October 2007 Commit Log

Number of Commits:

135

Number of Active Developers:

6

justin 2007-10-30 02:04 #135 Rev.: 773

viewGet / viewSet minor changes to keep rotation of surfaces and to save flat directories

73 lines of code changed in 3 files:

• mrLoadRet/View: mrOpenWindow.m (+3), viewGet.m (+40 -7), viewSet.m (+30 -3)

justin 2007-10-30 02:04 #134 Rev.: 772

Flat viewer now has current overlay w/patch. Interrogator has coordinates for surfaces (but still need to look up in coordMap--i.e. won't work for inflated surfaces)
GUI adds back new window
refreshMLRDisplay gets axis correct so left is lefdt

63 lines of code changed in 6 files:

• mrLoadRet/GUI: mrFlatViewer.m (+24 -1), mrInterrogator.m (+12 -37), mrLoadRetGUI.fig (changed), mrLoadRetGUI.m (+15 -18), mrSurfViewer.m (+6 -1), refreshMLRDisplay.m (+6 -6)

justin 2007-10-30 02:02 #133 Rev.: 771

testing why coordinates were flipped (looks like it is an axis direction thing, so no changes here)

2 lines of code changed in 1 file:

• mrLoadRet/File: loadSurface.m (+2)

justin 2007-10-27 01:10 #132 Rev.: 770

*** empty log message ***

2 lines of code changed in 1 file:

• mrLoadRet/GUI: refreshMLRDisplay.m (+2 -1)

eli 2007-10-27 00:24 #131 Rev.: 769

initial import

349 lines of code changed in 1 file:

• mrUtilities/ImageProcessing: select3d.m (new 349)

eli 2007-10-26 23:06 #130 Rev.: 768

fixed path for loading anatomy file

3 lines of code changed in 1 file:

• mrLoadRet/GUI: mrFlatViewer.m (+3 -3)

justin 2007-10-26 22:28 #129 Rev.: 767

First take at loading and displaying surfaces. Can display overlays and ROIs.

392 lines of code changed in 13 files:

• mrLoadRet/File: loadAnat.m (+2 -2), loadFlat.m (+1 -2), loadSurface.m (new 73)
• mrLoadRet/GUI: mlrGuiSet.m (+22 -1), mrInterrogator.m (+52 -8), mrLoadRetGUI.fig (changed), mrLoadRetGUI.m (+50 -11), mrSurfViewer.m (+35 -19), refreshMLRDisplay.m (+66 -8)
• mrLoadRet/View: isbase.m (+7 -3), viewGet.m (+66 -5), viewSet.m (+2 -2)
• mrUtilities/File/Nifti: cbiReadNifti.m (+16)

justin 2007-10-26 08:27 #128 Rev.: 766

typo

1 lines of code changed in 1 file:

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

justin 2007-10-26 06:50 #127 Rev.: 765

takes the mean out of the hrf for glm analysis so they plot in alignment with event-related

1 lines of code changed in 1 file:

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

justin 2007-10-25 12:12 #126 Rev.: 764

code snippet to get permutation matrix from nifit qform

20 lines of code changed in 1 file:

• mrUtilities/File/Nifti: getPermutationMatrix.m (new 20)

shani 2007-10-25 05:42 #125 Rev.: 763

Checks if voxels are same size within a roundoff

4 lines of code changed in 1 file:

• mrLoadRet/Analysis/ConcatTSeries: concatTSeries.m (+4 -2)

justin 2007-10-25 05:19 #124 Rev.: 762

typo missing sprintf

1 lines of code changed in 1 file:

• mrLoadRet/Analysis/ConcatTSeries: concatTSeries.m (+1 -1)

justin 2007-10-25 05:01 #123 Rev.: 761

combineROIs can now be passed a new ROI name

17 lines of code changed in 1 file:

• mrLoadRet/ROI: combineROIs.m (+17 -5)

justin 2007-10-25 05:00 #122 Rev.: 760

fixed order of functions in file

107 lines of code changed in 1 file:

• mrLoadRet/GUI: mrLoadRetGUI.m (+107 -106)

justin 2007-10-25 05:00 #121 Rev.: 759

more informative error message for voxel sizes being different

3 lines of code changed in 1 file:

• mrLoadRet/Analysis/ConcatTSeries: concatTSeries.m (+3 -2)

shani 2007-10-25 03:04 #120 Rev.: 758

Now creates the directory when makes a new group, if the directory isn't already there

7 lines of code changed in 1 file:

• mrLoadRet/View: viewSet.m (+7)

shani 2007-10-25 03:02 #119 Rev.: 757

Now quits if the group directory doesn't exist.

