changed clearing cache on preference change
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had to viewSet curSliceCoords for base and overlay even when retrieving from cache
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group popup not being set on start up
close roi window--why does this still come up?
3 lines of code changed in 1 file:
more mrCache minor changes
100 lines of code changed in 7 files:
pass in an array of overlays
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getROI not getRoi
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3 lines of code changed in 1 file:
more little fixes to mrCache
43 lines of code changed in 6 files:
more tweaking of mrCache
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tweaking of mrCache
134 lines of code changed in 4 files:
preference for cache sizes
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changed roicacheid
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ROI overlays pre-calculate coordinages
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added caching
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caching
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stuff for doing caches
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comments, cache size of 0
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85 lines of code changed in 2 files:
default arguments added
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added code to allow for changing the group and storing any loaded analysis so that you don't have to reload the analysis every time you change groups
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7 lines of code changed in 3 files:
some small fixes to setRangeToMax
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more comments, overlay can be a cell array
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made mrLoadRet check to see if it is being opened for a second time from a *different* homeDir
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fixed stripext to set .img
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14 lines of code changed in 3 files:
alwaysUseNextArg
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use evalargs to handle setting optional fields
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I just deleted the two lines of code that did mrGlobals and the newView (Eli for DH)
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returns handles
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22 lines of code changed in 4 files:
if rois are not shown then don't pass them to interrogator
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nrois
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loadAnat.m loadROI.m
uses stripext to remove filename extension and then adds '.mat'
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loadAnalysis.m loadOverlay.m
Works if filename argument is passed with or without '.mat'
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loadAnalysis.m loadOverlay.m
Added optional name argument to loadAnalysis and loadOverlay to override name field when loading
viewGet.m
Added viewGet overlayType
32 lines of code changed in 1 file:
loadAnalysis.m loadOverlay.m
Added optional name argument to loadAnalysis and loadOverlay to override name field when loading
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corAnal.m
using defaults for some of the overlay and analysis fields
isanalysis.m isoverlay.m
Added optional fields with default values. These functions now return either 0 or the modified structure with optional fields added and default values set.
viewSet.m
Changed calls to isanalysis and isoverlay to use returned (possibly modified) structure with optional fields set.
49 lines of code changed in 3 files:
corAnal.m
using defaults for some of the overlay and analysis fields
6 lines of code changed in 2 files:
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2 lines of code changed in 1 file:
fixed & tested concatenation of runs with different nFrams
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Fixed nFrames being different for different scans
Removed mgl traces from concatInfo (not being used anymore)
18 lines of code changed in 1 file:
saveAnalysis.m saveOverlay.m
Rewrote merging code to use viewGet instead of dereferencing the structures directly
viewGet.m
added overlayParams, overlayGroupName, analysisData
changed overlayData to return full cell array if scanNum is []
2031 lines of code changed in 1 file:
saveAnalysis.m saveOverlay.m
Rewrote merging code to use viewGet instead of dereferencing the structures directly
193 lines of code changed in 2 files:
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16 lines of code changed in 1 file:
fixed off by 1 transformation error
2 lines of code changed in 1 file:
loadAnat loads the header first to check if there are multiple volumes
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defaultReconcileParams does something intelligent if scanNum is not set
7 lines of code changed in 1 file:
mydisp -> mrdisp
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53 lines of code changed in 1 file:
saveAnalysis.m saveOverlay.m
added viewGet mergeFunction
viewGet.m
added viewGet mergeFunction
97 lines of code changed in 1 file:
saveAnalysis.m saveOverlay.m
added viewGet mergeFunction
7 lines of code changed in 2 files:
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211 lines of code changed in 5 files:
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16 lines of code changed in 1 file:
loadROITSeries calls getRoiCoordinates for coordinates
saveAnalysis got changed to handle defaultMerge
64 lines of code changed in 3 files:
default merge function
118 lines of code changed in 2 files:
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1 lines of code changed in 1 file:
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113 lines of code changed in 5 files:
added ability to enter a scan list
82 lines of code changed in 1 file:
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173 lines of code changed in 2 files:
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11 lines of code changed in 3 files:
minor change to get rid of warning with 'String'
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getROiCoordinates can get base coordinates too
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Interrogator now checks for roi intersection
15 lines of code changed in 2 files:
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44 lines of code changed in 7 files:
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168 lines of code changed in 2 files:
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40 lines of code changed in 4 files:
corAnalPlot.m
fixed bug that occured for ROI with only 1 voxel. Needed to specify mean(tseries,1) and std(tseries,1,1).
tseriesROI.m
added reshapeTSeries because loadTSeries no longer does it
1 lines of code changed in 1 file:
corAnalPlot.m
fixed bug that occured for ROI with only 1 voxel. Needed to specify mean(tseries,1) and std(tseries,1,1).
