// ExternalTool.h: header file for CExternalTools class
#pragma once

#define MAX_EXTERNAL_TOOLS 25
class CExternalTools
{
public:
  CExternalTools(void);
  ~CExternalTools(void);
  GetMember(int, NumToolsAdded);
  GetMember(int, LastPSresol);
  GetMember(float, LastCropPixel);
  GetMember(float, LastFitStart);
  GetMember(float, LastFitEnd);
  GetMember(float, LastAngstromStart);
  GetMember(float, LastAngstromEnd);
  GetSetMember(CString, CtfplotterPath);
  GetSetMember(BOOL, AllowWindow);
  PROCESS_INFORMATION mExtProcInfo;


private:
  CSerialEMApp *mWinApp;
  int mNumToolsAdded;
  CMenu *mPopupMenu;
  CArray<CString, CString> mTitles;
  CArray<CString, CString> mCommands;
  CArray<CString, CString> mArgStrings;
  CString mCtfplotterPath;
  CString mLocalCtfplotPath;
  float mLastCtfplotPixel;
  float mLastTunedPixel;
  float mLastReduction;
  float mLastTunedReduction;
  int mLastPSresol;
  float mLastCropPixel;
  float mLastFitStart;
  float mLastFitEnd;
  float mLastAngstromStart;
  float mLastAngstromEnd;
  int mFitAstigPhase;
  bool mDidAutotune;
  float mLastStartPhase;
  BOOL mAllowWindow;
  bool mCheckedForIMOD;    // 1 if check is done
  CString m3dmodAutodocDir;
  std::vector<HANDLE> mGraphProcessHandles;
  std::vector<HANDLE> mGraphThreadHandles;

public:
  void AddTool(CString &title);
  int AddCommand(int index, CString &command);
  int AddArgString(int index, CString &argString);
  int RunToolCommand(CString &title, CString extraArgs, int extraPlace, CString inputStr);
  int RunToolCommand(int index);
  int RunCreateProcess(CString &command, CString argString, bool leaveHandles, CString inputString);
  void CloseFileHandles(HANDLE &hInFile, HANDLE &hOutFile);
  void AddMenuItems();
  void SubstituteAndQuote(CString &argString, const char *keyword, CString &replacement,
    bool doQuotes = true);
  ImodImageFile *SaveBufferToSharedMemory(int bufInd, CString nameSuffix, CString &filename, float reduction);
  int MakeCtfplotterCommand(CString &memFile, float reduction, int bufInd, float tiltOffset,
    float defStart, float defEnd, float defExpect, int astigPhase, float phase,
    int resolTune, float cropPixel, float fitStart, float fitEnd, int saveType,
    CString &saveName, CString &command);
  int ReadCtfplotterResults(float &defocus, float &astig, float &angle, float &phase,
    int &ifAstigPhase, float &fitFreq, float &CCC, CString &results, CString &errString);
  int StartGraph(std::vector<FloatVec> &values, IntVec &types, IntVec typeList, IntVec columnList, 
    IntVec symbolList, CString &axisLabel,
    std::vector<std::string> &keys, CString &errString, bool connect, int ordinals, int colors, int xlog,
    float xbase, int ylog, float ybase, float xmin = EXTRA_NO_VALUE, float xmax = EXTRA_NO_VALUE,
    float ymin = EXTRA_NO_VALUE, float ymax = EXTRA_NO_VALUE, CString pngName = "", bool saveTiff = false);
  void CloseAllGraphs();
  bool CheckIfGraphsOpen();
  void AddSingleValueLine(CString &input, int value);
  void CheckForIMODPath();

};