dic_analysis.h

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#ifndef DIC_ANALYSIS_H
#define DIC_ANALYSIS_H
 
#include "config.h"
#include "ncorr.h"
#include "stage_plan.h"
#include <vector>
#include <string>
 
class DicAnalysis {
public:
    explicit DicAnalysis(const Config& config);
    
    bool run();
 
    bool run(const std::vector<int>& trial_target);
 
    bool run(const std::vector<int>& trial_target, const StagePlan& plan);
 
    bool runStepE(const std::vector<int>& trial_target) { return dic3DReconstruction(trial_target); }
    
    bool runStepF(const std::vector<int>& trial_target) { return dicDeformationAnalysis(trial_target); }
 
    std::vector<int> searchTrialTarget(const std::string& subject);
 
private:
    const Config& config_;
    
    // Analysis steps
    bool dic2DAnalysis(const std::vector<int>& trial_target, const StagePlan& plan);
    bool dic3DReconstruction(const std::vector<int>& trial_target);
    bool dicDeformationAnalysis(const std::vector<int>& trial_target);
    
    // Helper functions
    // No-arg overload: looks up trials for config_.subject_id by delegating to
    // searchTrialTarget(const std::string&). Preserves the original behaviour.
    std::vector<int> searchTrialTarget();
    std::vector<std::string> loadImageSequence(const std::string& trial_path);
    bool setupNcorrAnalysis(const std::vector<std::string>& images, 
                           ncorr::DIC_analysis_input& dic_input);
    bool setupNcorrAnalysis(const std::vector<std::string>& images,
                            const std::string& roi_mask_image_path,
                            ncorr::DIC_analysis_input& dic_input);
};
 
#endif // DIC_ANALYSIS_H