FreesurferGoodies/copyFiles

function copyFilesFromSPMfoldertoFreesurferFolder
mridataPath='/the/path/to/your/projectfolder/where/the/mri/preprocessed/data/is';
freesurferPath='/the/path/to/your/projectfolder/where/the/freesurfer/preprocessed/data/is';
subjects = {...
    'CBUXXXYYY',...
    'CBUXXXYY2',...
    };

nSubjects=length(subjects);

for subI=1:nSubjects
    % where will the stat-maps be?
    thisSubject.spm_maps = fullfile(freesurferPath,subjects{subI},'spm_maps');


    % where are the spm (native) space maps?
    thisSubject.stats = fullfile(mridataPath,subjects{subI},'thestatsmaps');

    thisSubject.structural = fullfile(mridataPath,subjects{subI},'structurals');

    try
        mkdir(thisSubject.spm_maps)
    end

    % first copy the spm_maps
    cd(thisSubject.stats)
    thisSource=fullfile(thisSubject.stats,'*spmT*');
    thisDestination=thisSubject.spm_maps;
    copyfile(thisSource,thisDestination);
    % second copy the structural
    cd(thisSubject.structural)
    thisSource=fullfile(thisSubject.structural,'s*.nii');
    copyfile(thisSource,thisDestination);
end