CONN toolbox troubleshooting: batch setup error

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Emily Haight
Emily Haight 2021-2-10
编辑： Emily Haight 2021-2-10
I'm following along Andy Jahns Brain Book- Chapter 12 Functional Connectivity Scripting.
My code runs well through "loading the files" scripted as.. ________________________
NSUBJECTS=6;
cwd=pwd;
FUNCTIONAL_FILE=cellstr(conn_dir('sub-*_func_sub-*_task-rest_bold.nii.gz'));
STRUCTURAL_FILE=cellstr(conn_dir('sub-*_anat_sub-*_T1w.nii'));
if rem(length(FUNCTIONAL_FILE),NSUBJECTS),error('mismatch number of functional files %n', length(FUNCTIONAL_FILE));end
if rem(length(STRUCTURAL_FILE),NSUBJECTS),error('mismatch number of anatomical files %n', length(FUNCTIONAL_FILE));end
nsessions=length(FUNCTIONAL_FILE)/NSUBJECTS;
FUNCTIONAL_FILE=reshape(FUNCTIONAL_FILE,[NSUBJECTS,nsessions]);
STRUCTURAL_FILE={STRUCTURAL_FILE{1:NSUBJECTS}};
disp([num2str(size(FUNCTIONAL_FILE,1)),' subjects']);
disp([num2str(size(FUNCTIONAL_FILE,2)),' sessions']);
TR=3.56; % Repetition time
___________________________________________________________
In my case, I have a return of 35 subjects and 1 session. Now I enter "the setup field" and get no return of my data. A .mat file should be created, and subsequent preprocessing steps should return outliers, among other output. The script runs through without error- but without any data produced. Any ideas?______________
%% CONN-SPECIFIC SECTION: RUNS PREPROCESSING/SETUP/DENOISING/ANALYSIS STEPS
%% Prepares batch structure
clear batch;
batch.filename=fullfile(cwd,'Arithmetic_Scripted.mat'); % New conn_*.mat experiment name
%% SETUP & PREPROCESSING step (using default values for most parameters, see help conn_batch to define non-default values)
% CONN Setup
% CONN Setup.preprocessing (realignment/coregistration/segmentation/normalization/smoothing)
(Preproccesing steps continue as consistent with Chapter #12 Scripting)___________________________

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