Release Name: 0.2.10
Notes:
Next release of MRtrix, with the following key enhancements:
- easier install via './build install'
- support for MacOS X
- new filter_tracks command to edit tractography output after tracking
- new tracks2vtk command for output to VTK applications
- new MatLab scripts to read/write MRtrix image and track files
- new features in MRView:
- images can be loaded into viewer using drag & drop;
- position of focus can be dropped onto command-line by dragging from statusbar
- faster rendering of FOD overlay
- other minor bug fixes
Other more minor changes:
- new length-scaled TDI option in tracks2prob
- '-stop' option in streamtrack now stops once all include ROIs have been reached
- for NIfTI: both qform and sform entries are now written with equivalent transform information
- other minor bug fixes (see full changelog for details).
Changes:
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r327 | jdtournier@gmail.com | 2012-02-10 15:15:52 +1100 (Fri, 10 Feb 2012) | 1 line
new write_mrtrix_tracks.m MatLab script
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r326 | jdtournier@gmail.com | 2012-02-10 12:30:23 +1100 (Fri, 10 Feb 2012) | 1 line
a few last changes to the documentation prior to release
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r325 | jdtournier@gmail.com | 2012-02-09 17:06:49 +1100 (Thu, 09 Feb 2012) | 1 line
a few minor tweaks prior to release
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r324 | r.smith@brain.org.au | 2012-02-09 16:40:49 +1100 (Thu, 09 Feb 2012) | 1 line
Very minor tweaks: -help info in streamtrack; SH failed peakfinding output changed from info to debug
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r323 | r.smith@brain.org.au | 2012-01-20 10:29:51 +1100 (Fri, 20 Jan 2012) | 1 line
Updates to tracks2prob; computes TDI natively using floats or integers depending on user options
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r322 | jdtournier@gmail.com | 2012-01-09 15:12:03 +1100 (Mon, 09 Jan 2012) | 1 line
updated documentation of streamtrack to provide more accurate description of maximum length option
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r321 | jdtournier@gmail.com | 2012-01-06 11:22:02 +1100 (Fri, 06 Jan 2012) | 1 line
ensure error messages are centered on the main window
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r320 | jdtournier@gmail.com | 2012-01-06 11:13:31 +1100 (Fri, 06 Jan 2012) | 1 line
added support to load files from file manager using drag & drop
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r319 | jdtournier@gmail.com | 2012-01-05 17:17:22 +1100 (Thu, 05 Jan 2012) | 1 line
more minor updates to the documentation
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r318 | jdtournier@gmail.com | 2012-01-05 15:57:41 +1100 (Thu, 05 Jan 2012) | 1 line
removed copy focus to clipboard feature, as it interferes with normal use of the clipboard. Instead, the focus position can now be copied using drag&drop from the statusbar
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r317 | jdtournier@gmail.com | 2012-01-05 13:12:49 +1100 (Thu, 05 Jan 2012) | 1 line
prevent wrapping of option names in command documentation
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r316 | jdtournier@gmail.com | 2012-01-05 12:43:02 +1100 (Thu, 05 Jan 2012) | 1 line
minor changes to the documentation
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r315 | jdtournier@gmail.com | 2012-01-05 12:36:08 +1100 (Thu, 05 Jan 2012) | 1 line
fix handling of svn revision number in build script
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r314 | jdtournier@gmail.com | 2012-01-05 12:35:31 +1100 (Thu, 05 Jan 2012) | 1 line
fix bug in csdeconv whereby threshold parameter was being ignored (fix provided by Ben Jeurissen)
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r313 | jdtournier@gmail.com | 2012-01-04 17:05:48 +1100 (Wed, 04 Jan 2012) | 1 line
Further updates to the documentation: TDI, Overlay & Screen Capture tools in MRView, warping of tracks in the FAQ
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r312 | jdtournier@gmail.com | 2011-12-23 14:32:12 +1100 (Fri, 23 Dec 2011) | 1 line
change handling of SVN revision number in build script
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r311 | jdtournier@gmail.com | 2011-12-22 17:16:08 +1100 (Thu, 22 Dec 2011) | 1 line