8 lines of code changed in 1 file:

• mrLoadRet/File: importGroupScans.m (+8)

justin 2007-10-25 00:12 #118 Rev.: 756

You can now specify a mrLastView file to read in at startup (mrLoadRet('mrLoadRet2'), or none (mrLoadRet('');

28 lines of code changed in 2 files:

• mrLoadRet: mrLoadRet.m (+18 -9)
• mrLoadRet/View: mrOpenWindow.m (+10 -6)

justin 2007-10-24 12:55 #117 Rev.: 755

added surfViewer

641 lines of code changed in 2 files:

• mrLoadRet/GUI: mrFlatViewer.m (+2 -2), mrSurfViewer.m (new 639)

eli 2007-10-24 07:17 #116 Rev.: 754

still need to get rid of hard-coded directories (i.e., %s/%s)

9 lines of code changed in 1 file:

• mrLoadRet/GUI: mrFlatViewer.m (+9 -9)

eli 2007-10-24 06:48 #115 Rev.: 753

a bunch of changes to allow loading of surfaces that live in directory different from pwd
also save the flatPath variable

73 lines of code changed in 1 file:

• mrLoadRet/GUI: mrFlatViewer.m (+73 -34)

justin 2007-10-24 05:45 #114 Rev.: 752

loadwithout headers

7 lines of code changed in 1 file:

• mrLoadRet/File: loadVFF.m (+7 -2)

justin 2007-10-24 05:44 #113 Rev.: 751

check vff file for consistency, variables tracking position of controls

15 lines of code changed in 1 file:

• mrLoadRet/GUI: mrFlatViewer.m (+15 -8)

eli 2007-10-24 05:44 #112 Rev.: 750

removed all of the file parsing and surface loading functions.
these operations are now performed by mrFlatViewer

60 lines of code changed in 1 file:

• mrLoadRet/File: loadFlatOFF.m (+60 -251)

justin 2007-10-24 03:39 #111 Rev.: 749

checks for matching nodes on surfaces

35 lines of code changed in 2 files:

• mrLoadRet/GUI: mrFlatViewer.m (+29 -20)
• mrLoadRet/View: deleteView.m (+6)

eli 2007-10-23 00:05 #110 Rev.: 748

*** empty log message ***

1 lines of code changed in 1 file:

• mrLoadRet/GUI: mrFlatViewer.m (+1)

eli 2007-10-23 00:05 #109 Rev.: 747

fixed rescaling of image size with rotation

5 lines of code changed in 1 file:

• mrLoadRet/GUI: mrFlatViewer.m (+5)

justin 2007-10-20 07:11 #108 Rev.: 746

parameter contingencies were a bit broken

24 lines of code changed in 2 files:

• mrUtilities/MatlabUtilities: mrParamsParse.m (+22 -3), putOnTopOfList.m (+2 -1)

justin 2007-10-20 07:11 #107 Rev.: 745

default arguments changed for flat viewer and edit all roi fixed u

31 lines of code changed in 2 files:

• mrLoadRet/GUI: mrFlatViewer.m (+23 -20), mrLoadRetGUI.m (+8 -5)

justin 2007-10-20 07:11 #106 Rev.: 744

saveVFF added

56 lines of code changed in 2 files:

• mrLoadRet/File: loadVFF.m (+1), saveVFF.m (new 55)

justin 2007-10-19 09:42 #105 Rev.: 743

flat viewer can now choose which files to view. loadSurfOFF can be called to only return header

194 lines of code changed in 2 files:

• mrLoadRet/File: loadSurfOFF.m (+8 -3)
• mrLoadRet/GUI: mrFlatViewer.m (+186 -57)

justin 2007-10-19 08:00 #104 Rev.: 742

callback arguments

7 lines of code changed in 1 file:

• mrUtilities/MatlabUtilities: mrParamsDialog.m (+7 -2)

justin 2007-10-19 07:59 #103 Rev.: 741

adding ability to switch surfaces/load

142 lines of code changed in 1 file:

• mrLoadRet/GUI: mrFlatViewer.m (+142 -9)

justin 2007-10-19 06:51 #102 Rev.: 740

minor

1 lines of code changed in 1 file:

• mrLoadRet/GUI: mrLoadRetGUI.m (+1 -1)

justin 2007-10-19 05:15 #101 Rev.: 739

base volumes use crop for rotation and save rotation correctly

12 lines of code changed in 3 files:

• mrLoadRet/GUI: mlrGuiSet.m (+1 -1), refreshMLRDisplay.m (+4 -4)
• mrLoadRet/View: viewSet.m (+7)

justin 2007-10-19 04:54 #100 Rev.: 738

Handle ROI name collisions gracefully

19 lines of code changed in 2 files:

• mrLoadRet/GUI: mrLoadRetGUI.m (+3)
• mrLoadRet/View: viewSet.m (+16 -5)

justin 2007-10-19 04:53 #99 Rev.: 737

Handle name collisions gracefully

27 lines of code changed in 1 file:

• mrLoadRet/File: loadROI.m (+27 -4)

justin 2007-10-19 01:30 #98 Rev.: 736

fix multile combines and combine with empty coords

42 lines of code changed in 3 files:

• mrLoadRet/GUI: mrLoadRetGUI.m (+9 -6)
• mrLoadRet/ROI: combineROIs.m (+28 -4), xformROIcoords.m (+5)

justin 2007-10-19 01:11 #97 Rev.: 735

empty coords

2 lines of code changed in 1 file:

• mrUtilities/MatlabUtilities: mrSub2ind.m (+2)

justin 2007-10-19 01:10 #96 Rev.: 734

Handling of multiple ROIs with the same name

50 lines of code changed in 3 files:

• mrLoadRet/GUI: mrLoadRetGUI.m (+9 -1)
• mrLoadRet/ROI: newROI.m (+9 -2)
• mrLoadRet/View: viewSet.m (+32 -1)

justin 2007-10-19 00:24 #95 Rev.: 733

warning for multiple ROIs with the same name

5 lines of code changed in 1 file:

• mrLoadRet/View: viewGet.m (+5 -1)

justin 2007-10-18 21:57 #94 Rev.: 732

multi-column params dialogs for when there are too many parameters

48 lines of code changed in 2 files:

• mrUtilities/MatlabUtilities: mrParamsDialog.m (+43 -12), mrParamsParse.m (+5 -1)

justin 2007-10-18 12:31 #93 Rev.: 731

minor fixes to mrFlatViewer
roi notes added
roi selected color can be none
open defaults to showing roi labels
dialog sets parameters for new rois

274 lines of code changed in 10 files:

• mrLoadRet/GUI: mrFlatViewer.m (+41 -23), mrLoadRetGUI.m (+175 -161), refreshMLRDisplay.m (+6 -2)
• mrLoadRet/ROI: newROI.m (+13 -5)
• mrLoadRet/View: isroi.m (+2 -1), mrOpenWindow.m (+1), viewGet.m (+18), viewSet.m (+12)
• mrUtilities/ImageProcessing: color2RGB.m (+3 -1)
• mrUtilities/MatlabUtilities: mrEditPrefs.m (+3 -1)

justin 2007-10-18 09:37 #92 Rev.: 730

Edit Many/All ROIs and more colors for ROIs

94 lines of code changed in 6 files:

• mrLoadRet/GUI: mrLoadRetGUI.fig (changed), mrLoadRetGUI.m (+76 -17), refreshMLRDisplay.m (+1 -1)
• mrLoadRet/ROI: convertROICorticalDepth.m (+3 -3)
• mrUtilities/ImageProcessing: color2RGB.m (+13 -2)
• mrUtilities/MatlabUtilities: mrEditPrefs.m (+1 -1)

justin 2007-10-18 08:21 #91 Rev.: 729

handle roi selected

80 lines of code changed in 1 file:

• mrLoadRet/GUI: mrFlatViewer.m (+80 -42)

eli 2007-10-18 07:53 #90 Rev.: 728

deal with empty coords correctly

6 lines of code changed in 1 file:

• mrLoadRet/ROI: convertROICorticalDepth.m (+6 -1)

eli 2007-10-18 05:25 #89 Rev.: 727

fixed the phase wrap around problem...again

3 lines of code changed in 1 file:

• mrLoadRet/GUI: computeOverlay.m (+3 -1)

justin 2007-10-18 05:00 #88 Rev.: 726

rgb values from color string

28 lines of code changed in 1 file:

• mrUtilities/ImageProcessing: color2RGB.m (new 28)

justin 2007-10-18 04:50 #87 Rev.: 725

roi display on mrFlatView

87 lines of code changed in 3 files:

• mrLoadRet/GUI: mrFlatViewer.m (+76 -6), refreshMLRDisplay.m (+1 -14)
• mrLoadRet/View: viewGet.m (+10)

justin 2007-10-18 02:52 #86 Rev.: 724

function pulled out of refreshMLRDisplay

56 lines of code changed in 1 file:

• mrUtilities/ImageProcessing: rescale2rgb.m (new 56)

justin 2007-10-18 02:52 #85 Rev.: 723

viewGet can return view from viewNum

8 lines of code changed in 1 file:

• mrLoadRet/View: viewGet.m (+8 -1)

justin 2007-10-18 02:51 #84 Rev.: 722

convertROI was not handling multiple ROIs correctly. fixed.

