/*
FILE:     DICParserBase.C
*/
/*
VERSION:  2.201
*/
/*
DATE:     8/30/2004
*/
/*
  Comments and Questions to: sw-help@rcsb.rutgers.edu
*/
/*
COPYRIGHT 1999-2004 Rutgers - The State University of New Jersey

This software is provided WITHOUT WARRANTY OF MERCHANTABILITY OR
FITNESS FOR A PARTICULAR PURPOSE OR ANY OTHER WARRANTY, EXPRESS OR
IMPLIED.  RUTGERS MAKE NO REPRESENTATION OR WARRANTY THAT THE
SOFTWARE WILL NOT INFRINGE ANY PATENT, COPYRIGHT OR OTHER
PROPRIETARY RIGHT.

The user of this software shall indemnify, hold harmless and defend
Rutgers, its governors, trustees, officers, employees, students,
agents and the authors against any and all claims, suits,
losses, liabilities, damages, costs, fees, and expenses including
reasonable attorneys' fees resulting from or arising out of the
use of this software.  This indemnification shall include, but is
not limited to, any and all claims alleging products liability.
*/
/*
               PDB SOFTWARE LICENSE AGREEMENT

BY CLICKING THE ACCEPTANCE BUTTON OR INSTALLING OR USING 
THIS "SOFTWARE, THE INDIVIDUAL OR ENTITY LICENSING THE  
SOFTWARE ("LICENSEE") IS CONSENTING TO BE BOUND BY AND IS 
BECOMING A PARTY TO THIS AGREEMENT.  IF LICENSEE DOES NOT 
AGREE TO ALL OF THE TERMS OF THIS AGREEMENT
THE LICENSEE MUST NOT INSTALL OR USE THE SOFTWARE.

1. LICENSE AGREEMENT

This is a license between you ("Licensee") and the Protein Data Bank (PDB) 
at Rutgers, The State University of New Jersey (hereafter referred to 
as "RUTGERS").   The software is owned by RUTGERS and protected by 
copyright laws, and some elements are protected by laws governing 
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*/
/* 
  PURPOSE:    A DDL 2.1 compliant CIF file parser.
*/

#include <iostream.h>
#include <stdio.h>
#include <stdlib.h>
#include <string.h>
#define  MAX_CIF_NAME_LENGTH  100

#include "DICScannerBase.h"
#include "DICParserInt.h"
#include "DICFileObj.h"
#include "DICParserBase.h"

/* class CifFileObj;
class CifFileObjBase;
*/

extern FILE* dicparser_in;
extern int dicparser_parse();

char Glob_tBufKeywordSaveDIC[MAX_CIF_NAME_LENGTH];
char* Glob_pBufValueDIC;
CifString* Glob_sBufValueDIC;
char* Glob_dataBlockNameDIC;

DICParser* DICParserP = NULL;

DICParser::DICParser(FILE* in, DICFileObj *fo, TblFileObj *ddl_in, ISTable *format2, int verbose)
{
    dicparser_in = in;
    _verbose=verbose;
    format=format2;
    Clear();
    errorLog.Clear();
    if (fo)
        _fobj = fo;
    else
        exit(-1);
    ddl=ddl_in;
    listcat.Clear(); listcat.Add("id");
    char * BlockName;
    BlockName = ddl->GetBlockName(0);
    cattbl=ddl->GetTablePtr(BlockName,"category");
    cattbl->SetFlags(ISTable::DT_STRING | ISTable::CASE_INSENSE,0);
    cattbl->SetFlags(ISTable::DT_STRING | ISTable::CASE_INSENSE,1);
    cattbl->SetFlags(ISTable::DT_STRING | ISTable::CASE_INSENSE,2);
    cattbl->SetFlags(ISTable::DT_STRING | ISTable::CASE_INSENSE,3);
    cattbl->CreateIndex("index0",listcat);
    catColIndex=cattbl->GetColumnIndex("id");
    listitem.Clear(); listitem.Add("category_id");
    listitem.Add("name");
    if (BlockName) delete[] BlockName;
    BlockName = ddl->GetBlockName(0);
    itemtbl=ddl->GetTablePtr(BlockName,"item");
    if (BlockName) delete[] BlockName;
    itemtbl->CreateIndex("index0",listitem);
    itemColIndex=itemtbl->GetColumnIndex("mandatory_code");
    listitem2.Clear(); listitem2.Add("category_id"); listitem2.Add("mandatory_code");
    itemtbl->CreateIndex("index2",listitem2);
                          OpenLog("DICParser.log",_verbose);

    DICParserP = this;
}

void DICParser::Parse()
{
    dicparser_parse();
}

void dicparser_error(const char *s)
{
    DICParserP->Error(s);
}

DICParser::~DICParser()
{
    Reset();
    DICParserP = NULL;
}



void DICParser::Error(const char *s)
/*
 * Purpose:  yyerror() Print errors in DICScanner log.
 */
{
  errorLog += s;
  errorLog += " near line ";
  errorLog += NDBlineNo;
  errorLog += '\n';
  /*if (_verbose) */
  log << s << " near line " <<  NDBlineNo << endl;
}

void DICParser::Reset()
{
  if (_tbl && (_curItemNo > 0)) { // write the current table / management of _tbl by _fobj
    CheckDDL();
    if (_nTablesInBlock) {
      _fobj->WriteTable(_tbl,_curDataBlockName,_curCategoryName);
    } else {
      _fobj->WriteTable(_tbl,_prevDataBlockName,_curCategoryName);
    }
    _nTablesInBlock++;
    //    delete _tbl;
  }
  if (_rowBuf) delete _rowBuf;
  if (_fieldList) free(_fieldList);
  if (_colIndex) free(_colIndex);
  if (_rowBufSave) delete _rowBufSave;
  if (_fieldListSave) free(_fieldListSave);
  if (_prevtbl) delete _prevtbl;
  if (_tmpDataBlockNameSaveL) free(_tmpDataBlockNameSaveL);
}

