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help > RE: Error Reading ROI files in CONN
Oct 17, 2016 05:10 PM | Alfonso Nieto-Castanon - Boston University
RE: Error Reading ROI files in CONN
Hi Emmaly,
Yes, that error arises when CONN is trying to get you ready to move to the Denoising step but realizes that not all subjects have been yet processed through the Setup step. That is fine, your data has been processed, and the error will simply go away once you finish analyzing all of your subjects.
In general, CONN expects you to have all subjects processed through each step before moving to the next step. If you have a still-ongoing study (e.g. still scanning subjects), enter in the 'number of subjects' field simply the number of subjects that you already have data for (and not the number of subjects that you expect to have in your study). Then you will be able to fully analyze your current subjects, and when new subject data arrives, simply increase accordingly the 'number of subjects' field, enter their data in the Setup tab, and then re-run the analyses either using the 'do not overwrite' option (this will only perform the analyses on any not-yet-analyzed data, e.g. when you have new subject, or when you want to add new ROIs, etc.) or selecting the new subjects only as you are doing now.
Hope this helps
Alfonso
Originally posted by Emmaly Owens:
Yes, that error arises when CONN is trying to get you ready to move to the Denoising step but realizes that not all subjects have been yet processed through the Setup step. That is fine, your data has been processed, and the error will simply go away once you finish analyzing all of your subjects.
In general, CONN expects you to have all subjects processed through each step before moving to the next step. If you have a still-ongoing study (e.g. still scanning subjects), enter in the 'number of subjects' field simply the number of subjects that you already have data for (and not the number of subjects that you expect to have in your study). Then you will be able to fully analyze your current subjects, and when new subject data arrives, simply increase accordingly the 'number of subjects' field, enter their data in the Setup tab, and then re-run the analyses either using the 'do not overwrite' option (this will only perform the analyses on any not-yet-analyzed data, e.g. when you have new subject, or when you want to add new ROIs, etc.) or selecting the new subjects only as you are doing now.
Hope this helps
Alfonso
Originally posted by Emmaly Owens:
Hello,
I am new to using the CONN toolbox. I completed the setup step and selected "done' to complete setup and move on to denoising. I have tried finalizing the setup step for one, two, and all of my subjects. But each time, although it appears that the setup is initializing correctly at first, I receive the following error message about the ROI.mat file created by CONN for whichever is the last subject in the series (e.g., if I only try to finalize setup for subject 001, then I will receive this error message about subject 002's roi.mat file, even though I didn't tell the toolbox to finalize setup for subject 002; see error below):
Error using load
Unable to read file E:\filepathname\CONNProjectName\data\ROI_Subject002_Session001.mat: No such file or directory.
Error in conn_process (line 822)
load(filename,'names');
Error in conn_process (line 14)
case 'setup', disp(['CONN: RUNNING SETUP STEP']); conn_process([0:4,4.5,5]);
Error in conn (line 2999)
else conn_process('setup');
Error in conn_menumanager (line 119)
feval(CONN_MM.MENU{n0}.callback{n1}{1},CONN_MM.MENU{n0}.callback{n1}{2:end});"
Obviously this is an error with MATLAB not finding the file it expects. When I looked in the data folder of my CONN project to make sure the ROI.mat file specified above is in fact where it should be, I realized that this is a .mat file that is generated by the toolbox AFTER I have selected "done" to finish setup. So without the setup process finishing (due to the error message), the "ROI_Subject_Session.mat" file does not in fact exist, hence the error message. Essentially then, this seems like a circular problem, and I don't understand why the setup step is looking for a ROI.mat file that should be created during the setup step, and why this is causing my setup to crash out before it can create the roi.mat file for the subject. Any advice about why this is occurring or what I'm doing wrong would be greatly appreciated!
Best,
Emmaly
I am new to using the CONN toolbox. I completed the setup step and selected "done' to complete setup and move on to denoising. I have tried finalizing the setup step for one, two, and all of my subjects. But each time, although it appears that the setup is initializing correctly at first, I receive the following error message about the ROI.mat file created by CONN for whichever is the last subject in the series (e.g., if I only try to finalize setup for subject 001, then I will receive this error message about subject 002's roi.mat file, even though I didn't tell the toolbox to finalize setup for subject 002; see error below):
Error using load
Unable to read file E:\filepathname\CONNProjectName\data\ROI_Subject002_Session001.mat: No such file or directory.
Error in conn_process (line 822)
load(filename,'names');
Error in conn_process (line 14)
case 'setup', disp(['CONN: RUNNING SETUP STEP']); conn_process([0:4,4.5,5]);
Error in conn (line 2999)
else conn_process('setup');
Error in conn_menumanager (line 119)
feval(CONN_MM.MENU{n0}.callback{n1}{1},CONN_MM.MENU{n0}.callback{n1}{2:end});"
Obviously this is an error with MATLAB not finding the file it expects. When I looked in the data folder of my CONN project to make sure the ROI.mat file specified above is in fact where it should be, I realized that this is a .mat file that is generated by the toolbox AFTER I have selected "done" to finish setup. So without the setup process finishing (due to the error message), the "ROI_Subject_Session.mat" file does not in fact exist, hence the error message. Essentially then, this seems like a circular problem, and I don't understand why the setup step is looking for a ROI.mat file that should be created during the setup step, and why this is causing my setup to crash out before it can create the roi.mat file for the subject. Any advice about why this is occurring or what I'm doing wrong would be greatly appreciated!
Best,
Emmaly
Threaded View
| Title | Author | Date |
|---|---|---|
| Emmaly Owens | Oct 14, 2016 | |
| Alfonso Nieto-Castanon | Oct 17, 2016 | |
| Emmaly Owens | Oct 17, 2016 | |
| Jeff Browndyke | Oct 17, 2016 | |