4 lines of code changed in 1 file:

• mrLoadRet/ROI: convertROI.m (+4 -3)

justin 2007-10-18 02:51 #83 Rev.: 721

mrFlatViewer can now display overlays. refreshMLRDisplay has computeOverlay function pulled out of it, so that mrFlatViewer can call that to compute the overlay

252 lines of code changed in 4 files:

• mrLoadRet/GUI: computeOverlay.m (new 195), mrFlatViewer.m (+47 -15), mrLoadRetGUI.m (+1 -1), refreshMLRDisplay.m (+9 -223)

farshadm 2007-10-17 07:17 #82 Rev.: 720

fixed TR supersampling in getStimvol for concatenated tseries.

1 lines of code changed in 1 file:

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

eli 2007-10-17 06:06 #81 Rev.: 719

fixed calculation of phase in corAnalInterp

4 lines of code changed in 1 file:

• mrLoadRet/GUI: refreshMLRDisplay.m (+4 -1)

eli 2007-10-17 05:44 #80 Rev.: 718

changed order of operations in combineROIMenuItem

1 lines of code changed in 1 file:

• mrLoadRet/GUI: mrLoadRetGUI.m (+1 -1)

eli 2007-10-17 05:27 #79 Rev.: 717

just added a header

1 lines of code changed in 1 file:

• mrUtilities/MatlabUtilities: mrSub2ind.m (+1)

justin 2007-10-17 05:17 #78 Rev.: 716

default to 0 - 0.5 projection

1 lines of code changed in 1 file:

• mrLoadRet/ROI: convertROICorticalDepth.m (+1 -1)

justin 2007-10-17 05:17 #77 Rev.: 715

getting inner/outer surface correct and more sensible prompt for user to find anatomy directory

43 lines of code changed in 2 files:

• mrLoadRet/GUI: mrFlatViewer.m (+42 -35), mrLoadRetGUI.m (+1 -1)

katrin 2007-10-17 04:28 #76 Rev.: 714

Modified Files:
refreshMLRDisplay.m
get rid of +pi in corAnalInterp

1 lines of code changed in 1 file:

• mrLoadRet/GUI: refreshMLRDisplay.m (+1 -1)

eli 2007-10-17 03:02 #75 Rev.: 713

default ROI color changed to black

1 lines of code changed in 1 file:

• mrLoadRet/ROI: newROI.m (+1 -1)

justin 2007-10-17 02:52 #74 Rev.: 712

imageDims had to be left right reversed for roi drawing

7 lines of code changed in 1 file:

• mrLoadRet/GUI: refreshMLRDisplay.m (+7 -7)

justin 2007-10-17 02:20 #73 Rev.: 711

added code to make ROIs draw extended line segments as a single line (instead of as each edge of a voxel). This dramatically speeds up the drawing of the ROI for when you show all. For example an ROI that took 7 seconds to draw now takes 700 ms.

31 lines of code changed in 1 file:

• mrLoadRet/GUI: refreshMLRDisplay.m (+31 -6)

justin 2007-10-17 00:41 #72 Rev.: 710

There is a numerical (but inconsequential) difference between setting the sform in the header and reading that sform back from disk. This would cause mrUpdateNiftiHeader to believe that the sforms were different between mrSession and the file.

7 lines of code changed in 2 files:

• mrLoadRet/File: saveSform.m (+6)
• mrUtilities/File/Nifti: mrUpdateNiftiHdr.m (+1 -1)

justin 2007-10-16 22:59 #71 Rev.: 709

hotkey for roi hide set to Z

0 lines of code changed in 1 file:

• mrLoadRet/GUI: mrLoadRetGUI.fig (changed)

justin 2007-10-16 07:52 #70 Rev.: 708

ROI base coords do not need to be recomputed when cortical depth is changed. Only roi image coords.

8 lines of code changed in 2 files:

• mrLoadRet/GUI: refreshMLRDisplay.m (+7)
• mrLoadRet/View: viewGet.m (+1 -8)

justin 2007-10-16 07:14 #69 Rev.: 707

removed the xfromROI setting since just returning coordinates when the xform is identity is identical to going through the code

0 lines of code changed in 1 file:

• mrUtilities/MatlabUtilities: mrEditPrefs.m (-9)

justin 2007-10-16 07:13 #68 Rev.: 706

roi labels are saved in mrLastView

3 lines of code changed in 1 file:

• mrLoadRet/View: mrOpenWindow.m (+3)

justin 2007-10-16 07:13 #67 Rev.: 705

fine tuning convert/ROI stuff

52 lines of code changed in 6 files:

• mrLoadRet/GUI: mlrGuiSet.m (+5 -4), mrLoadRetGUI.m (+1)
• mrLoadRet/ROI: convertROI.m (+14 -7), convertROICorticalDepth.m (+2 -4), findROI.m (+6 -3), xformROIcoords.m (+24 -14)

justin 2007-10-16 05:29 #66 Rev.: 704

added ability to project/restrict ROIs through cortical depth

241 lines of code changed in 8 files:

• mrLoadRet/GUI: mlrGuiSet.m (+2 -1), mrLoadRetGUI.fig (changed), mrLoadRetGUI.m (+17 -3), refreshMLRDisplay.m (+4 -28)
• mrLoadRet/ROI: convertROI.m (+24 -17), convertROICorticalDepth.m (new 145)
• mrLoadRet/View: viewGet.m (+15 -6)
• mrUtilities/MatlabUtilities: mrSub2ind.m (new 34)

justin 2007-10-16 01:01 #65 Rev.: 703

uses fixBadChars to make sure figure name is a valid field

2 lines of code changed in 1 file:

• mrUtilities/MatlabUtilities: mrParamsDialog.m (+2 -2)

justin 2007-10-16 01:01 #64 Rev.: 702

changes need for roi labels

10 lines of code changed in 3 files:

• mrLoadRet/View: isview.m (+3 -2), viewGet.m (+3), viewSet.m (+4)

justin 2007-10-16 01:01 #63 Rev.: 701

function to convert ROIs permanently to another coordinate frame/voxel size

96 lines of code changed in 1 file:

• mrLoadRet/ROI: convertROI.m (new 96)

justin 2007-10-16 01:01 #62 Rev.: 700

changes made so that roi labels can be displayed

79 lines of code changed in 5 files:

• mrLoadRet/GUI: mlrGuiSet.m (+7), mrLoadRetGUI.fig (changed), mrLoadRetGUI.m (+48 -2), mrPrint.m (+1), refreshMLRDisplay.m (+23)

justin 2007-10-16 01:00 #61 Rev.: 699

added path so that you can load from volume directory

6 lines of code changed in 1 file:

• mrLoadRet/File: loadROI.m (+6 -4)

justin 2007-10-13 07:37 #60 Rev.: 698

minor changes

71 lines of code changed in 2 files:

• mrLoadRet/GUI: mrFlatViewer.m (+18 -8), mrPrint.m (+53 -5)

justin 2007-10-13 07:35 #59 Rev.: 697

small differences in qforms are now reported

6 lines of code changed in 1 file:

• mrUtilities/File/Nifti: mrUpdateNiftiHdr.m (+6 -2)

justin 2007-10-13 07:35 #58 Rev.: 696

default to showing rois with all perimeters

2 lines of code changed in 1 file:

• mrLoadRet/View: mrOpenWindow.m (+2)

justin 2007-10-13 07:34 #57 Rev.: 695

fixed little bug if you cancel edit/preferences it put you in debug mode...

10 lines of code changed in 1 file:

• mrLoadRet/GUI: mrLoadRetGUI.m (+10 -10)

eli 2007-10-13 05:51 #56 Rev.: 694

got rid of slice loop b/c it screwed up warping when the files have different alignments

74 lines of code changed in 1 file:

• mrLoadRet/Analysis/AverageTSeries: averageTSeries.m (+74 -75)

eli 2007-10-13 05:31 #55 Rev.: 693

fixed bad chars in roi names in removeManyROIMenuItem

2 lines of code changed in 1 file:

• mrLoadRet/GUI: mrLoadRetGUI.m (+2 -2)

eli 2007-10-13 02:36 #54 Rev.: 692

*** empty log message ***

11 lines of code changed in 2 files:

• mrLoadRet/File: loadVFF.m (+7)
• mrLoadRet/GUI: mrFlatViewer.m (+4 -1)

eli 2007-10-13 01:41 #53 Rev.: 691

*** empty log message ***

26 lines of code changed in 1 file:

• mrLoadRet/Analysis: makeFlat.m (+26 -19)

justin 2007-10-12 23:59 #52 Rev.: 690

Check for stimvol overrun at end of run (to handle junk frames at end correctly

6 lines of code changed in 1 file:

• mrLoadRet/Analysis/EventRelated: getStimvol.m (+6)

eli 2007-10-12 07:38 #51 Rev.: 689

updated to matlab version 7.5
i've tested this version of matlab for about three weeks - everything looks good.
big improvement in ROI drawing

2 lines of code changed in 1 file:

• mrLoadRet: mrLoadRetVersion.m (+2 -2)

justin 2007-10-12 07:07 #50 Rev.: 688

total frames can now be set without resetting junk frames

1 lines of code changed in 1 file:

• mrLoadRet/Edit: editGroupGUI.m (+1 -1)

tsliu 2007-10-12 06:40 #49 Rev.: 687

Modified Files:
motionComp.m
fixed bug in slice time correction that generated an extra frame

0 lines of code changed in 1 file:

• mrLoadRet/Analysis/MotionComp: motionComp.m (-1)

justin 2007-10-12 05:29 #48 Rev.: 686

warp interp methods uses preferences

6 lines of code changed in 1 file:

• mrLoadRet/Analysis/ConcatTSeries: concatTSeries.m (+6 -1)

justin 2007-10-11 10:56 #47 Rev.: 685

Plot menu hase flatViewer item

40 lines of code changed in 5 files:

• mrLoadRet/File: baseInfo.m (+1)
• mrLoadRet/GUI: mlrGuiSet.m (+2), mrFlatViewer.m (+5 -1), mrLoadRetGUI.fig (changed), mrLoadRetGUI.m (+32 -2)

eli 2007-10-11 07:58 #46 Rev.: 684

*** empty log message ***

1 lines of code changed in 1 file:

• mrLoadRet/Analysis: makeFlat.m (+1)

eli 2007-10-11 06:29 #45 Rev.: 683

installs the flatpatch.off as a base anatomy using loadFlatOFF

43 lines of code changed in 1 file:

• mrLoadRet/Analysis: makeFlat.m (+43 -112)

eli 2007-10-11 06:26 #44 Rev.: 682

input 'flatFileName' can now be a params struct. this allows loadFlatOFF to be called from makeFlat.
also flipped the Y coordinates do match the volume anatomy orientation.

91 lines of code changed in 1 file:

• mrLoadRet/File: loadFlatOFF.m (+91 -79)

justin 2007-10-11 05:44 #43 Rev.: 681

added areal distortion computation/viewing

113 lines of code changed in 1 file:

• mrLoadRet/GUI: mrFlatViewer.m (+113 -10)

justin 2007-10-11 02:56 #42 Rev.: 680

file extension

1 lines of code changed in 1 file:

• mrLoadRet/GUI: mrFlatViewer.m (+1 -1)

justin 2007-10-11 02:51 #41 Rev.: 679

check for sliceIndex on opening

2 lines of code changed in 1 file:

• mrLoadRet/View: mrOpenWindow.m (+2 -1)

justin 2007-10-11 02:51 #40 Rev.: 678

Added patch viewing

263 lines of code changed in 2 files:

• mrLoadRet/GUI: mrFlatViewer.m (+256 -29), selectGraphWin.m (+7)

justin 2007-10-11 02:50 #39 Rev.: 677

minor

1 lines of code changed in 1 file:

• mrLoadRet/File: baseInfo.m (+1 -1)

justin 2007-10-10 12:09 #38 Rev.: 676

minor: pulled out loadVFF

1 lines of code changed in 1 file:

• mrLoadRet/File: loadFlatOFF.m (+1 -1)

justin 2007-10-10 11:57 #37 Rev.: 675

flat on surface viewer plus needed changes (fixed up eli's function surfViewer)

342 lines of code changed in 5 files:

• mrLoadRet/File: baseInfo.m (+18), loadFlatOFF.m (-65), loadVFF.m (new 65)
• mrLoadRet/GUI: mrFlatViewer.m (new 253)
• mrUtilities/MatlabUtilities: mrParamsDialog.m (+6)

justin 2007-10-10 02:27 #36 Rev.: 674

minor

1 lines of code changed in 1 file:

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

justin 2007-10-10 02:26 #35 Rev.: 673

roi caching chenks voxel size

8 lines of code changed in 1 file:

• mrLoadRet/View: viewGet.m (+8 -5)

justin 2007-10-10 02:26 #34 Rev.: 672

after calling edit preferences dumps/caches and redraws if necessary

17 lines of code changed in 1 file:

• mrLoadRet/GUI: mrLoadRetGUI.m (+17)

eli 2007-10-10 01:38 #33 Rev.: 671

fixed corAnalInterpFunc in refreshMLRDisplay. It was computing the interpolated phase/amp images correctly, but then not using those--instead using the ones that were computed with interp.

