ea_checkctmrpresent.m

function modality=ea_checkctmrpresent(varargin)

if ischar(varargin{1})
    uipatdir{1}=varargin{1};
else % call from lead directly:
    handles=varargin{1};
    uipatdir=getappdata(handles.leadfigure,'uipatdir');
end

if length(uipatdir) > 1 % to enable CT registration setting by default when multiple patients chose
    modality = [0; 1];
    status = 'Multiple patients are chosen, CT/MR modality will be automatically detected.';
else
    % check for MR-files
    [~,patientname]=fileparts(uipatdir{1});
    prefs=ea_prefs(patientname);

    modality=zeros(2,1);

    % check for unnormalized images first:
    % CT
    if exist([uipatdir{1},filesep,prefs.rawctnii_unnormalized],'file')
        status = 'Raw CT file found. Please coregister CT to preoperative MR first.';
        modality(2)=1;
    end
    if exist([uipatdir{1},filesep,prefs.ctnii_coregistered],'file')
        status = 'Coregistered CT file found. Set Normalization option.';
        modality(2)=1;
    end

    % MR
    if exist([uipatdir{1},filesep,prefs.tranii_unnormalized],'file')
        status = 'Unnormalized MR-volumes found. Set Normalization option.';
        modality(1)=1;
    end

    % MR & CT
    if exist([uipatdir{1},filesep,prefs.tranii_unnormalized],'file') && exist([uipatdir{1},filesep,prefs.rawctnii_unnormalized],'file')
        status = 'Unnormalized MR-volumes and raw CT volume found. Set Normalization option or Coregister CT.';
        modality(1:2)=1;
    end
    if exist([uipatdir{1},filesep,prefs.tranii_unnormalized],'file') && exist([uipatdir{1},filesep,prefs.ctnii_coregistered],'file')
        status = 'Unnormalized MR-volumes and coregistered CT file found. Set Normalization option.';
        modality(1:2)=1;
    end

    % Now check for normalized images:
    if exist([uipatdir{1},filesep,prefs.ctnii],'file')
        try
            load([uipatdir{1},filesep,'ea_normmethod_applied.mat'])
            nmused=eval([norm_method_applied{1},'(''check'')']);
            status = ['CT-volumes have been normalized with: ',nmused];
        catch
            status = 'Normalized CT-volumes found.';
        end
        modality(2)=1;
    end

    if exist([uipatdir{1},filesep,prefs.tranii],'file')
        try
            load([uipatdir{1},filesep,'ea_normmethod_applied.mat'])
            nmused=eval([norm_method_applied{1},'(''check'')']);
            status = ['MR-volumes have been normalized with: ',nmused];
        catch
            status = 'Normalized MR-volumes found.';
        end
        modality(1)=1;
    end

    if exist([uipatdir{1},filesep,prefs.tranii],'file') && exist([uipatdir{1},filesep,prefs.ctnii],'file')
        status = 'Normalized MR- and CT-volumes found.';
        modality(1:2)=1;
    end
end

try % not available when calling from group
    set(handles.statusone,'String',status);
    set(handles.statusone,'TooltipString',status);
end