May 2009 Commit Log

Number of Commits:

34

Number of Active Developers:

3

justin 2009-05-29 17:50 #34 Rev.: 1453

minor fix so that talPoints fields get changed to talInfo (for legacy purposes) --> this code was setting talinfo rather than talInfo

3 lines of code changed in 1 file:

• mrLoadRet/View: isbase.m (+3 -3)

justin 2009-05-29 17:26 #33 Rev.: 1452

Allowing ability to select which frame of a multi frame image (like an epi) that will be used for alignment

20 lines of code changed in 1 file:

• mrAlign: mrAlignGUI.m (+20 -22)

justin 2009-05-29 16:53 #32 Rev.: 1451

removing unneccessary file

0 lines of code changed in 1 file:

• mrUtilities/File/Varian: fid2rotmat.m (del)

justin 2009-05-29 16:53 #31 Rev.: 1450

Fixing names of files and also getting dimensions of matrix right (accounting for navigator echoes)

285 lines of code changed in 4 files:

• mrUtilities/File/Varian: fid2nifti.m (+1 -1), fid2rotmat.m (new 142), fid2xform.m (new 142), procpar2rotmat.m (del)

justin 2009-05-29 13:05 #30 Rev.: 1449

Title bar now tells you what is being aligned to what.

30 lines of code changed in 1 file:

• mrAlign: mrAlignGUI.m (+30 -2)

justin 2009-05-29 13:04 #29 Rev.: 1448

some comments

8 lines of code changed in 1 file:

• mrUtilities/MatlabUtilities: setext.m (+8 -1)

justin 2009-05-29 11:50 #28 Rev.: 1447

new flag to allow adding an extension (instead of replacing)

14 lines of code changed in 1 file:

• mrUtilities/MatlabUtilities: setext.m (+14 -3)

justin 2009-05-29 09:43 #27 Rev.: 1446

Renaming readfid to getfidk and fixing to work on 64 bit

692 lines of code changed in 8 files:

• mrUtilities/File/Varian: fid2nifti.m (+19 -8), getfid.m (+2 -2), getfidk.c (new 670), getfidk.mexmaci (new), getfidk.mexmaci64 (new), procpar2rotmat.m (+1 -1), readfid.c (del), readfid.mexmaci (del)

justin 2009-05-29 08:39 #26 Rev.: 1445

Initial import of tools to read varian files

1649 lines of code changed in 7 files:

• mrUtilities/File/Varian: fid2nifti.m (new 99), getfid.m (new 67), procpar2rotmat.m (new 144), readfid.c (new 658), readfid.mexmaci (new), readprocpar.m (new 111), vnmrdata.h (new 570)

eli 2009-05-29 05:22 #25 Rev.: 1444

changed the 'exist' call to only check variables

1 lines of code changed in 1 file:

• mrUtilities/ImageProcessing: conv2sep.m (+1 -1)

eli 2009-05-29 05:03 #24

pulled some of the motion comp preprocessing steps out of the inidividual functions and put them in a single new function called 'motionCompPreprocessing.m

636 lines of code changed in 7 files:

• mrLoadRet/Analysis/MotionComp: intensityGradCorrection.m (new 286), motionComp.m (+48 -116), motionCompBetweenScans.m (+87 -71), motionCompGUImrParams.m (+18 -32), motionCompPreprocessing.m (new 154), motionCompReconcileParams.m (+4 -2), motionCompWithinScan.m (+39 -89)

justin 2009-05-28 06:35 #23 Rev.: 1436

adding copyright notice

14 lines of code changed in 1 file:

• COPYRIGHT.rtf (new 14)

justin 2009-05-27 16:48 #22 Rev.: 1435

A helper function to get the trans/rot that the GUI is set to. Used by the arrow functions on the gui.

31 lines of code changed in 1 file:

• mrAlign: getAlignGUI.m (new 31)

justin 2009-05-23 08:31 #21 Rev.: 1434

Check to fix stimvols that have been incorrectly transposed

15 lines of code changed in 1 file:

• mrLoadRet/Analysis/EventRelated: getStimvol.m (+15 -7)

justin 2009-05-20 12:22 #20 Rev.: 1433

just testing svn repository

1 lines of code changed in 1 file:

• mrUtilities/Plot: getcolor.m (+1)

justin 2009-05-20 12:21 #19 Rev.: 1432

testing svn repository

0 lines of code changed in 1 file:

• mrLoadRet: mrLoadRetVersion.m (-1)

justin 2009-05-20 12:21 #18 Rev.: 1431

just testing

2 lines of code changed in 1 file:

• mrLoadRet: mrLoadRetVersion.m (+2)

justin 2009-05-19 14:43 #17 Rev.: 1430

Added a few more informative console messages

3 lines of code changed in 1 file:

• mrAlign: mrAlignGUI.m (+3)

justin 2009-05-19 14:41 #16 Rev.: 1429

create outDir if it does not already exist

5 lines of code changed in 1 file:

• mrUtilities/File/FreeSurfer: mlrImportFreeSurfer.m (+5 -1)

justin 2009-05-19 14:40 #15 Rev.: 1428

added some comments.

2 lines of code changed in 1 file:

• mrLoadRet/Analysis/EventRelated: getStimvol.m (+2 -1)

justin 2009-05-19 14:39 #14 Rev.: 1427

Added left/right arrow buttons to manually alignment fields. If you hold shift down while pressing the buttons it will inc/dec the fields by 0.1 rather than 1

124 lines of code changed in 2 files:

• mrAlign: mrAlignGUI.fig (changed), mrAlignGUI.m (+124)

justin 2009-05-19 14:38 #13 Rev.: 1426

slight syntax change to stimFileMatch list setup

1 lines of code changed in 1 file:

• mrLoadRet/Init: mrInit.m (+1 -1)

justin 2009-05-12 14:16 #12 Rev.: 1425

Fixing up some code that handles when your anatomy directory has moved. Now, it checks whether the file exists and puts up more informative message. Also edit base info gives you the path field which you can edit.

33 lines of code changed in 4 files:

• mrLoadRet/Edit: editBaseGUI.m (+1 -1)
• mrLoadRet/File: baseInfo.m (+14 -12)
• mrLoadRet/GUI: mrLoadRetGUI.m (+13 -3), mrSurfViewer.m (+5 -1)

justin 2009-05-10 09:40 #11 Rev.: 1424

Fixing up Talairach merge.

The exportTal2session callback was not correctly linked from the GUI (somehow the default function anme had been changed)... fixed.
Also, in setTalXform_Callback (in mrAlignGUI), the setting of the matrix "points" which is used to calcualte the vol2tal xform was not getting set properly -- i.e. it had to be modified to properly concatenate the tal points and then take the transpose of the matrix:

points = [talInfo.AC;talInfo.PC;talInfo.SAC;talInfo.IAC;talInfo.PPC;talInfo.AAC;talInfo.LAC;talInfo.RAC]';

Finally, ALIGN.vol.base no longer contains the full path to the volume anatomy (it shouldn't -- and this was fixed in isbase). So, to open up the correct volume, the field ALIGN.volumePath is now being used.

6 lines of code changed in 2 files:

• mrAlign: mrAlignGUI.fig (changed), mrAlignGUI.m (+6 -8)

eli 2009-05-08 04:21 #10 Rev.: 1423

*** empty log message ***

1 lines of code changed in 1 file:

• mrLoadRet: mrLoadRetVersion.m (+1 -1)

justin 2009-05-05 15:48 #9 Rev.: 1422

Shani's talairach menu

0 lines of code changed in 1 file:

• mrAlign: mrAlignGUI.fig (changed)

justin 2009-05-05 15:48 #8 Rev.: 1421

More understandable warnings for when sform has not been set

2 lines of code changed in 1 file:

• mrAlign: mrAlignGUI.m (+2 -2)

justin 2009-05-05 15:47 #7 Rev.: 1420

Make sure that name field in base does not include full path

3 lines of code changed in 1 file:

• mrLoadRet/View: isbase.m (+3)

shani 2009-05-03 10:36 #6 Rev.: 1419

small change

4 lines of code changed in 2 files:

• mrAlign: exportTal2mrLR.m (+3 -3), talairach.m (+1 -1)

shani 2009-05-03 10:32 #5 Rev.: 1418

fixed talInfo field

2 lines of code changed in 1 file:

• mrLoadRet/View: isbase.m (+2 -2)

shani 2009-05-03 10:31 #4 Rev.: 1417

added talInfo set

8 lines of code changed in 1 file:

• mrLoadRet/View: viewSet.m (+8)

shani 2009-05-03 10:30 #3 Rev.: 1416

changed talinfo to talInfo to be consistent

4 lines of code changed in 1 file:

• mrAlign: mrAlignGUI.m (+4 -4)

shani 2009-05-03 10:21 #2 Rev.: 1415

Function to export Tal info to a mrLR session

390 lines of code changed in 1 file:

• mrAlign: exportTal2mrLR.m (new 390)

shani 2009-05-03 10:19 #1 Rev.: 1414

Added Talairach functions

84 lines of code changed in 1 file:

• mrAlign: mrAlignGUI.m (+84 -6)

April 2009 »