void DICParser::Clear()
{
  _tmpDataBlockNameSaveL= (char*)calloc(1,sizeof(char));
  _nTablesInBlock=0;
  _numDataBlocks=0;
  _afterLoop = FALSE;
  _curItemNo=0;
  _curRow=0;
  _curCol=0;
  _curValueNo=0;
  _itemIndex=0;
  _fieldListAlloc=100;
  _fieldList=(int *) malloc(_fieldListAlloc*sizeof(int));
  _colIndex =(int *) malloc(_fieldListAlloc*sizeof(int));
  _pBufValue=NULL;
  _sBufValue=NULL;
  _rowBuf= new ReVarCifArray<CifString>;
  _fobj=NULL;
  _tbl=NULL;
  isSave = 0;
  _nTablesInBlockSave=0;
  _curItemNoSave=0;
  _saveobj=NULL;
  _savetbl=NULL;
  _prevtbl=NULL;
  _fieldListAllocSave=100;
  _fieldListSave=(int *) malloc(_fieldListAllocSave*sizeof(int));
  _rowBufSave= new ReVarCifArray<CifString>;
  _uString.Copy(".");
  _mString.Copy("?");
  strcpy(_tBufKeyword,"");
  strcpy(_curCategoryName,"");
  strcpy(_curDataBlockName,"");
  strcpy(_prevDataBlockName,"");
  strcpy(_curCategoryNameSave,"");
  strcpy(_curDataBlockName,"MISSING_DIC");
  strcpy(_prevDataBlockName,"MISSING_DIC");
  // jdw xxx
  strcpy(_curDataBlockNameSave,"");
  strcpy(_tmpDataBlockNameSave,"");
  strcpy(_tmpDataBlockNameSaveL,"");
  ReVarCifArray<CifString> list;
  format->AddColumn("dbName");
  format->AddColumn("type");
  format->AddColumn("catName");
  list.Add("dbName");
  list.Add("type");
  list.Add("catName");
  format->CreateIndex("index0",list);
}


void DICParser::ProcessLoopDeclaration(void)
/* ----------------------------------------------------------------------
     Purpose: DICParser::ProcessLoopDeclaration(void)

              Handles initialization for a new loop, by creating a new
              category and adding the current item name to this category.
   ---------------------------------------------------------------------- */
{
  char  categoryName[MAX_CIF_NAME_LENGTH];

#if DEBUG
  if (_verbose) log << "Processing loop declaration at line " << NDBlineNo << " value " <<_tBufKeyword << endl;
#endif
  _afterLoop = TRUE;
  if (! CifFileObjBase::GetCategoryNameFromItemName(categoryName, _tBufKeyword) ) {
    log << "Error in category name at line " << NDBlineNo << " value " << _tBufKeyword << endl;
    errorLog += "Error in category name at line ";
    errorLog += NDBlineNo;
    errorLog += " value ";
    errorLog += _tBufKeyword;
    errorLog += '\n';
  }

  if (_fobj->IsTablePresent(categoryName)) {
    if (!isSave) {
      log << "Warning - Duplicate category name " << categoryName << " at line " << NDBlineNo << endl;
/*
      errorLog += "Duplicate category name ";
      errorLog += categoryName;
      errorLog += " at line ";
      errorLog += NDBlineNo;
      errorLog += '\n';
*/
    }
  /*  else*/ {
      if (_tbl) { // write the current table / management of _tbl by _fobj
  CheckDDL();
        if (_nTablesInBlock) {
          _fobj->WriteTable(_tbl,_curDataBlockName,_curCategoryName);
        } else {
          _fobj->WriteTable(_tbl,_prevDataBlockName,_curCategoryName);
        }
        _nTablesInBlock++;
        //      delete _tbl;
      }
      _tbl = _fobj->GetTablePtr(_curDataBlockName,categoryName);

      if (isSave ==0) {
        if (_prevtbl) delete _prevtbl;
        _prevtbl=new ISTable();
        _prevtbl->Copy(_tbl);
      }

      _curRow = _tbl->GetNumRows();
    ProcessItemNameList();
      strcpy(_curCategoryName,categoryName);
      strcpy(_tmpDataBlockNameSave,_curDataBlockNameSave);/***********/
      if (_tmpDataBlockNameSaveL) free(_tmpDataBlockNameSaveL);
      if (isSave == 1) {
      _tmpDataBlockNameSaveL = DICFileObj::lowercase(_tmpDataBlockNameSave);
      }
      else {
        _tmpDataBlockNameSaveL= (char*)calloc(sizeof(_tmpDataBlockNameSave)+1,sizeof(char));
        strcpy(_tmpDataBlockNameSaveL,_tmpDataBlockNameSave);
      }
    }

  }
else {
    if (_tbl) { // write the current table / management of _tbl by _fobj
  CheckDDL();
      if (_nTablesInBlock) {
        _fobj->WriteTable(_tbl,_curDataBlockName,_curCategoryName);
        } else {
          _fobj->WriteTable(_tbl,_prevDataBlockName,_curCategoryName);
        }
      _nTablesInBlock++;
      //      delete _tbl;
    }
    _tbl = new ISTable(categoryName);

    if (isSave ==0) {
      if (_prevtbl) delete _prevtbl;
      _prevtbl=new ISTable();
      _prevtbl->Copy(_tbl);
    }

    _curRow = 0;
    strcpy(_curCategoryName,categoryName);
    strcpy(_tmpDataBlockNameSave,_curDataBlockNameSave);/*************/
      if (_tmpDataBlockNameSaveL) free(_tmpDataBlockNameSaveL);
    if (isSave == 1) {
      _tmpDataBlockNameSaveL = DICFileObj::lowercase(_tmpDataBlockNameSave);
    }
    else{
      _tmpDataBlockNameSaveL= (char*)calloc(sizeof(_tmpDataBlockNameSave)+1,sizeof(char));
      strcpy(_tmpDataBlockNameSaveL,_tmpDataBlockNameSave);
    }
    ProcessItemNameList();
  }
}


void DICParser::ProcessItemNameList(void)
/* ----------------------------------------------------------------------
   Purpose: DICParser::ProcessItemNameList(void)

