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help > RE: Mismatched dimensions Error in Setup
Feb 26, 2020 09:02 AM | Alfonso Nieto-Castanon - Boston University
RE: Mismatched dimensions Error in Setup
Hi Hongru
That is strange. My guess is that perhaps fmriprep preprocessing steps did not correctly finished for 30 of your subjects and these subjects' *regressor.tsv files may be missing? To check this, could you please:
1) start from zero a new project using the option 'Project. New (import). From fMRIPrep dataset' (not the 'Tools.Import.From fMRIPrep' option on an already existing project; this is to avoid mixing up any pre-existing data in your project with the data that you are trying to import)
2) select your study root fmriprep folder, then click on 'select' and 'import' to import the data for all 151 subjects
After this finishes, manually check in the Setup.Covariates (1st-level) tab whether the QC_* covariates exist for all subjects (subjects where the regressor.csv file does not exist or could not be read will appear as having empty/missing first-level covariate data). If in doubt, please send me your conn_*.mat file and I will take a look to see if I find something amiss there
Best
Alfonso
Originally posted by Hongru Zhu:
That is strange. My guess is that perhaps fmriprep preprocessing steps did not correctly finished for 30 of your subjects and these subjects' *regressor.tsv files may be missing? To check this, could you please:
1) start from zero a new project using the option 'Project. New (import). From fMRIPrep dataset' (not the 'Tools.Import.From fMRIPrep' option on an already existing project; this is to avoid mixing up any pre-existing data in your project with the data that you are trying to import)
2) select your study root fmriprep folder, then click on 'select' and 'import' to import the data for all 151 subjects
After this finishes, manually check in the Setup.Covariates (1st-level) tab whether the QC_* covariates exist for all subjects (subjects where the regressor.csv file does not exist or could not be read will appear as having empty/missing first-level covariate data). If in doubt, please send me your conn_*.mat file and I will take a look to see if I find something amiss there
Best
Alfonso
Originally posted by Hongru Zhu:
Hi,
I want to add more details about this issue. I found just 30 of my subjects appear this error when I processed all my 151 subjects. However, when I just dida single analysis choosing one subjects who was reported mismatched error, it works fine. And when I checked the CNN_X, indeed, I found the confounds are 205 row, while I only have 200 time points. Even I checked the subjects without error, I cannot understand how the confounds in CONN come from. Because the confounds are not same with they are in fmriprep's regressor.csv, eg,"QC_csf" is not the "csf" in fmriprep's csv file. Very Appreciate if someone could explain what is the relationship between confounds in CONN and the original confounds in csv from fmriprep, since I found they are not the same. And I think maybe that is why I got 205 row confounds even though it is only 200 row in original csv file. I also attached my original regressor.csv from fmriprep.
Thanks!
Hongru
I want to add more details about this issue. I found just 30 of my subjects appear this error when I processed all my 151 subjects. However, when I just dida single analysis choosing one subjects who was reported mismatched error, it works fine. And when I checked the CNN_X, indeed, I found the confounds are 205 row, while I only have 200 time points. Even I checked the subjects without error, I cannot understand how the confounds in CONN come from. Because the confounds are not same with they are in fmriprep's regressor.csv, eg,"QC_csf" is not the "csf" in fmriprep's csv file. Very Appreciate if someone could explain what is the relationship between confounds in CONN and the original confounds in csv from fmriprep, since I found they are not the same. And I think maybe that is why I got 205 row confounds even though it is only 200 row in original csv file. I also attached my original regressor.csv from fmriprep.
Thanks!
Hongru
Threaded View
| Title | Author | Date |
|---|---|---|
| Hongru Zhu | Feb 25, 2020 | |
| Hongru Zhu | Feb 26, 2020 | |
| Alfonso Nieto-Castanon | Feb 26, 2020 | |
| Hongru Zhu | Feb 26, 2020 | |
| Alfonso Nieto-Castanon | Feb 26, 2020 | |
| Hongru Zhu | Feb 26, 2020 | |
| Alfonso Nieto-Castanon | Feb 27, 2020 | |
| Hongru Zhu | Feb 27, 2020 | |
| Alfonso Nieto-Castanon | Feb 27, 2020 | |
| Hongru Zhu | Feb 27, 2020 | |
| Alfonso Nieto-Castanon | Feb 27, 2020 | |
| Hongru Zhu | Feb 27, 2020 | |
| Alfonso Nieto-Castanon | Feb 27, 2020 | |
| Hongru Zhu | Feb 28, 2020 | |
| Alfonso Nieto-Castanon | Feb 26, 2020 | |
| Hongru Zhu | Feb 26, 2020 | |
| Hongru Zhu | Feb 26, 2020 | |
| Alfonso Nieto-Castanon | Feb 26, 2020 | |
| Hongru Zhu | Feb 26, 2020 | |
| Hongru Zhu | Feb 26, 2020 | |
| Hongru Zhu | Feb 26, 2020 | |