Hi, I got the following error running the denoising pipeline
(specifically during the Denoising functional data step). My sample
consists of 146 subjects with only one functional and structural
MRI session. I runned the standard preprocessing pipeline. I used
the standard settings except for skipping slice timing correction
and runned ART with liberal settings. I first runned the denoising
step with all the sample, had an error and then reduced to 10
subjects and had exactly the same error.
Am I having memory issues? I had tu run the preprocessing pipeline
in steps of 10 or less subjects or I would also get corrupted files
or errors.
I just runned the denoising pipeline for just one subject and
unchecking the voxel-to-voxel option and it worked without issues.
How can I solve this issue so I dont have to run each subject
individually and checking the voxel-to-voxel option?
My system is:
Windows 10 Professional
AMD Ryzen 5 3400G
16 gb ram 2400 MHz
NVIDIA GeForce GTX 1650
WD Purple 4TB 5600 rpm
Thank you very much for your help.
Here is the complete output for the second time with 10 subjects:
Ready to run Denoising pipeline
overwrite existing results (re-compute for all
subjects/ROIs)
steps : [1 1 1 0]
subjects : [1 2 3 4 5 6 7 8 9 10]
local processing (run on this computer)
CONN: RUNNING DENOISING STEP
Step 1/6: Expanding conditions
Step 2/6: Importing conditions/covariates
Step 3/6: Denoising functional data
Regression : White Matter (5P) (5 dimensions; no polynomial
expansion; no temporal expansion; non-filtered)
Regression : CSF (5P) (5 dimensions; no polynomial
expansion; no temporal expansion; non-filtered)
Regression : realignment (12P) (6 dimensions; no polynomial
expansion; added first-order derivative; non-filtered)
Regression : scrubbing (56P) (56 dimensions; no polynomial
expansion; no temporal expansion; non-filtered)
Regression : Effect of rest (2P) (1 dimensions; no
polynomial expansion; added first-order derivative;
non-filtered)
Order : Regression followed by filtering (RegBP)
Detrending : 1
Despiking : 0
Bandpass : [0.008 0.09]
I/O error. retyring...
I/O error. retyring...
I/O error. retyring...
I/O error. retyring...
ERROR DESCRIPTION:
Error using reshape
Number of elements must not change. Use [] as one of the size
inputs to automatically calculate the appropriate size for that
dimension.
Error in conn_get_slice (line 38)
x=V.scale*reshape(x,[ntime,V.size.Nv(slice)]);
Error in conn_process (line 1427)
[y{nses},idx]=conn_get_slice(Y{nses},slice);
Error in conn_process (line 69)
case {'preprocessing_gui','denoising_gui'}, conn_disp(['CONN:
RUNNING DENOISING STEP']);
conn_process([1.5,2,6:9],varargin{:});
Error in conn (line 7225)
conn_process('denoising_gui'); ispending=false;
Error in conn_menumanager (line 125)
feval(CONN_MM.MENU{n0}.callback{n1}{1},CONN_MM.MENU{n0}.callback{n1}{2:end});
CONN22.v2407
SPM12 + DAiSS DEM FieldMap MEEGtools cat12
Matlab v.2021a
project: CONN22.v2407
storage: 1995.8Gb available