///////////////////////////////////////////////////////////////////////////
/// \class RAT::DQSmellieProc
///
/// \brief Returns the results of per-subrun checks on SMELLIE dataruns
///
/// \author Krish Majumdar <Krishanu.Majumdar@physics.ox.ac.uk>
///
/// REVISION HISTORY: \n
///         2014-11-04 : K Majumdar: new file
//          2016-1-20 : Mark Stringer <ms711@sussex.ac.uk> Modified for use within the Data Quality Framework
///
/// \details Analyses all events in a run (split per subrun), calculates various SMELLIE configuration settings,
///          and compares these to the desired values from the run-configuration on CouchDB.  Then returns a
///          summary of desired vs. actual parameters.
///
///////////////////////////////////////////////////////////////////////////

#ifndef __RAT_DQSmellieProc__
#define __RAT_DQSmellieProc__

#include <RAT/DataQualityProc.hh>
#include <RAT/DU/PMTInfo.hh>

#include <TObject.h>
#include <TVector3.h>

#include <string>
#include <vector>
using namespace std;

namespace RAT
{

    class DQSmellieProc : public DataQualityProc
    {
        public:

            /// Constructor
            DQSmellieProc();

            /// Destructor
            virtual ~DQSmellieProc() {}

            /// Begin of Run action
            virtual void BeginOfRun(DS::Run& run);

            /// End of Run action
            virtual void EndOfRun(DS::Run&);

            /// Process each event in the run
            ///
            /// @param[in] run current run information
            /// @param[in] ds current DS entry information
            /// @return is OKTRUE once all event-level information has been stored in the respective vectors
            virtual DataQualityProc::Result DSEvent(DS::Run& run, DS::Entry& ds);

        protected:

            int fRunNumber; ///< run number
            DU::PMTInfo fPMTInformation; ///< PMT information utility for the run

            int fRunTriggerCutBit; ///< trigger word cut for selecting SMELLIE events, different for runs in "master" and "slave" mode
            int fNumberOfSubruns; ///< number of subruns in this run, minimum = 1
            vector<double> fSubrunWavelengthsVector; ///< vector of wavelengths, with one entry for each subrun
            vector<int> fSubrunNumberOfEventsVector; ///< vector of number of events, with one entry for each subrun
            vector<double> fSubrunLaserFrequenciesVector; ///< vector of trigger frequencies, with one entry for each subrun
            vector<string> fSubrunFibreIDsVector; ///< vector of fibre IDs used, with one entry for each subrun
            vector<string> fLaserType;   ///<Are we using the superK or a fixed wavelength laser
            vector<double> fSubrunLaserIntensitiesVector; ///< vector of laser intensities used, with one entry for each subrun
            vector<double> fSubRunNumbers; ///< Vector containing the subrun numbers
            //vector<double> fSubrunLaser;
            double fErrorBound; ///< error bound for comparing measured and actual values of the check results (if measured is +/- [fErrorBound]% of the actual value, it is good)

            /// General SMELLIE and DataQualityProc-specific parameters
            int fNumberOfNodes; ///< Number of SMELLIE locations
            vector<string> fFibreIDs; ///< vector of fibre IDs, used purely for outputting the fibre ID per subrun in a consistent manner
            double fFirstTimePeak_Low; ///< lower limit of the first Time Peak (originating from backscattering of light from the AV closest to the SMELLIE fibre)
            double fFirstTimePeak_High; ///< upper limit of the first Time Peak (originating from backscattering of light from the AV closest to the SMELLIE fibre)
            double fSecondTimePeak_Low; ///< lower limit of the second Time Peak (originating from directly-hit PMTs)
            double fSecondTimePeak_High; ///< upper limit of the second Time Peak (originating from directly-hit PMTs)
            UShort_t fSMELLIEDigitiserChannel; ///< CAEN channel number on which the SMELLIE Monitoring PMT is read
            unsigned int fDigitiserSampleNumber; ///< sample number on each waveform where the monitored voltage has stabilised and can be reliably read
            vector<TVector3> fNodePositions; ///< vector of node positions as given in the SMELLIE.ratdb file - each node is given the same position as the 0-degree fibre on that node
            vector<TVector3> fFibreDirections; ///< vector of fibre directions as given in the SMELLIE.ratdb file
            double fPMTRadius; ///< radius of the PMTs, calculated by taking the mean radius of the nodes from their positions
            vector<double> fSuperKWavelengths;///< SuperK wavelengths
            vector<double> fSuperKNHits; ///< SuperK NHits