            Registers the item keyword for the the current item in the
            current category.  Maintains an index array of "valid" keyword
            names in fieldList[].  This array is used to indirectly
            reference between keywords and values ...
 * ----------------------------------------------------------------------*/
{

  char keywordName[MAX_CIF_NAME_LENGTH], categoryName[MAX_CIF_NAME_LENGTH];

#if DEBUG
  if (_verbose) log << "Processing item name list at line " <<  NDBlineNo << " keyword " <<  _tBufKeyword << endl;
#endif

  if (! CifFileObjBase::GetCategoryNameFromItemName(categoryName, _tBufKeyword) ) {
    log << "Error in category name at line " << NDBlineNo << " value " << _tBufKeyword << endl;
    errorLog += "Error in category name at line ";
    errorLog += NDBlineNo;
    errorLog += " value ";
    errorLog += _tBufKeyword;
    errorLog += '\n';
  }

  if ( _curItemNo > _fieldListAlloc - 1) {
    _fieldListAlloc = _curItemNo + _fieldListAlloc;
    _fieldList = (int *) realloc(_fieldList, (_fieldListAlloc) * sizeof(int));
    _colIndex = (int *) realloc(_colIndex, (_fieldListAlloc) * sizeof(int));
  }

  ReVarCifArray<CifString> colNames, target, target2;
  int errCode;
  colNames.Add("dbName");
  colNames.Add("type");
  colNames.Add("catName");
  target.Add(_curDataBlockName);
  if (isSave == 0) {
    target.Add("data");
  }
  if (isSave == 1) {
    target.Add("category");
  }
  if (isSave == 2) {
    target.Add("item");
  }
  target.Add(categoryName);
  format->FindFirst(target,colNames,errCode);
  if (errCode == NOT_FOUND) {
    format->AddRow();
    format->FillRow(target,format->GetNumRows()-1);
  }

    if (isSave) {
  if ( !strcmp(categoryName,_curCategoryName) && CifFileObjBase::GetKeywordFromItemName(keywordName, _tBufKeyword)) {
#if DEBUG
    if (_verbose) log << "*Line " << NDBlineNo << " keyword is " << keywordName << endl;
#endif
    _tbl->AddColumn(keywordName);
    _itemIndex++;
    _fieldList[_curItemNo] = _itemIndex;
    _colIndex[_curItemNo] = _tbl->GetColumnIndex(keywordName);//_curItemNo;
  }
  else {
    CifFileObjBase::GetKeywordFromItemName(keywordName, _tBufKeyword);
    _itemIndex++;
    _fieldList[_curItemNo] = _itemIndex; //*****************
    _colIndex[_curItemNo] = _tbl->GetColumnIndex(keywordName);
  }
    }
    else {
      strcpy(_curCategoryName,categoryName);
  if ( !strcmp(categoryName,_curCategoryName) && CifFileObjBase::GetKeywordFromItemName(keywordName, _tBufKeyword)) {
    if (_tbl->GetColumnIndex(keywordName) >=0) {
      log << "Warning - Duplicate item name " <<_tBufKeyword  << " line " << NDBlineNo << endl;
/*
      errorLog += "Duplicate item name ";
      errorLog += _tBufKeyword;
      errorLog += " at line ";
      errorLog += NDBlineNo;
      errorLog += '\n';
      return;
*/
    }
 /*   else */{
#if DEBUG
    if (_verbose) log << "Line " << NDBlineNo << " keyword is " << keywordName << endl;
#endif
    _tbl->AddColumn(keywordName);
    _itemIndex++;
    _fieldList[_curItemNo] = _itemIndex;
    _colIndex[_curItemNo] = _tbl->GetColumnIndex(keywordName);
    }
  } else {
    log << "*Syntax error at line " << NDBlineNo << " at item " << _tBufKeyword << endl;
    errorLog += "Syntax error at line ";
    errorLog += NDBlineNo;
    errorLog += " item ";
    errorLog += _tBufKeyword;
    errorLog += '\n';
    _fieldList[_curItemNo] = -1;
  }
    }
  _curItemNo++;

}
void DICParser::ProcessValueList(void)
/* ----------------------------------------------------------------------
     Purpose:  DICParser::ProcessValueList(void)

               Add the current value to the appropriate column in the
               the current row.  Start a new row if necessary.
 * ----------------------------------------------------------------------*/
{
  CifString cs;
  CifString dotString(".");
  CifString* emptyStringP = new CifString("");
#if DEBUG
  if (_verbose) {
    if (_pBufValue)
      log << "Processing value at line " << NDBlineNo << " value [" << _pBufValue << "]" << endl;
    else
      log << "Processing value at line " << NDBlineNo << " value [" << (*_sBufValue).Text() << "]" << endl;
  }
#endif

  if (_fieldList[_curValueNo] > 0 ) {

    if (_fieldList[_curValueNo] == 1) {
      _rowBuf->Clear();
      _curRow++;
       _tbl->AddRow();
                 _tbl->FillRow(*_rowBuf,_curRow-1);
    }
    if (_pBufValue) {
      if (strlen(_pBufValue) > 0) {
                  cs.Clear(); cs.Copy(_pBufValue);
//       _tbl->UpdateCell(cs,_curValueNo , _curRow-1);
         _tbl->UpdateCell(cs,_colIndex[_curValueNo] , _curRow-1);
      } else {
         _tbl->UpdateCell(_mString,_colIndex[_curValueNo] , _curRow-1);
      }
    } else {
      if (_sBufValue->Length() > 0)
      {
         if ((*_sBufValue) == dotString)
         {
             // If a dot is specified as a value, store an empty string
             // in the table
             _tbl->UpdateCell(*emptyStringP,_colIndex[_curValueNo] , _curRow-1);
         }
         else
         {
             // Otherwise store the original value
             _tbl->UpdateCell(*_sBufValue,_colIndex[_curValueNo] , _curRow-1);
         }
      }
     else
         _tbl->UpdateCell(_mString,_colIndex[_curValueNo] , _curRow-1);
    }
  }
  _curValueNo++;

  if (_curValueNo == _curItemNo) {
#if DEBUG
  if (_verbose) {
    log << "Loading row " << _curRow -1 << " with " <<  _rowBuf->Length() << " elements" << endl;
    for (int i=0; i < _rowBuf->Length(); i++) {
      log << "Column [" << i << "] value "<< (*_rowBuf)[i].Text() << endl;
    }
  }
#endif
    _curValueNo = 0;