various updates to the documentation, including instructions for installation on MacOS X using MacPorts
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r310 | jdtournier@gmail.com | 2011-12-22 17:15:01 +1100 (Thu, 22 Dec 2011) | 1 line
modified build script to create default configuration file at install time
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r309 | jdtournier@gmail.com | 2011-12-22 00:18:39 +1100 (Thu, 22 Dec 2011) | 1 line
fix to ensure colourmap menu entry in overlay sideabar matches that actually used to display the overlaid image
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r308 | jdtournier@gmail.com | 2011-12-21 23:42:44 +1100 (Wed, 21 Dec 2011) | 1 line
change documentation to remove mention of gen_WM_mask, and suggest lmax=8 as the default for CSD
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r307 | jdtournier@gmail.com | 2011-12-21 23:39:35 +1100 (Wed, 21 Dec 2011) | 1 line
fix to ensure colourmap menu entry matches that used for the image currently displayed
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r306 | jdtournier@gmail.com | 2011-12-20 17:49:05 +1100 (Tue, 20 Dec 2011) | 1 line
fixed bug in screenshot sidebar that prevented the destination folder from changing the first time round
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r305 | jdtournier@gmail.com | 2011-12-20 17:21:49 +1100 (Tue, 20 Dec 2011) | 1 line
fixed ROI tool to produce 3D ROI image even if the original image is 4D
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r304 | jdtournier@gmail.com | 2011-12-20 17:06:32 +1100 (Tue, 20 Dec 2011) | 1 line
minor fix to inline doc for streamtrack
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r303 | jdtournier@gmail.com | 2011-12-20 17:04:58 +1100 (Tue, 20 Dec 2011) | 1 line
fix disp_profile hanging when attempting to display a response function without the -response option - disp_profile will now assume the coefficients correspond to a response function if the number of coefficients do not match any particular lmax
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r302 | r.smith@brain.org.au | 2011-12-19 12:52:29 +1100 (Mon, 19 Dec 2011) | 1 line
Updated tracks2prob header information & changelog file
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r301 | r.smith@brain.org.au | 2011-12-19 12:27:18 +1100 (Mon, 19 Dec 2011) | 1 line
Updated tracks2prob to enable lsTDI (length-scaled TDI) generation
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r300 | jdtournier@gmail.com | 2011-12-06 15:50:52 +1100 (Tue, 06 Dec 2011) | 1 line
further speed-up for rendering of FODs
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r299 | jdtournier@gmail.com | 2011-12-06 15:45:59 +1100 (Tue, 06 Dec 2011) | 1 line
speed up rendering of FODs by omitting zero voxels
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r298 | jdtournier@gmail.com | 2011-12-06 15:45:08 +1100 (Tue, 06 Dec 2011) | 1 line
fixed minor typo in documentation
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r297 | jdtournier@gmail.com | 2011-12-03 12:17:49 +1100 (Sat, 03 Dec 2011) | 1 line
fixed bug recently introduced that prevented cycling through volumes of a 4D dataset
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r296 | jdtournier@gmail.com | 2011-11-29 16:08:12 +1100 (Tue, 29 Nov 2011) | 1 line
use date fron SVN logs rather than timestamps
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r295 | r.smith@brain.org.au | 2011-11-29 12:59:32 +1100 (Tue, 29 Nov 2011) | 1 line
Truncate_tracks now closes reader/writer classes so track count in output file is updated
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r294 | jdtournier@gmail.com | 2011-11-26 20:00:04 +1100 (Sat, 26 Nov 2011) | 1 line
fix to orientation plot overlay with LoD & lmax spin buttons changing by several notches when overlay is enabled
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r293 | jdtournier@gmail.com | 2011-11-24 15:18:37 +1100 (Thu, 24 Nov 2011) | 1 line
fix missing inverted commas...
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r292 | jdtournier@gmail.com | 2011-11-17 18:42:28 +1100 (Thu, 17 Nov 2011) | 1 line
further changes to allow operation of MacOS X, and added tick box to disable progressive overlay (direct overlay is much faster, for some reason).
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r291 | jdtournier@gmail.com | 2011-11-16 12:41:03 +1100 (Wed, 16 Nov 2011) | 1 line
make file dialog open on top of main window
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r290 | jdtournier@gmail.com | 2011-11-16 12:22:43 +1100 (Wed, 16 Nov 2011) | 1 line
modified -initdir option to enforce an angular tolerance around the starting direction
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r289 | jdtournier@gmail.com | 2011-11-16 12:20:34 +1100 (Wed, 16 Nov 2011) | 1 line
modified tooltips in track listing to display full path of track file
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r288 | jdtournier@gmail.com | 2011-11-16 12:19:39 +1100 (Wed, 16 Nov 2011) | 1 line
added option to upsample
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r287 | jdtournier@gmail.com | 2011-11-09 17:00:12 +1100 (Wed, 09 Nov 2011) | 1 line
cleanup of redundant tractography headers, and documented '-maxnum 0' feature
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r286 | jdtournier@gmail.com | 2011-11-04 17:31:12 +1100 (Fri, 04 Nov 2011) | 1 line
added documentation the MRtrix image and tracks file formats
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r285 | r.smith@brain.org.au | 2011-11-03 11:46:35 +1100 (Thu, 03 Nov 2011) | 1 line
Changed handling of -stop option for tracking - track must traverse all included regions before being stopped
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r284 | jdtournier@gmail.com | 2011-10-31 16:58:42 +1100 (Mon, 31 Oct 2011) | 1 line
minor update to the MacOSX installation instructions
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r283 | jdtournier@gmail.com | 2011-10-12 12:48:15 +1100 (Wed, 12 Oct 2011) | 1 line
ignore NaN positions in warp field when normalising tracks
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r282 | jdtournier@gmail.com | 2011-10-04 17:07:12 +1100 (Tue, 04 Oct 2011) | 1 line
a few fixes to improve handling of 2D images
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r281 | jdtournier@gmail.com | 2011-10-03 11:53:52 +1100 (Mon, 03 Oct 2011) | 1 line
fixed small typo in error message
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r280 | jdtournier@gmail.com | 2011-09-30 12:07:02 +1000 (Fri, 30 Sep 2011) | 1 line
fix minor bug in display of ROIs when transforms differ only due to rounding errors
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r279 | jdtournier@gmail.com | 2011-09-20 15:27:06 +1000 (Tue, 20 Sep 2011) | 1 line
revert changes to streamtrack.cpp, these were committed by mistake
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r278 | jdtournier@gmail.com | 2011-09-20 15:14:23 +1000 (Tue, 20 Sep 2011) | 1 line
fixed looping in csdeconv so first voxel is processed properly
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r277 | r.smith@brain.org.au | 2011-09-16 12:12:06 +1000 (Fri, 16 Sep 2011) | 1 line
Minor bug fix to build script, which prevented compilation of separate project directories using g++ 4.4 (included with Ubuntu 11.04)
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r276 | r.smith@brain.org.au | 2011-09-14 17:04:29 +1000 (Wed, 14 Sep 2011) | 1 line
Added binary filter_tracks for selecting tracks from a file using inclusion and exclusion ROIs
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r275 | jdtournier@gmail.com | 2011-09-06 21:10:41 +1000 (Tue, 06 Sep 2011) | 1 line
revert to using the NIfTI sform code preferentially, since this seems to be the default behaviour in FSL & MRIcron, even though this seems to go against the NIfTI specification (although it is admittedly rather vague on that front).
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r274 | jdtournier@gmail.com | 2011-08-17 12:51:52 +1000 (Wed, 17 Aug 2011) | 1 line
fix mrview to close track file if error on auto-reload, rather than keep popping up a message every 5 seconds
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r273 | jdtournier@gmail.com | 2011-08-14 20:30:44 +1000 (Sun, 14 Aug 2011) | 1 line
write both qform & sform into NIfTI header, with both storing the transform relative to scanner coordinates. In addition, the qform will now be used in preference to the sform when reading the NIfTI header, in line with the NIfTI documentation.
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r272 | jdtournier@gmail.com | 2011-08-01 11:37:28 +1000 (Mon, 01 Aug 2011) | 1 line
a couple of bug fixes highlighted by compiler on Ubuntu 11.04
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r271 | d.tournier@brain.org.au | 2011-07-19 17:14:47 +1000 (Tue, 19 Jul 2011) | 1 line
fix buffer overflow warning/errors in the handling of NIfTI/Analyse images (thanks to Parnesh Raniga for pointing this out)
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r270 | d.tournier@brain.org.au | 2011-07-18 14:20:16 +1000 (Mon, 18 Jul 2011) | 1 line
change handling of Siemens DICOM mosaics to handle cases where size of mosaic is not a multiple of acquired matrix size
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r269 | d.tournier@brain.org.au | 2011-07-18 14:19:12 +1000 (Mon, 18 Jul 2011) | 1 line
fixed bug in initialisation of radius of curvature for SD_STREAM tracking (thanks to Maarten Vaessen for pointing this out)
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r268 | d.tournier@brain.org.au | 2011-07-01 17:09:08 +1000 (Fri, 01 Jul 2011) | 1 line
minor cleanup
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r267 | d.tournier@brain.org.au | 2011-07-01 17:05:28 +1000 (Fri, 01 Jul 2011) | 1 line
minor cleanup
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r266 | d.tournier@brain.org.au | 2011-07-01 16:59:33 +1000 (Fri, 01 Jul 2011) | 1 line
new command to convert tracks to VTK format - original contribution from Philip Brozer
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r265 | d.tournier@brain.org.au | 2011-06-23 17:40:31 +1000 (Thu, 23 Jun 2011) | 1 line
improved resample_tracks command (better curved resampling)
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r264 | d.tournier@brain.org.au | 2011-06-08 12:37:34 +1000 (Wed, 08 Jun 2011) | 1 line
MRView: added menu entries and corresponding keyboard shortcuts to zoom in & out
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r263 | d.tournier@brain.org.au | 2011-06-06 16:04:53 +1000 (Mon, 06 Jun 2011) | 1 line
clean target of build script no longer removes doc or dev_doc
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r262 | d.tournier@brain.org.au | 2011-06-03 19:03:30 +1000 (Fri, 03 Jun 2011) | 1 line
new command: select_tracks
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r261 | d.tournier@brain.org.au | 2011-06-01 11:13:39 +1000 (Wed, 01 Jun 2011) | 1 line
MRView copy position to clipboard also copies to primary X11 clipboard for easy middle-click paste
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r260 | d.tournier@brain.org.au | 2011-06-01 10:55:50 +1000 (Wed, 01 Jun 2011) | 1 line
added new feature to MRView: focus position is always available in clipboard
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r259 | d.tournier@brain.org.au | 2011-05-31 17:28:58 +1000 (Tue, 31 May 2011) | 1 line
more minor tweaks to the documentation
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r258 | d.tournier@brain.org.au | 2011-05-31 17:04:23 +1000 (Tue, 31 May 2011) | 1 line
modified documentation system to include modification date and version automatically, and added matlab scripts to read/write MRtrix data formats
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r257 | d.tournier@brain.org.au | 2011-05-30 16:07:33 +1000 (Mon, 30 May 2011) | 1 line
revert back to standard shortcuts on MRView, since they don't really work on MacOS anyway. Use Cmd-scroll to zoom, and Ctrl-Shift-D|F for sidebar and fullscreen respectively
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r256 | d.tournier@brain.org.au | 2011-05-24 23:31:54 +1000 (Tue, 24 May 2011) | 1 line
update revision number
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r255 | d.tournier@brain.org.au | 2011-05-24 23:31:33 +1000 (Tue, 24 May 2011) | 1 line
forgot to define STAT64 on Unix
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r254 | d.tournier@brain.org.au | 2011-05-24 23:27:47 +1000 (Tue, 24 May 2011) | 1 line
changed stat64 define to avoid clashes in MacOS build
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r253 | d.tournier@brain.org.au | 2011-05-24 21:54:41 +1000 (Tue, 24 May 2011) | 1 line
new build install, linkto and uninstall targets, and improved MacOS support