            /// Vectors of useful information, each of which has number of entries = total number of events in the entire run, across ALL subruns
            vector<int> fAllEvents_SubRunIDs; ///< subrun ID of each event
            vector<int> fAllEvents_Nhits; ///< number of triggered PMTs in each event
            vector<int> fAllEvents_TrigTypes; ///< trigger type of each event
            vector<ULong64_t> fAllEvents_TickCounts; ///< tick count of each event on the 50MHz clock
            vector< vector<UShort_t> > fAllEvents_Waveforms; ///< CAEN digitiser waveform of each event, as a vector of digitiser sample points
            vector< vector<double> > fAllEvents_pmtTimes; ///< vector of triggered PMT times per event
            vector< vector<double> > fAllEvents_pmtThetas; ///< vector of triggered PMT theta coordinates per event
            vector< vector<double> > fAllEvents_pmtPhis; ///< vector of triggered PMT phi coordinates per event

            int fNTimePeaks;

            //Variables to store if checks have passed all subruns
            bool smellieNPeaks;
            bool smelliePeakRatio;
            bool smellieFrequencyCheck;
            bool smellieFibreCheck;
            bool smellieIntensityCheck;
            bool smellieNumberOfEvents;

            //Arrays to store individual subrun checks
            /// Checking Functions
            std::vector<int> smellieNPeaksSubrunVector;
            std::vector<int> smelliePeakRatioSubrunVector;
            std::vector<int> smellieFrequencyCheckSubrunVector;
            std::vector<int> smellieFibreCheckSubrunVector;
            std::vector<int> smellieIntensityCheckSubrunVector;
            std::vector<int> smellieNumberOfEventsSubrunVector;

            std::vector<double> subRunMeanNhit;
            std::vector<int> passedNHitPassedTrigger;
            std::vector<int> passedNHitFailedTrigger;
            std::vector<int> failedNHitPassedTrigger;
            std::vector<int> failedNHitFailedTrigger;

            std::vector<int> NHitEventAdjacentToTrigger;
            std::vector<int> NHitEventsMissingTrigger;
            std::vector<int> TriggerEventsMissingNhits;

            /// Check the PMT Hit Information across all events in all subruns
            ///
            /// @return a vector of fNumberOfSubruns vectors, each containing: [the low bound of the main Nhits peak, the mean Nhits value] for one subrun
            vector< vector<double> > Check_1_HitInformation();

            /// Check the triggering across all events in all subruns
            ///
            /// @param[in] allSubruns_nhitsInformation the output of Check_1_HitInformation
            /// @return a vector of fNumberOfSubruns ints, each one being the calculated number of actual SMELLIE events in one subrun
            vector<int> Check_2_EventTriggering(vector< vector<double> > allSubruns_nhitsInformation);

            /// Check the Laser Triggering Frequency of each subrun
            ///
            /// @return a vector of fNumberOfSubruns doubles, each one being the calculated laser triggering frequency in one subrun
            vector<double> Check_3_LaserFrequency();

            /// Check the Fibre used in each subrun
            ///
            /// @return a vector of fNumberOfSubruns strings, each one being the calculated fibre used in one subrun
            vector<string> Check_4_FibreID();

            /// Check the Laser Intensity used in each subrun
            ///
            /// @param[in] allSubruns_nhitsInformation the output of Check_1_HitInformation
            /// @param[in] allSubruns_fibreIDs the output of Check_4_FibreID
            /// @return a vector of fNumberOfSubruns double, each one being the calculated laser intensity used in one subrun
            vector<double> Check_5_LaserIntensity(vector< vector<double> > allSubruns_nhitsInformation, vector<string> allSubruns_fibreIDs);

            /// Output the CAEN digitiser waveforms of all events in the run, as well as the distribution of sampled voltages at a fixed sample number (check is disabled if no plots are to be saved)
            ///
            void Check_6_DigitiserWaveforms();


    };
} // namespace RAT

#endif