  }
  delete emptyStringP;
}





void DICParser::ProcessItemValuePair(void)
/* ----------------------------------------------------------------------
      Purpose: ndb_cif_process_item_name_value_pair()

               Assign the current value to its associated item name.
 * ----------------------------------------------------------------------*/
{
  char categoryName[MAX_CIF_NAME_LENGTH], keywordName[MAX_CIF_NAME_LENGTH];
  CifString cs;
  CifString dotString(".");
  CifString* emptyStringP = new CifString("");
  _curItemNo  = 1;
  _curValueNo = 0;
//  _itemIndex  = 1;
#if DEBUG
  if (_verbose)  {
    if (_pBufValue)
      log << "Processing " << _tBufKeyword << " at " <<  NDBlineNo << " value " << _pBufValue  << endl;
    else
      log << "Processing " << _tBufKeyword << " at " <<  NDBlineNo << " value " << (*_sBufValue).Text()  << endl;
  }
#endif

  if (! CifFileObjBase::GetCategoryNameFromItemName(categoryName, _tBufKeyword) ) {
    log << "Error in category name at line " << NDBlineNo << " value " << _tBufKeyword << endl;
    errorLog += "Error in category name at line ";
    errorLog += NDBlineNo;
    errorLog += " value ";
    errorLog += _tBufKeyword;
    errorLog += '\n';
    delete emptyStringP;
    return;
  }
  ReVarCifArray<CifString> colNames, target;
  int errCode;
  colNames.Add("dbName");
  colNames.Add("type");
  colNames.Add("catName");
  target.Add(_curDataBlockName);
  if (isSave == 0) {
    target.Add("data");
  }
  if (isSave == 1) {
    target.Add("category");
  }
  if (isSave == 2) {
    target.Add("item");
  }
  target.Add(categoryName);
  format->FindFirst(target,colNames,errCode);
  if (errCode == NOT_FOUND) {
    format->AddRow();
    format->FillRow(target,format->GetNumRows()-1);
  }

  if (_fobj->IsTablePresent(categoryName)) { //  duplicates a persistent table?
    if (!isSave) {
      log << "Warning - Duplicate category name " << categoryName << " at line " << NDBlineNo << endl;
/*
      errorLog += "Duplicate category name ";
      errorLog += categoryName;
      errorLog += " at line ";
      errorLog += NDBlineNo;
      errorLog += '\n';
      delete emptyStringP;
      return;
*/
    }
   /* else*/ {
  if (strcmp(categoryName,_curCategoryName)|| _afterLoop) {
    if (_tbl) { // write the current table / management of _tbl by _fobj
  CheckDDL();
      if (_nTablesInBlock) {
        _fobj->WriteTable(_tbl,_curDataBlockName,_curCategoryName);
      } else {
        _fobj->WriteTable(_tbl,_prevDataBlockName,_curCategoryName);
      }
      _nTablesInBlock++;
      //      delete _tbl;
    }
/*
  if (!strcmp(categoryName,_curCategoryName)&&_afterLoop) { //  duplicates a persistent table?
    log << "Duplicate category name " << categoryName << " at line " << NDBlineNo << endl;
    errorLog += "Duplicate category name ";
    errorLog += categoryName;
    errorLog += " at line ";
    errorLog += NDBlineNo;
    errorLog += '\n';
    delete emptyStringP;
    return;
  }
*/
      _tbl = _fobj->GetTablePtr(_curDataBlockName,categoryName);

      if (isSave ==0) {
        if (_prevtbl) delete _prevtbl;
        _prevtbl=new ISTable();
        _prevtbl->Copy(_tbl);
      }

      _tbl->AddRow();
      _curCol = 1;
      strcpy(_curCategoryName,categoryName);
      strcpy(_tmpDataBlockNameSave,_curDataBlockNameSave);/************/
      if (_tmpDataBlockNameSaveL) free(_tmpDataBlockNameSaveL);
      if (isSave == 1) {
      _tmpDataBlockNameSaveL = DICFileObj::lowercase(_tmpDataBlockNameSave);
      }
      else{
        _tmpDataBlockNameSaveL= (char*)calloc(sizeof(_tmpDataBlockNameSave)+1,sizeof(char));
        strcpy(_tmpDataBlockNameSaveL,_tmpDataBlockNameSave);
      }
  }
  _afterLoop=FALSE;
  if (_pBufValue) {
    CifFileObjBase::GetKeywordFromItemName(keywordName, _tBufKeyword);
    _curCol = _tbl->GetColumnIndex(keywordName)+1;
    _curRow = _tbl->GetNumRows();
    if (_curCol < 0) {
      _tbl->AddColumn(keywordName);
      _curCol = _tbl->GetColumnIndex(keywordName)+1;
      for (int i=0; i<=_curRow; i++)
        _tbl->AddElementToColumn( _mString,i);
    }
    cs.Clear();
    if (strlen(_pBufValue) > 0) {
      cs.Copy(_pBufValue);
//      _tbl->AddElementToColumn( cs, _curCol-1);
      _tbl->UpdateCell( cs, _curCol-1 , _curRow-1);
    } else {
//      _tbl->AddElementToColumn( _mString, _curCol-1);
      _tbl->UpdateCell( _mString, _curCol-1 , _curRow-1);
    }
  } else {
    CifFileObjBase::GetKeywordFromItemName(keywordName, _tBufKeyword);
    _curCol = _tbl->GetColumnIndex(keywordName)+1;
    _curRow = _tbl->GetNumRows();
    if (_curCol < 0) {
      _tbl->AddColumn(keywordName);
      _curCol = _tbl->GetColumnIndex(keywordName)+1;
      for (int i=0; i<=_curRow; i++) {
        _tbl->AddElementToColumn( _mString,i);
                }
    }
    if (_sBufValue->Length() > 0) {
//      _tbl->AddElementToColumn( *_sBufValue, _curCol-1);
      _tbl->UpdateCell(*_sBufValue , _curCol-1 , _curRow-1);
    }
    else {
//      _tbl->AddElementToColumn( _mString, _curCol-1);
      _tbl->UpdateCell( _mString, _curCol-1 , _curRow-1);
    }
  }
  _curCol++;
    }
  }
  else {
  if (strcmp(categoryName,_curCategoryName)) {
    if (_tbl) { // write the current table / management of _tbl by _fobj
  CheckDDL();
      if (_nTablesInBlock) {
        _fobj->WriteTable(_tbl,_curDataBlockName,_curCategoryName);
      } else {
        _fobj->WriteTable(_tbl,_prevDataBlockName,_curCategoryName);
      }
      _nTablesInBlock++;
      //      delete _tbl;
    }
    _tbl = new ISTable(categoryName);