4 lines of code changed in 1 file:

• mrLoadRet/GUI: refreshMLRDisplay.m (+4 -3)

justin 2007-10-09 22:12 #32 Rev.: 670

spliting off loadSurf
rounding coordinates when xformROIcoords gets identity xform

110 lines of code changed in 3 files:

• mrLoadRet/File: loadFlatOFF.m (-100), loadSurfOFF.m (new 109)
• mrLoadRet/ROI: xformROIcoords.m (+1 -1)

justin 2007-10-06 07:03 #31 Rev.: 669

roi labels for mrPrint

32 lines of code changed in 2 files:

• mrLoadRet/GUI: mrPrint.m (+27 -6), refreshMLRDisplay.m (+5 -5)

justin 2007-10-06 04:30 #30 Rev.: 668

small fixes. loadROITSeries handles numbered rois correctly
mrPrint provides choice of how to handle out of bounds rois
mrParamsDialog automatically resizes width of fields
scanInfo removes double column width fields
added eventRelatedTSeries which can calculate er on a supplied timecourse

93 lines of code changed in 5 files:

• mrLoadRet/Analysis/EventRelated: eventRelatedTSeries.m (new 59)
• mrLoadRet/File: loadROITSeries.m (+2 -1), scanInfo.m (+1 -1)
• mrLoadRet/GUI: mrPrint.m (+24 -6)
• mrUtilities/MatlabUtilities: mrParamsDialog.m (+7 -1)

justin 2007-10-06 01:40 #29 Rev.: 667

check for existence of getStimvolFromVarname

1 lines of code changed in 1 file:

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

justin 2007-10-05 23:15 #28 Rev.: 666

changes to the way default interrogators preference work

58 lines of code changed in 3 files:

• mrUtilities/MatlabUtilities: cellToCommaDelimited.m (new 27), commaDelimitedToCell.m (new 20), mrEditPrefs.m (+11 -1)

justin 2007-10-05 23:15 #27 Rev.: 665

default interrogators preference changed
clear roi line coordinates so mrPrint won't display rois that don't exist on anatomy

7 lines of code changed in 2 files:

• mrLoadRet/GUI: mrInterrogator.m (+4 -5), refreshMLRDisplay.m (+3)

justin 2007-10-05 23:14 #26 Rev.: 664

ask user for directory if it doesn't exist

9 lines of code changed in 1 file:

• mrLoadRet/Analysis: makeFlat.m (+9)

eli 2007-10-05 22:39 #25 Rev.: 663

flattens a surface from a voxel interrogator.

316 lines of code changed in 1 file:

• mrLoadRet/Analysis: makeFlat.m (new 316)

justin 2007-10-05 12:23 #24 Rev.: 662

mrPrint handles larger ROIs with circular aperture by setting lines to nan

8 lines of code changed in 1 file:

• mrLoadRet/GUI: mrPrint.m (+8 -15)

justin 2007-10-05 11:07 #23 Rev.: 661

minor

0 lines of code changed in 1 file:

• mrLoadRet/GUI: mrPrint.m (-1)

justin 2007-10-05 11:00 #22 Rev.: 660

preference for how roi's are transformed when the xforms match

11 lines of code changed in 1 file:

• mrUtilities/MatlabUtilities: mrEditPrefs.m (+11 -2)

justin 2007-10-05 11:00 #21 Rev.: 659

default rotation to 0 in isbase
open window resets which base was being shown
minor viewGet/Set changes
xfromROIcoords now uses preference to decide how to transform voxels when given an identity xform

20 lines of code changed in 3 files:

• mrLoadRet/ROI: xformROIcoords.m (+16)
• mrLoadRet/View: isbase.m (+1 -1), mrOpenWindow.m (+3)

justin 2007-10-05 10:58 #20 Rev.: 658

more tweaking of ROI code and fixing ROI drawing in mrPrint so that they don't extend over the end of the circular aperture

94 lines of code changed in 3 files:

• mrLoadRet/GUI: mrLoadRetGUI.m (+1), mrPrint.m (+44 -9), refreshMLRDisplay.m (+49 -66)

justin 2007-10-05 06:18 #19 Rev.: 657

preference for selected roi color

9 lines of code changed in 1 file:

• mrUtilities/MatlabUtilities: mrEditPrefs.m (+9)

justin 2007-10-05 06:17 #18 Rev.: 656

changes made necessary by tweaking of ROI code

12 lines of code changed in 1 file:

• mrLoadRet/ROI: findROI.m (+12 -5)

justin 2007-10-05 06:17 #17 Rev.: 655

minor: message printed out when you save to desktop

1 lines of code changed in 1 file:

• mrLoadRet/File: overlayInfo.m (+1 -1)

justin 2007-10-05 06:17 #16 Rev.: 654

changes needed for tweaking ROI drawing code

9 lines of code changed in 1 file:

• mrLoadRet/View: viewGet.m (+9 -13)

justin 2007-10-05 06:16 #15 Rev.: 653

Added feature to print out figures for publications.
Also many tweaks to ROI drawing code. Sepatated out computation of ROI base coordinates and ROI image coordinates. ROI base coordinates are now reused by all the anatomies that have the same base transformation.