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r252 | d.tournier@brain.org.au | 2011-05-21 20:07:01 +1000 (Sat, 21 May 2011) | 1 line
added help page and install target to build script
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r251 | d.tournier@brain.org.au | 2011-05-20 01:30:29 +1000 (Fri, 20 May 2011) | 1 line
minor bug fix in SVN revision number inclusion
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r250 | d.tournier@brain.org.au | 2011-05-20 01:29:21 +1000 (Fri, 20 May 2011) | 1 line
added support for compilation on MacOS X (note that most changes were actually included in the previous commit by mistake)
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r249 | d.tournier@brain.org.au | 2011-05-20 01:26:52 +1000 (Fri, 20 May 2011) | 1 line
minor tweak to SVN revision number inclusion to avoid needless recompilations of lib/app.o
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r248 | d.tournier@brain.org.au | 2011-05-20 01:24:34 +1000 (Fri, 20 May 2011) | 1 line
reworked SVN revision number inclusion to simply use the last know revision number if no SVN information is found
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r247 | d.tournier@brain.org.au | 2011-05-20 00:41:56 +1000 (Fri, 20 May 2011) | 1 line
lower optimisation level to -O2 as excessive optimisation may cause strange behaviour on some compilers
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r229 | d.tournier@brain.org.au | 2011-02-17 13:36:46 +1100 (Thu, 17 Feb 2011) | 1 line
a few updates to the documentation
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r228 | d.tournier@brain.org.au | 2011-02-14 14:47:06 +1100 (Mon, 14 Feb 2011) | 1 line
fix -coord option so that the "end" keyword can be used
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r227 | d.tournier@brain.org.au | 2011-01-28 16:49:24 +1100 (Fri, 28 Jan 2011) | 1 line
add SVN revision number to version printout
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r226 | d.tournier@brain.org.au | 2010-12-14 13:16:43 +1100 (Tue, 14 Dec 2010) | 1 line
lib/image/header.cpp: fix bug in transform re-jigging code to handle 45° oblique orientations
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r225 | d.tournier@brain.org.au | 2010-12-14 12:52:31 +1100 (Tue, 14 Dec 2010) | 2 lines
removed cmd/bogus.cpp
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r224 | d.tournier@brain.org.au | 2010-12-14 12:50:51 +1100 (Tue, 14 Dec 2010) | 1 line
lib/file/dicom/definitions.h: modify format_date() to (not) handle badly formatted date fields
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r223 | d.tournier@brain.org.au | 2010-12-09 20:02:22 +1100 (Thu, 09 Dec 2010) | 1 line
fixed mistake in changelog
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r222 | d.tournier@brain.org.au | 2010-12-09 20:00:38 +1100 (Thu, 09 Dec 2010) | 1 line
average: fix -axis option again
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r221 | d.tournier@brain.org.au | 2010-12-09 19:56:28 +1100 (Thu, 09 Dec 2010) | 1 line
avoid use of g_stat(), since it's not guaranteed to use 64-bit versions of stat() even when available (as on CentOS).
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r220 | d.tournier@brain.org.au | 2010-12-09 19:55:34 +1100 (Thu, 09 Dec 2010) | 1 line
version upped to 0.2.10
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r219 | r.smith@brain.org.au | 2010-11-09 10:24:38 +1100 (Tue, 09 Nov 2010) | 1 line
Added -nonbinary output option to "threshold"
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r218 | d.tournier@brain.org.au | 2010-11-05 13:31:23 +1100 (Fri, 05 Nov 2010) | 1 line
mradd.cpp: fix incorrect progressbar count, and handling of large numbers of input files
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r217 | d.tournier@brain.org.au | 2010-10-25 16:28:24 +1100 (Mon, 25 Oct 2010) | 1 line
mrview: fix initial position of focus so that it is centered on a voxel
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r216 | d.tournier@brain.org.au | 2010-10-19 17:06:45 +1100 (Tue, 19 Oct 2010) | 1 line
fixed incorrect volume number display in statusbar when not in 'lock to image axes' mode
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