% batch processing for the attention dataset 
(http://www.fil.ion.ucl.ac.uk/spm/data/attention/)

% SPM preprocessing (normalisation of structural/functional volumes)
spm_jobman('initcfg');
rootfolder=pwd;
files=dir(fullfile(rootfolder,'functional','snffM00587_*.img'));
if isempty(files), disp(['Download the data from 
(http://www.fil.ion.ucl.ac.uk/spm/data/attention/), cd to the 
downloaded ''attention'' folder and re-run this script']); return; end
files=[repmat([fullfile(rootfolder,'functional'),filesep],[length(files),1]),strvcat(files(:).name)];
files=mat2cell(files,ones(size(files,1),1));
matlabbatch{1}.spm.spatial.normalise.estwrite.subj.source={fullfile(rootfolder,'structural','nsM00587_0002.img')};
matlabbatch{1}.spm.spatial.normalise.estwrite.subj.resample=files;
matlabbatch{1}.spm.spatial.normalise.estwrite.eoptions.template={fullfile(fileparts(which('spm')),'templates','T1.nii')};
spm_jobman('run',matlabbatch);

% CONN steps (see these scripts for details)
conn_batchexample_attentiondataset_Setup;
conn_batchexample_attentiondataset_Preprocessing;
conn_batchexample_attentiondataset_Analyses;

% launches conn gui to explore results
conn
conn('load',fullfile(pwd,'conn_attention.mat'));
conn gui_results