350 lines of code changed in 4 files:

• mrLoadRet/GUI: mrLoadRetGUI.m (+11 -1), mrPrint.m (new 166), refreshMLRDisplay.m (+172 -216), selectGraphWin.m (+1)

justin 2007-10-05 00:03 #14 Rev.: 652

Added print option to menu

0 lines of code changed in 1 file:

• mrLoadRet/GUI: mrLoadRetGUI.fig (changed)

justin 2007-10-04 22:24 #13 Rev.: 651

fixes to speed up ROI drawing--still working on refreshMLRDisplay, new
code is commented out for now

75 lines of code changed in 3 files:

• mrLoadRet/GUI: refreshMLRDisplay.m (+55 -9)
• mrLoadRet/ROI: drawROI.m (+2 -2)
• mrLoadRet/View: viewGet.m (+18 -2)

justin 2007-10-04 07:55 #12 Rev.: 650

glmContrastPlot now can find a loaded er analysis and plot the deconvolution as well. editOVerlay can set colormaps to arbitrary functions. saveAnat tells you the name of the anatomy in the title bar

54 lines of code changed in 4 files:

• mrLoadRet/Analysis/EventRelated: glmContrastPlot.m (+34 -4)
• mrLoadRet/Edit: editOverlayGUImrParams.m (+15)
• mrLoadRet/File: loadFlatOFF.m (+4), saveAnat.m (+1 -1)

farshadm 2007-10-04 03:18 #11 Rev.: 649

getGlmContrast does glm even if null(contrasts) is empty

24 lines of code changed in 2 files:

• mrLoadRet/Analysis/EventRelated: getGlmContrast.m (+23 -7), makeglm.m (+1 -1)

farshadm 2007-10-04 02:25 #10 Rev.: 648

*** empty log message ***

2 lines of code changed in 1 file:

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

justin 2007-10-02 06:22 #9 Rev.: 647

open window does a check for having a bad sliceIndex

6 lines of code changed in 2 files:

• mrLoadRet/View: mrOpenWindow.m (+5), viewGet.m (+1 -1)

justin 2007-10-02 06:22 #8 Rev.: 646

timecoursePlot is just a rename of mrDefaultInterrogator

50 lines of code changed in 1 file:

• mrLoadRet/Plot: timecoursePlot.m (new 50)

justin 2007-10-02 06:22 #7 Rev.: 645

removed defaultinterrogator and called it timecoursePlot.
minor changes to the GUI functions

10 lines of code changed in 4 files:

• mrLoadRet/GUI: mrDefaultInterrogator.m (del), mrInterrogator.m (+1 -1), mrLoadRetGUI.m (+7 -19), refreshMLRDisplay.m (+2 -1)

justin 2007-10-02 06:21 #6 Rev.: 644

pulled out overlayInfo as a function

48 lines of code changed in 1 file:

• mrLoadRet/File: overlayInfo.m (new 48)

justin 2007-10-02 06:21 #5 Rev.: 643

changed a comment

1 lines of code changed in 1 file:

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

justin 2007-10-02 06:21 #4 Rev.: 642

ability to pass in default scan numbers

12 lines of code changed in 1 file:

• mrLoadRet/Analysis/ConcatTSeries: concatTSeries.m (+12 -4)

justin 2007-10-02 05:48 #3 Rev.: 641

change to preprocess to allow passing of arguments by doing run=fun(d,1)
also added the ability to get paramters for particular scans

30 lines of code changed in 5 files:

• mrLoadRet/Analysis/EventRelated: eventRelated.m (+10 -4), eventRelatedGUI.m (+4 -2), eventRelatedGlm.m (+3 -2), eventRelatedGlmGUI.m (+4 -2), eventRelatedPreProcess.m (+9 -3)

eli 2007-10-02 05:17 #2 Rev.: 640

removed dynamic lib env, which is jonas hack.
setenv('DYLD_LIBRARY_PATH', '/Users/eli/src/TFI/sw/lib/');

0 lines of code changed in 1 file:

• mrLoadRet/File: loadFlatOFF.m (-1)

justin 2007-10-01 21:33 #1 Rev.: 639

added default interrogators to mrInterrogator. These are added to the preferences. ALlows for quick switching between interrogators and to put useful interrogators into a place where they are easily accessible

89 lines of code changed in 2 files:

• mrLoadRet/GUI: mrInterrogator.m (+79 -2)
• mrUtilities/MatlabUtilities: mrEditPrefs.m (+10 -1)

September 2007 »