    if (isSave ==0) {
      if (_prevtbl) delete _prevtbl;
      _prevtbl=new ISTable();
      _prevtbl->Copy(_tbl);
    }

    _curCol = 0;
    strcpy(_curCategoryName,categoryName);
    strcpy(_tmpDataBlockNameSave,_curDataBlockNameSave);/**************/
      if (_tmpDataBlockNameSaveL) free(_tmpDataBlockNameSaveL);
    if (isSave == 1) {
      _tmpDataBlockNameSaveL = DICFileObj::lowercase(_tmpDataBlockNameSave);
    }
    else {
      _tmpDataBlockNameSaveL= (char*)calloc(sizeof(_tmpDataBlockNameSave)+1,sizeof(char));
      strcpy(_tmpDataBlockNameSaveL,_tmpDataBlockNameSave);
    }
  }

  if ( CifFileObjBase::GetKeywordFromItemName(keywordName, _tBufKeyword) ) {
#if DEBUG
    if (_verbose) log << "Line " << NDBlineNo << " keyword is " << keywordName << endl;
#endif
    _tbl->AddColumn(keywordName);
    _curCol++;
  }
  else {
    log << "Syntax2 error line " << NDBlineNo << " at item " << _tBufKeyword << endl;
    errorLog += "Syntax2 error at line ";
    errorLog += NDBlineNo;
    errorLog += " item ";
    errorLog += _tBufKeyword;
    errorLog += '\n';
  }
  if (_pBufValue) {
    cs.Clear();
    if (strlen(_pBufValue) > 0) {
      cs.Copy(_pBufValue);
      _tbl->AddElementToColumn( cs, _curCol-1);
    } else
      _tbl->AddElementToColumn( _mString, _curCol-1);

  } else {
      if (_sBufValue->Length() > 0)
      {
         if ((*_sBufValue) == dotString)
         {
             // If a dot is specified as a value, store an empty string
             // in the table
             _tbl->AddElementToColumn( *emptyStringP, _curCol-1);
         }
         else
         {
             // Otherwise store the original value
             _tbl->AddElementToColumn( *_sBufValue, _curCol-1);
         }
      }
      else
        _tbl->AddElementToColumn( _mString, _curCol-1);
  }
  }
  delete emptyStringP;
}


//******************************

void DICParser::ProcessLoopDeclarationSave(void)
/* ----------------------------------------------------------------------
     Purpose: DICParser::ProcessLoopDeclarationSave(void)

              Handles initialization for a new loop, by creating a new
              category and adding the current item name to this category.
   ---------------------------------------------------------------------- */
{
  char  categoryName[MAX_CIF_NAME_LENGTH];

  _curItemNoSave = 0;  _curValueNoSave = 0;  _itemIndexSave = 0;
  if (! CifFileObjBase::GetCategoryNameFromItemName(categoryName, _tBufKeyword) ) {
    log << "Error in category name at line (save frame) " << NDBlineNo << " value " << _tBufKeyword << endl;
    errorLog += "Error in category name at line (save frame) ";
    errorLog += NDBlineNo;
    errorLog += " value ";
    errorLog += _tBufKeyword;
    errorLog += '\n';
  }

  if (_saveobj->IsTablePresent(categoryName)) {
    log << "Duplicate category name in a save frame " << categoryName << " at line " << NDBlineNo << endl;
    errorLog += "Duplicate category name in a save frame ";
    errorLog += categoryName;
    errorLog += " at line ";
    errorLog += NDBlineNo;
    errorLog += '\n';
  } else {
    if (_savetbl) { // write the current table /
      if (_nTablesInBlockSave) {
      _saveobj->WriteTable(_savetbl,_curDataBlockNameSave,_curCategoryNameSave);
      } else {
      _saveobj->WriteTable(_savetbl,_prevDataBlockNameSave,_curCategoryNameSave); 
      }
      _nTablesInBlockSave++;
      //      delete _savetbl;
      if (_prevtbl) delete _prevtbl;
      _prevtbl=new ISTable();
      _prevtbl->Copy(_savetbl);
    }
    _savetbl = new ISTable(categoryName);
    _curRowSave = 0;
    strcpy(_curCategoryNameSave,categoryName);
    ProcessItemNameListSave();
  }
}


void DICParser::ProcessItemNameListSave(void)
/* ----------------------------------------------------------------------
   Purpose: DICParser::ProcessItemNameListSave(void)

            Registers the item keyword for the the current item in the
            current category.  Maintains an index array of "valid" keyword
            names in fieldList[].  This array is used to indirectly
            reference between keywords and values ...
 * ----------------------------------------------------------------------*/
{

  char keywordName[MAX_CIF_NAME_LENGTH], categoryName[MAX_CIF_NAME_LENGTH];

  if (! CifFileObjBase::GetCategoryNameFromItemName(categoryName, _tBufKeyword) ) {
    log << "Error in category name at line (save frame) " << NDBlineNo << " value " << _tBufKeyword << endl;
    errorLog += "Error in category name at line (save frame) ";
    errorLog += NDBlineNo;
    errorLog += " value ";
    errorLog += _tBufKeyword;
    errorLog += '\n';
  }

  if ( _curItemNoSave > _fieldListAllocSave - 1) {
    _fieldListAllocSave = _curItemNoSave + _fieldListAllocSave;
    _fieldListSave = (int *) realloc(_fieldListSave, (_fieldListAllocSave) * sizeof(int));
  }

  if ( !strcmp(categoryName,_curCategoryNameSave) && CifFileObjBase::GetKeywordFromItemName(keywordName, _tBufKeyword)) {
    _savetbl->AddColumn(keywordName);
    _itemIndexSave++;
    _fieldListSave[_curItemNoSave] = _itemIndexSave;
  } else {
    log << "Syntax error at line (save frame) " << NDBlineNo << " at item " << _tBufKeyword << endl;
    errorLog += "Syntax error at line (save frame) ";
    errorLog += NDBlineNo;
    errorLog += " item ";
    errorLog += _tBufKeyword;
    errorLog += '\n';
    _fieldListSave[_curItemNoSave] = -1;
  }
  _curItemNoSave++;