48 lines of code changed in 1 file:
buttons
26 lines of code changed in 1 file:
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55 lines of code changed in 2 files:
loadOverlay.m saveAnalysis.m saveOverlay.m saveSession.m
added mergeFunction field to overlays and analysis structures, used by saveAnalysis and saveOverlay
mrLoadRetGUI.m
added error checking for copy/paste
loadMrDefaults.m mrEditPrefs.m mrErrorDlg.m mrMsgBox.m mrSetPref.m mrWaitBar.m mrWarnDlg.m
changed verbose preference from 0/1 to "Yes"/"No"
fixed bug in figloc
28 lines of code changed in 7 files:
loadOverlay.m saveAnalysis.m saveOverlay.m saveSession.m
added mergeFunction field to overlays and analysis structures, used by saveAnalysis and saveOverlay
mrLoadRetGUI.m
added error checking for copy/paste
256 lines of code changed in 11 files:
loadOverlay.m saveAnalysis.m saveOverlay.m saveSession.m
added mergeFunction field to overlays and analysis structures, used by saveAnalysis and saveOverlay
64 lines of code changed in 4 files:
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11 lines of code changed in 2 files:
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1 lines of code changed in 1 file:
fixed handling of inplane anatomy files
20 lines of code changed in 1 file:
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added junk frames to errorbars
4 lines of code changed in 1 file:
fixed recovering of concatenation group
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motionComp.m
eliminated change of verbose preference and error try-catch-throw
editGroupGUI.m
Fixed initialization of originalFileName and originalGroup
saveAnalysis.m saveOverlay.m saveSession.m saveTSeries.m
Changed to use 'overwritePolicy' instead of 'verbose' preference
Added merge to saveOverlay
212 lines of code changed in 10 files:
motionComp.m
eliminated change of verbose preference and error try-catch-throw
editGroupGUI.m
Fixed initialization of originalFileName and originalGroup
4 lines of code changed in 1 file:
motionComp.m
eliminated change of verbose preference and error try-catch-throw
5 lines of code changed in 1 file:
saveAnalysis.m saveAnat.m saveOverlay.m saveROI.m
Changed usage of confirm parameter to depend on 'overwritePolicy' instead of 'verbose' preference. The usage of
confirm and 'overwritePolicy' is now correct for saveAnalysis. But not yet completed for the other functions.
Need to modify saveAnat, saveOverlay, and saveROI to make full use of 'overwritePolicy' as in saveAnalysis.
saveSession.m
Default for confirm is now 0 for saveSession (i.e., it overwrites without confirming).
Uses neither 'verbose' nor 'overwritePolicy' preference.
Simply overwrites unless confirm is nonzero.
Fixed typo in refreshMLRDisplay (overayIm -> overlayIm)
4 lines of code changed in 2 files:
saveAnalysis.m saveAnat.m saveOverlay.m saveROI.m
Changed usage of confirm parameter to depend on 'overwritePolicy' instead of 'verbose' preference. The usage of
confirm and 'overwritePolicy' is now correct for saveAnalysis. But not yet completed for the other functions.
Need to modify saveAnat, saveOverlay, and saveROI to make full use of 'overwritePolicy' as in saveAnalysis.
saveSession.m
Default for confirm is now 0 for saveSession (i.e., it overwrites without confirming).
Uses neither 'verbose' nor 'overwritePolicy' preference.
Simply overwrites unless confirm is nonzero.
