Updates 2021
- Paul Macey
Analytics
old updates
2021-12-29
Tidied Subjects GUI
Study actions are only available when a study is selected (to avoid “Select study first” warning)
Autofit columns now works properly; click button or press “A“ key (case does not matter); keypress works when figure is selected
Labels and tooltip info text are clarified & corrected
2021-12-09
Added filter for fMRI
2021-12-02
Fixed analysis bug with GUI…. may be there with other GUI’s
Updates to CAT12
2021-12-01
Fixed add new subject
2021-11-23
Fix - Set Load and analyze sound bring up new GUI
2021-11-18
Lots of changes to GUI’s, as part of updating to matlab’s uifigures.
DICOM convert: fixed bug in specifying code
Updated cat 12
Started adding CAT 12 to analysis - not finished yet!!
2021-10-14
Multiple sets: now have option to merge groups of same name
https://osabrainresearch.atlassian.net/wiki/x/AQDcW
2021-10-13
Updated REST
Can now select 2 or more sets to load (in Sets GUI)
Some tweaks to stats apps, should not alter existing functions
2021-09-09
T2 maps - from Bruker files - bleeding edge
2021-09-07
Sets: fixed blank study names
2021-08-27
Rodent DTI:
Place DTI nifti files in a folder (can be single *.nii.gz file); can leave out b0 file (this appears to be included in the 4D nii.gz file)
Start GUI
Go through 8 steps
2021-08-26
CSPM local settings: fixed local settings error - did not work remotely because a quirk of file naming with migration to new GUIs
To run local settings after stating CSPM, either go to Options menu, or on command line type >> cspm_local
2021-08-12
Project copy and coreg - deal with multiple physiology
Set analysis -fix bug
Survey - download qualtrics SR
2021-08-09
Bruker DTI: DICOM convert should work - include "method" file with DICOM files
Test with DTI, run one
2021-08-05
64 to 32: can select multiple
2021-08-02
cspm stats set load - possible fix for error when loading
2021-07-08
physiology - viewing and peak detection tidied
tools - app to create paced breathing videos
2021-06-11
db connection: added more information if connection fails (from local settings)
2021-06-03
fMRI slice timing: if BIDS does not have slice timing info, will check DICOM (instead of crashing)
Programming changes to help with conversion utility for CCHS 2004 data
2021-05-29
VOI values - option to have multiple VOI (in folder), and save Excel files in output folder
2021-05-04
Fixed bug with fMRI show-results option
2021-04-28
Fixed rare bug with SUIT measures not showing in Stats GUI
2021-04-19
Tweaks for R2021a compatibility
2021-04-15
Sydney: put in workaround for database table that disappeared ("subject_covariate"); it is essentially unused in Sydney.
Only use number covariates; "metrics" are the better way to most variables anyway.
2021-04-14
Sydney: older versions of MATLAB will cause error when starting CSPM due to GUI ("App") incompatibility
Use startup file in Z:\Sys Admin\MATLAB
In MATLAB, find the location of your startup file with
>> which startupReplace this with the one from the share drive
If CSPM fails on startup, this new file will file will delete the "App" and try again with the old GUI
Updated some missing files on the cloud
2021-04-12
Added help for installing python Bruker to nifti conversion. In short, 1) install python according to the instructions, 2) install the bruker2nifti in python (easy), then 3) find the python gui file.
2021-03-31
CSPM: resize options now move windows based on edge of MATLAB window
2021-03-26
General: migration of back code to work with MATLAB 2021a (database connections especially)
CSPM: converted to MATLAB "App" (needed to maintain compatibility with future MATLAB releases)
2021-03-25
fmri type: 1) add vector common error fixed; Delete counts and shows number of fMRI studies with type; if more than one, a second confirmation is required (because it'll screw up those project fMRI studies)
2021-03-18
Stats GUI - fmri list font not as small
2021-03-16
Extract data from VOI: now has a GUI, but just does one VOI at a time
Can do all individual voxels in VOI
2021-03-09
Metric: in Sets GUI, can view all metrics in Excel
Metric: in Sets GUI, can now filter by measures within a metric (https://osabrainresearch.atlassian.net/l/c/s2kqHhWU )
Physiology: rate calculation from peak detection now works. Tidied peakdetection GUI
2021-03-01
Exporting from "Display orthviews with multiple views" updated with latest export_fig, and MATLAB 2020b tweaks.
Also checks for ghostview, which is a free program that needs to be installed for the export to work
Physiology: peak detection for rate calculation now functional at a minimal level: can detect and edit peaks, save rate, re-edit peaks.
PPI - now will try to reload new measure into Stats GUI. There are also two options to force reload, on in the main GUI (top circle) and one that will be enabled after the PPI has run (lower circle).
2021-02-16
Tweaks to NBS - fix bug, history saves in NBS folder
2021-02-13
NBS help page started
fMRI VOIxVOI connectivity saves correlation values etc. in format that NBS can read
Added Network-Based Statistics (NBS) toolbox (subfolder of CSPM)
CSPM buttons to start: NBS starts GUI, Man opens manual, Clear removes history so NBS wqill open the the demo example data (useful for tutorial in manual).
2021-02-11
Fixed database bug when subject id (number only) has 6 or more digits
Removed floating "loading" message for fMRI VOI-to-VOI
VOI r-maps (new measure of fMRI connectivity wrt VOI seed): made fix that may help when there are -ve values
CSPM forces the r-maps to "int16" format, which lets us see negative values.
Can check the file type of old problem files, and see whether it's "uint16" for example, which does not allow negative values. The old code just picked the file type based on the fMRI files, which may well have been unit16. The "u" stands for unsigned, which means positive only.