}
void DICParser::ProcessValueListSave(void)
/* ----------------------------------------------------------------------
     Purpose:  DICParser::ProcessValueListSave(void)

               Add the current value to the appropriate column in the
               the current row.  Start a new row if necessary.
 * ----------------------------------------------------------------------*/
{
  CifString cs;

  if (_fieldListSave[_curValueNoSave] > 0 ) {

    if (_fieldListSave[_curValueNoSave] == 1) {
      _rowBufSave->Clear();
      _curRowSave++;
       _savetbl->AddRow();
                 _savetbl->FillRow(*_rowBufSave,_curRowSave-1);
    }
    if (_pBufValue) {
      if (strlen(_pBufValue) > 0) {
                  cs.Clear(); cs.Copy(_pBufValue);
         _savetbl->UpdateCell(cs,_curValueNoSave , _curRowSave-1);
      } else {
         _savetbl->UpdateCell(_mString,_curValueNoSave , _curRowSave-1);
      }
    } else {
      if (_sBufValue->Length() > 0)
         _savetbl->UpdateCell(*_sBufValue,_curValueNoSave , _curRowSave-1);
     else
         _savetbl->UpdateCell(_mString,_curValueNoSave , _curRowSave-1);
    }
  }
  _curValueNoSave++;

  if (_curValueNoSave == _curItemNoSave) {
    _curValueNoSave = 0;
  }
}





void DICParser::ProcessItemValuePairSave(void)
/* ----------------------------------------------------------------------
      Purpose: ProcessItemValuePairSave(void)

               Assign the current value to its associated item name.
 * ----------------------------------------------------------------------*/
{
  char categoryName[MAX_CIF_NAME_LENGTH], keywordName[MAX_CIF_NAME_LENGTH];
  CifString cs;

  _curItemNoSave  = 1;
  _curValueNoSave = 0;
//  _itemIndexSave  = 1;

  if (! CifFileObjBase::GetCategoryNameFromItemName(categoryName, _tBufKeyword) ) {
    log << "Error in category name at line (save frame) " << NDBlineNo << " value " << _tBufKeyword << endl;
    errorLog += "Error in category name at line (save frame) ";
    errorLog += NDBlineNo;
    errorLog += " value ";
    errorLog += _tBufKeyword;
    errorLog += '\n';
    return;
  }

  if (_saveobj->IsTablePresent(categoryName)) { //  duplicates a persistent table?
    log << "Duplicate category name in a save frame " << categoryName << " at line " << NDBlineNo << endl;
    errorLog += "Duplicate category name in a save frame ";
    errorLog += categoryName;
    errorLog += " at line ";
    errorLog += NDBlineNo;
    errorLog += '\n';
    return;
  }

  if (strcmp(categoryName,_curCategoryNameSave)) {

    if (_savetbl) { // write the current table
      if (_nTablesInBlockSave) {
      _saveobj->WriteTable(_savetbl,_curDataBlockNameSave,_curCategoryNameSave);
      } else {
      _saveobj->WriteTable(_savetbl,_prevDataBlockNameSave,_curCategoryNameSave); 
      }
      _nTablesInBlockSave++;
      //      delete _savetbl;
      if (_prevtbl) delete _prevtbl;
      _prevtbl=new ISTable();
      _prevtbl->Copy(_savetbl);
    }
    _savetbl = new ISTable(categoryName);
    _curColSave = 0;
    strcpy(_curCategoryNameSave,categoryName);
  }
  if ( CifFileObjBase::GetKeywordFromItemName(keywordName, _tBufKeyword) ) {
//    cout<<categoryName<<"   "<<_curCategoryNameSave<<"   "<<endl;
    if (_savetbl==NULL)
      _savetbl = new ISTable(categoryName);
    _savetbl->AddColumn(keywordName);
    _curColSave++;
  }
  else {
    log << "Syntax error line (save frame) " << NDBlineNo << " at item " << _tBufKeyword << endl;
    errorLog += "Syntax error at line (save frame) ";
    errorLog += NDBlineNo;
    errorLog += " item ";
    errorLog += _tBufKeyword;
    errorLog += '\n';
  }
  if (_pBufValue) {
    cs.Clear();
    if (strlen(_pBufValue) > 0) {
      cs.Copy(_pBufValue);
      _savetbl->AddElementToColumn( cs, _curColSave-1);
    } else
      _savetbl->AddElementToColumn( _mString, _curColSave-1);

  } else {
      if (_sBufValue->Length() > 0)
        _savetbl->AddElementToColumn( *_sBufValue, _curColSave-1);
      else
        _savetbl->AddElementToColumn( _mString, _curColSave-1);
  }