78 lines of code changed in 6 files:
eventRelatedMultiple.m sgenerates 5-D ehdr and ehdrste instead of 4-D
12 lines of code changed in 1 file:
replaced niftiFileExtension.m with mrGetPref('niftiFileExtension')
0 lines of code changed in 1 file:
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39 lines of code changed in 3 files:
change getpref/setpref to mrGetPref/mrSetPref
add edit preferences menu
42 lines of code changed in 8 files:
eventRelatedMultiple.m updated and added to GUI
54 lines of code changed in 1 file:
fix myDisp -> mrDisp
1 lines of code changed in 1 file:
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1 lines of code changed in 1 file:
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3 lines of code changed in 1 file:
bug fix: eventRelatedMultiple.m getStimvol.m
9 lines of code changed in 2 files:
eventRelatedMultiple normalizes activity to mean intensity
9 lines of code changed in 1 file:
functions to copy or set nifti q/sforms
130 lines of code changed in 2 files:
Added the Averages group.
code still needs to be modified so that links go into ./Inplane/GroupName/TSeries/ScanXX
75 lines of code changed in 1 file:
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5 lines of code changed in 2 files:
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282 lines of code changed in 1 file:
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528 lines of code changed in 27 files:
Added mrSetPref, mrGetPref, mrSetFigLoc, and mrGetFigLoc. Changed code all over the place to call these new functions.
1092 lines of code changed in 15 files:
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4 lines of code changed in 2 files:
params dialog handles contingent and grouping
157 lines of code changed in 3 files:
mrGetPref.m mrSetPref.m
Replaces Matlab's getpref and setpref functions, utilizing global variable mrDEFAULTS.preferences.
40 lines of code changed in 2 files:
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0 lines of code changed in 1 file:
mrExport2SR.m
moved from mrUtilities/File to mrLoadRet/File directory
274 lines of code changed in 3 files:
loadMrDefaults.m saveMrDefaults.m
moved from mrLoadRet to mrUtilities
66 lines of code changed in 2 files:
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0 lines of code changed in 1 file:
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6 lines of code changed in 2 files:
recover any kind of files
43 lines of code changed in 1 file:
loading volume ROIs
15 lines of code changed in 1 file:
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0 lines of code changed in 1 file:
more info in scanInfo
interrogator shows base coords
and open window doesn't load anatomy from file but uses structure
60 lines of code changed in 4 files:
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60 lines of code changed in 2 files:
LoadROITSeries returns single roi or a cell array or rois
corANalPlot fixed for this change
5 lines of code changed in 2 files:
open window resets slider positions at beginning
74 lines of code changed in 3 files:
minor changes
90 lines of code changed in 4 files:
mrCleanDir can recover averages
scanInfo can display in dialog
30 lines of code changed in 4 files:
fixed roi coordinates bug
0 lines of code changed in 1 file:
added x/y flip to warp the time series appropriately and original file names
5 lines of code changed in 1 file:
setting of sform and default scan to current scan
13 lines of code changed in 2 files:
Added transforms in edit/scan
41 lines of code changed in 2 files:
default scan numbers to current scan
3 lines of code changed in 1 file:
another menu item for scan x forms
18 lines of code changed in 2 files:
added menu item for sform
6 lines of code changed in 2 files:
mrParamsDialog can handle arrays
92 lines of code changed in 3 files:
scanInfo displays in mrParamsDialog option
41 lines of code changed in 1 file:
another small typo
1 lines of code changed in 1 file:
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7 lines of code changed in 2 files:
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20 lines of code changed in 1 file:
Fixed some minor typos
4 lines of code changed in 1 file:
Added some more panels
111 lines of code changed in 1 file:
Modified Files:
drawROI.m
added polygon ROI
9 lines of code changed in 1 file:
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82 lines of code changed in 3 files:
added a comment
2 lines of code changed in 1 file:
fixed x/y flip
2 lines of code changed in 1 file:
mrCleanDir can now recover motionComp files
105 lines of code changed in 1 file:
this was crashing because vol was a 4D array--and when you set crop it
compared the sizes of something with 3 versus something with 4. switching
the order of evaluation of the first couple statements fixed this.
9 lines of code changed in 1 file:
Modified Files:
mlrGuiSet.m mrLoadRetGUI.m refreshMLRDisplay.m
reorganized refreshMLRDisplay to remove redundant computation for speed-up
Modified Files:
drawROI.m
added polygon
219 lines of code changed in 8 files:
Modified Files:
mlrGuiSet.m mrLoadRetGUI.m refreshMLRDisplay.m
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reorganized refreshMLRDisplay to remove redundant computation for speed-up
371 lines of code changed in 3 files:
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54 lines of code changed in 11 files:
load current scan as anatomy changes
18 lines of code changed in 2 files: