algorithm.
- Fixed OAR3D transformation directory saving logic.
- Subset image now transfers LUT to result image.
- In Transformation algorithm, fixed readTransformMatrixFile() to work with 4D images.
- Fixed a number of issues in scripting with filters that now support opencl processing. Some algorithms didn't properly set up the params or use them when trying to run the algorithm. GaussianBlur didn't record at all when run using opencl.
- Fixed the Median algorithm progress bar.
- VOIs and paint
- Fixed a bug handling VOI stats on 2d images.
- Fixed a bug displaying VOI statistics results table for color images.
- Image views and visualization
- Major updates to the GPU volume renderer. Changed supported version of OpenGL to 3 core profile and GLSL to shading language 330. These changes should fix the GPU renderer on MacOS 10.7 and above.
- Fixed mouse wheel scrolling in the GPU renderer on Macs.
- Removed a number of old, unused GLSL shaders.
- Updated the WildMagic library: Changed Vector2f, Vector3f, Vector4f, Vector2d, Vector3d, Vector4d, Matrix2f, Matrix3f, Matrix3d, Matrix4f so that most functions return 'this', enabling chaining of multiple vector or matrix operations. The original functions were deprecated and the new functions now begin with a lower-case letter. All classes using Vector3f and Matrix3f were also updated to use the non-deprecated functions.
- GPU renderer now supports displaying a grayscale image and a color image at the same time.
- Fixed some issues with loading and changing the inital display/lut method. Removed 'Default' option, but left in support for that value when reading in legacy files.
- Fixed auto-loading of saved win/level (first and last point of transfer function were being set up incorrectly).
- TransferFunction methods to remove points now return the removed points.
- Added t-score LUT option that mimics AFNI.
- Fixed a minor bug in the Zoom dialog.
- Miscellaneous
- Fixed the Report bug button.
- Added button to the MIPAV options dialog to reset all values to defaults.
- Fixed a number of installer-related issues on multiple platforms.
- Added ability to change the Java look and feel in the MIPAV options.
- Added preference for using DICOM ordering when opening AFNI files in the MIPAV options dialog.
- Added preference for automatically using LUTs stored in images in the MIPAV options dialog.
- In TransMatrixd, changed routine name from transformAsPoint3Df to transformAsPoint3Dd.
- Fixed minor bugs in ModelImage methods: set(int[], Number), set(int[], boolean), set(int[], byte), set(int[], short), set(int[], int), set(int[], long), set(int[], float), and set(int[], double).
- Changed a number of methods and fields in file- and view-related classes to protected.
- Improved display of toolbar buttons on Macs.
Version 6.x.x change list
6.0.1 (11/14/2012)
- File handling
- Changed start location in FileRawChunk.readImage to long instead of int to support reading some large files. This affected a number of different file format readers.
- Image views and visualization
- Updated the multi-histogram display. Fixed the display panel gradient mag. graph. Added a 'window' option for the triangle widget by moving the green control point up/down. Fixed reload error when the renderer is closed and then opened again. Fixed save / load file bug for triangle widget.
- Added a new default lookup table/transfer function option that mimics the behavior of ImageJ.
6.0.0 (11/7/2012)
MIPAV is now open source! See the license information on the download page or distributed with MIPAV for details.
Version 5.x.x change list
Version 4.x.x change list
Version 3.x.x change list
Version 2.x change list
Version 1.xx change list