}

void  DICParser::CheckDDL(void) {
  char categoryName[MAX_CIF_NAME_LENGTH], keywordName[MAX_CIF_NAME_LENGTH];
  ReVarCifArray<CifString> target, target2;
  int errCode;
  ReVarCifArray<CifString> *ColumnNames=NULL;
  ReVarPCifArray<int> * listOut=NULL;
  ReVarCifArray<CifString> listitem1;
  CifString itemName;
  int numCols, numRows;
  int  numCols2, numRows2;
  int implicitFound = 0;
  int i, ret;
  CifString elem1;
  CifString elem;
  ISTable * tmptbl=NULL;
  char* tmp = NULL;
  ReVarCifArray<CifString> * row;

  listitem1.Clear(); listitem1.Add("name");

  target.Add(_curCategoryName);
  listOut = cattbl->Search(target,listcat,errCode);
  if (errCode < 0){
    log << "Category " << _curCategoryName << " isn't defined; line " << NDBlineNo<< endl;
    errorLog += "Category ";
    errorLog += _curCategoryName;
    errorLog += " isn't defined; line ";
    errorLog += NDBlineNo;
    errorLog += '\n';
  }
  else {
  cattbl->GetCell(itemName,catColIndex,(*listOut)[0]);
  if(strcmp(itemName.Text(),_tbl->GetName())!=0) {
    // example: item_examples & Item_examples
    tmptbl=_tbl;
    _tbl = _fobj->GetTablePtr(_curDataBlockName,itemName.Text());
    for (int l=0; l<tmptbl->GetNumRows(); l++){
      row = tmptbl->GetRow(l);
      _tbl->AddRow();
      _tbl->FillRow(*row,_tbl->GetLastRowIndex());
      if (row) delete row;
    }
    _fobj->DeleteTable(_curDataBlockName,tmptbl->GetName());
    delete tmptbl;
    strcpy(_curCategoryName,itemName.Text());
    _prevtbl->Rename(itemName.Text());
  }

  numRows2 = _tbl->GetNumRows();
  numCols2 = _tbl->GetNumColumns();
  ColumnNames = _prevtbl->GetColumnNames();
  numCols = _prevtbl->GetNumColumns();
  numRows = _prevtbl->GetNumRows();
  for (i=0; i<numCols; i++) {
    elem1.Copy("_");
    elem1+=_prevtbl->GetName();
    elem1+=".";
    elem1+=(*ColumnNames)[i];
    target2.Clear();
    target2.Add(elem1);
    ret = itemtbl->FindFirst(target2,listitem1,errCode);
    if (errCode<0) {
      log << "Item " << elem1.Text() << " isn't defined; line " << NDBlineNo<< endl;
      errorLog += "Item ";
      errorLog += elem1.Text();
      errorLog += " isn't defined; line ";
      errorLog += NDBlineNo;
      errorLog += '\n';
    }
    itemtbl->GetCell(itemName,itemColIndex,ret);
    if (strcasecmp(itemName.Text(),"implicit")==0) {
      implicitFound=1;
    }
  }

  if (strcasecmp(_curCategoryName,"item")==0) {

    colIndex2=_prevtbl->GetColumnIndex("name");
    if (colIndex2 <0) {
      colIndex2=_tbl->GetColumnIndex("name");
      elem.Clear();
      elem.Copy(_curDataBlockNameSave);

      if (numRows == numRows2) {
        _tbl->AddColumn("name");
        colIndex2=_tbl->GetColumnIndex("name");
        for (i=0; i<numRows; i++)
          _tbl->AddElementToColumn(elem,colIndex2);
      }
      else {

        for (i=numRows; i>0; i--)
          _tbl->UpdateCell(elem,colIndex2,numRows2-i);
      }
    }
    colIndex2=_prevtbl->GetColumnIndex("category_id");
    if (colIndex2 <0) {
      colIndex2=_tbl->GetColumnIndex("category_id");
                if (isSave==2)
      CifFileObjBase::GetCategoryNameFromItemName(categoryName,_curDataBlockNameSave);
                if (isSave==1)
      CifFileObjBase::GetCategoryNameFromItemName(categoryName,_prevDataBlockNameSave);
      elem.Clear();
      elem.Copy(categoryName);

      if (numRows == numRows2) {
        _tbl->AddColumn("category_id");
        colIndex2=_tbl->GetColumnIndex("category_id");
        for (i=0; i<numRows; i++)
          _tbl->AddElementToColumn(elem,colIndex2);
    }
      else {

        for (i=numRows; i>0; i--)
          _tbl->UpdateCell(elem,colIndex2,numRows2-i);

      }
    }
  }
  else {

    if (implicitFound == 0) {
      target2.Clear();
      target2.Add(_curCategoryName);
      target2.Add("implicit");
      if (listOut) delete listOut;
      listOut = itemtbl->Search(target2,listitem2,errCode);
      if (errCode >=0) {
        colIndex2=itemtbl->GetColumnIndex("name");
        itemtbl->GetCell(itemName,colIndex2,(*listOut)[0]);
        CifFileObjBase::GetKeywordFromItemName(keywordName,itemName.Text());
        //        _tbl->AddColumn(keywordName);


        if (strcasecmp(_curCategoryName,"dictionary")==0 ||
            strcasecmp(_curCategoryName,"category")==0) {
          if (isSave == 1)
            tmp = DICFileObj::lowercase(_curDataBlockName);
          elem.Clear();
          elem.Copy(_curDataBlockName);
        }
        else {
          elem.Clear();
          elem.Copy(_tmpDataBlockNameSave);
        }

        if (numCols == numCols2) {
          _tbl->AddColumn(keywordName);
          colIndex2=_tbl->GetColumnIndex(keywordName);
          for (i=0; i<numRows; i++)
            _tbl->AddElementToColumn(elem,colIndex2);
        }
        else {

        colIndex2=_tbl->GetColumnIndex(keywordName);
        for (i=numRows; i>0; i--){
          _tbl->UpdateCell(elem,colIndex2,numRows2-i);
        }
        }
      }
    }
  }
  //*******
   /*
  target.Add("yes");
  colIndex2=itemtbl->GetColumnIndex("name");
  if (listOut) delete listOut;
  listOut = itemtbl->Search(target,listitem2,errCode);
  for (j=0; j<listOut->Length(); j++) {
    itemtbl->GetCell(itemName,colIndex2,(*listOut)[j]);
    CifFileObjBase::GetKeywordFromItemName(keywordName,itemName.Text());
    k=0;
    while (k<numCols && strcasecmp(keywordName,(*ColumnNames)[k].Text())!=0) {
      k++;
    }
    if(k==numCols) {
      log << "Mandatory column "<< itemName.Text()  <<" is missing; near line " << NDBlineNo<< endl;
      errorLog += "Mandatory column ";
      errorLog += itemName.Text();
      errorLog += " is missing; near line ";
      errorLog += NDBlineNo;
      errorLog += '\n';
    }
  }
*/
  }
  if (listOut) delete listOut;
  if (ColumnNames) delete ColumnNames;
  if (tmp) free(tmp);
}

void DICParser::ProcessAssignments(void)
{
  if (_curValueNo!=0)
  log <<"Number of data values is not exact multiples of the number of data names   (look above line)"<<NDBlineNo<<endl;
}

void DICParser::ProcessOneAssignment(void)
{
  if (isSave)
    ProcessItemValuePairSave();
  ProcessItemValuePair();
}

void DICParser::ProcessItemNameListLoop(void)
{
 if (isSave)
    ProcessLoopDeclarationSave();
  ProcessLoopDeclaration();
}

void DICParser::ProcessItemNameListName(void)
{
  if (isSave)
    ProcessItemNameListSave();
  ProcessItemNameList();
}

void DICParser::ProcessValueListItem(void)
{
  if (isSave)
    ProcessValueListSave();
  ProcessValueList();
}

void DICParser::ProcessItemName(void)
{
    strcpy(_tBufKeyword,Glob_tBufKeywordSaveDIC);
}

void DICParser::ProcessLoop(void)
{
    _curItemNo = 0;  _curValueNo = 0;  _itemIndex = 0;
    _curItemNoSave = 0;  _curValueNoSave = 0;  _itemIndexSave = 0;
}

void DICParser::ProcessItemValue(void)
{
   _pBufValue = Glob_pBufValueDIC;
   _sBufValue = NULL;
}

void DICParser::ProcessLsItemValue(void)
{
   _pBufValue = NULL;
   _sBufValue = Glob_sBufValueDIC;
}

void DICParser::ProcessUnknownValue(void)
{
   _sBufValue = &_uString;
   _pBufValue = NULL;
}

void DICParser::ProcessMissingValue(void)
{
   _sBufValue = &_mString;
   _pBufValue = NULL;
}

void DICParser::ProcessSaveBegin(void)
{
  _nTablesInBlockSave=1;
  _saveobj = new TblFileObj((char*)("./test/pera"), WRITE_MODE);
  _saveobj->SetDataBlock(&(Glob_dataBlockNameDIC)[5]);
  strcpy(_prevDataBlockNameSave,_curDataBlockNameSave);
  strcpy(_curDataBlockNameSave,&(Glob_dataBlockNameDIC)[5]);
  _savetbl=NULL;
  _pBufValue = Glob_dataBlockNameDIC;
}

void DICParser::ProcessSaveEnd(void)
{
  if (_prevtbl) delete _prevtbl;
  _prevtbl=new ISTable();
  _prevtbl->Copy(_savetbl);
  delete _saveobj;
  delete _savetbl;
  _savetbl=NULL;
  _pBufValue = Glob_pBufValueDIC; 
}

void DICParser::ProcessDataBlockName(void)
{
  _numDataBlocks++;
  _nTablesInBlock=0;
//  strcpy(_prevDataBlockName,_curDataBlockName);
  if (&(Glob_dataBlockNameDIC)[5] && (strlen(&(Glob_dataBlockNameDIC)[5])>0)) {
    _fobj->SetDataBlock(&(Glob_dataBlockNameDIC)[5]);
    strcpy(_curDataBlockName,&(Glob_dataBlockNameDIC)[5]);
  } else {
    char bCount[10];
    sprintf(bCount,"%d",_numDataBlocks);
    strcpy(_curDataBlockName,"UNNAMED-");
    strcat(_curDataBlockName,bCount);
  }
//  if (strlen(_prevDataBlockName) == 0)   strcpy(_prevDataBlockName,_curDataBlockName);
  if (strcmp(_prevDataBlockName,"MISSING_DIC") == 0)   strcpy(_prevDataBlockName,_curDataBlockName);

  if (_tbl && (_curItemNo > 0)) { // write the current table / management of _tbl by _fobj
  CheckDDL();
      _fobj->WriteTable(_tbl,_prevDataBlockName,_curCategoryName);
      _nTablesInBlock++;
    //    delete _tbl;
                _tbl=NULL;
  }
  if (strcmp(_prevDataBlockName,_curDataBlockName)!=0)
         strcpy(_curCategoryName,"");

  if (strcmp(_tmpDataBlockNameSave,_curDataBlockNameSave)!=0) {
    strcpy(_tmpDataBlockNameSave,"");
    strcpy(_tmpDataBlockNameSaveL,"");
  }

#if DEBUG
  if (_verbose) log << " Previous data block is now  " <<  _prevDataBlockName << endl;
  if (_verbose) log << " Current  data block is now  " <<  _curDataBlockName << endl;
#endif
}



void ProcessAssignmentsFromDICParser()
{
    DICParserP->ProcessAssignments();
}

void ProcessOneAssignmentFromDICParser()
{
    DICParserP->ProcessOneAssignment();
}

void ProcessItemNameListLoopFromDICParser()
{
    DICParserP->ProcessItemNameListLoop();
}

void ProcessItemNameListNameFromDICParser()
{
    DICParserP->ProcessItemNameListName();
}

void ProcessValueListFromDICParser()
{
    DICParserP->ProcessValueListItem();
}

void ProcessItemNameFromDICParser()
{
    DICParserP->ProcessItemName();
}

void ProcessLoopFromDICParser()
{
    DICParserP->ProcessLoop();
}

void ProcessItemValueFromDICParser()
{
    DICParserP->ProcessItemValue();
}

void ProcessLsItemValueFromDICParser()
{
    DICParserP->ProcessLsItemValue();
}

void ProcessUnknownValueFromDICParser()
{
    DICParserP->ProcessUnknownValue();
}

void ProcessMissingValueFromDICParser()
{
    DICParserP->ProcessMissingValue();
}

void ProcessSaveBeginFromDICParser()
{
    DICParserP->ProcessSaveBegin();
}

void ProcessSaveEndFromDICParser()
{
    DICParserP->ProcessSaveEnd();
}

void ProcessDataBlockNameFromDICParser()
{
    DICParserP->ProcessDataBlockName();
}