ALIFileIn.cc

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//
//   COCOA class implementation file
//Id:  ALIFileIn.cc
//CAT: Model
//
//   History: v1.0
//   Pedro Arce
 
#include "Alignment/CocoaUtilities/interface/ALIFileIn.h"
 
#include <cstdlib>
#include <strstream>
//#include <strstream.h>
 
//#include <algo.h>
 
std::vector<ALIFileIn*> ALIFileIn::theInstances;
 
//@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
//@@ get the instance of file with name filename
//@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
ALIFileIn& ALIFileIn::getInstance(const ALIstring& filename) {
  for (auto vfc : theInstances) {
    if (vfc->name() == filename) {
      return *vfc;
    }
  }
 
  ALIFileIn* instance = new ALIFileIn(filename);
  instance->theCurrentFile = -1;
  instance->openNewFile(filename.c_str());
  theInstances.push_back(instance);
 
  return *instance;
}
 
//@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
void ALIFileIn::openNewFile(const char* filename) {
  theCurrentFile++;
  std::ifstream* fin = new std::ifstream(filename);
  theFiles.push_back(fin);
 
  //-  ALIint lineno = new ALIint;
  //-  ALIint lineno = 0;
  theLineNo.push_back(0);
 
  theNames.push_back(filename);
 
#ifndef OS_SUN_4_2
  if (!fin->is_open()) {
    std::cerr << "!!!! Input file does not exist: " << filename << std::endl;
    exit(1);
  }
#endif
}
 
//@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
//@@ get the Instance checking that the file is already opened
//@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
ALIFileIn& ALIFileIn::getInstanceOpened(const ALIstring& filename) {
  ALIFileIn& filein = ALIFileIn::getInstance(filename);
  if (filein.name() != filename) {
    std::cerr << "Error: file not opened yet " << filename << std::endl;
    exit(0);
  } else {
    return filein;
  }
}
 
//@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
//@@ read a ilne and split it in words
//@@ returns
//@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
ALIint ALIFileIn::getWordsInLine(std::vector<ALIstring>& wordlist) {
  ALIint isok = 1;
 
  //---------- Read a line of file:
  //@@@@--- Cannot be read with a istream_iterator, becasuse it uses std::cout, and then doesn't read '\n'
  //----- Clear wordlist
  ALIint wsiz = wordlist.size();
  ALIint ii;
  for (ii = 0; ii < wsiz; ii++) {
    wordlist.pop_back();
  }
 
  //---------- Loop lines while there is an ending '\' or line is blank
  const ALIint NMAXLIN = 1000;
  char ltemp[NMAXLIN];  //there won't be lines longer than NMAXLIN characters
  for (;;) {
    (theLineNo[theCurrentFile])++;
    for (ii = 0; ii < NMAXLIN; ii++)
      ltemp[ii] = ' ';
    theFiles[theCurrentFile]->getline(ltemp, NMAXLIN);
    //---------- Check for lines longer than NMAXLIN character
    ALIint ii;
    for (ii = 0; ii < NMAXLIN; ii++) {
      if (ltemp[ii] == '\0')
        break;
    }
    if (ii == NMAXLIN - 1) {
      ErrorInLine();
      std::cerr << "!!!! line longer than " << NMAXLIN << " characters" << std::endl
                << " please split it putting a '\\' at the end of line" << std::endl;
      exit(0);
    }
 
    //---------- End of file
    //-    if ( theFiles[theCurrentFile]->eof() ) {
    if (eof()) {
      //t          exit(0);
      return 0;
    }
 
    //---------- Convert line read to istrstream to split it in words
    std::istrstream istr_line(ltemp);
 
    //--------- count how many words are there in ltemp (this sohuld not be needed, but sun compiler has problems) !! this has to be nvestigated...
    ALIint NoWords = 0;
    char* tt = ltemp;
    ALIstring stemp(ltemp);
    do {
      if (*tt != ' ' && *(tt) != '\0') {
        if (tt == ltemp) {
          NoWords++;
          //     std::cout << "dNoWords" << NoWords << ltemp << std::endl;
        } else if (*(tt - 1) == ' ' || *(tt - 1) == '\015' || *(tt - 1) == '\t') {
          NoWords++;
          //     std::cout << "NoWords" << NoWords << ltemp << std::endl;
        }
      }
      tt++;
    } while (*tt != '\0' && stemp.length() != 0);
    ALIstring stempt(ltemp);
    if (stempt.length() == 0)
      NoWords = 0;
 
    //--------- Read words from istr_line and write them into wordlist
    //    ALIint stre = 1;
    for (ii = 0; ii < NoWords; ii++) {
      ALIstring stemp = "";
      istr_line >> stemp;  //?? gives warning in Insure++
      if (stemp.length() == 0)
        break;
      ALIint comment = stemp.find(ALIstring("//"));
      //    std::cout << "!!!COMMENT" << comment << stemp.c_str() << std::endl;
      if (comment == 0) {
        break;
      } else if (comment > 0) {
        stemp = stemp.substr(0, comment);
        wordlist.push_back(stemp);
        break;
        //-   for( int jj=0; jj < stemp.length()-comment; jj++) stemp.pop_back();
      }
      wordlist.push_back(stemp);
    }
 
    //These two algorithms should be the more STL-like way, but they don't work for files whose lines end without '\015'=TAB (STL problem: doesn't find end of string??)
    // istream_iterator<ALIstring, ptrdiff_t> ALIstring_iter(istr_line);
    // istream_iterator<ALIstring, ptrdiff_t> eosl;
    // copy(ALIstring_iter, eosl, back_inserter(wordlist));
    // typedef istream_iterator<ALIstring, ptrdiff_t> ALIstring_iter;
    // copy(ALIstring_iter(istr_line), ALIstring_iter(), back_inserter(wordlist));
 
    if (!wordlist.empty()) {
      if ((*(wordlist.end() - 1)) == "\\") {  //use '\' to mark continuing line
        wordlist.pop_back();
      } else {
        break;
      }
    }
  }
 
  //or why not like this?:
  //typedef istream_iterator<ALIstring, ptrdiff_t> string_iter;
  //copy(string_iter(istr_line), string_iter(), back_inserter(wordlist));
 
  //-  std::cout << " checking for include " << wordlist[0] << std::endl;
  // check if including a new file
  if (wordlist[0] == "#include") {
    if (wordlist.size() != 2) {
      ErrorInLine();
      std::cerr << "'#include' should have as second argument the filename " << std::endl;
      exit(0);
    }
    //-    std::cout << "include found " << std::endl;
    openNewFile(wordlist[1].c_str());
    isok = getWordsInLine(wordlist);
  }
 
  return isok;
}
 
//@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
//@@
//@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
void ALIFileIn::ErrorInLine() {
  std::cerr << "!! EXITING: ERROR IN LINE No " << theLineNo[theCurrentFile] << " file: " << theNames[theCurrentFile]
            << " : ";
}
 
ALIbool ALIFileIn::eof() {
  ALIbool isok = theFiles[theCurrentFile]->eof();
  if (isok) {
    //std::cout << " eof theCurrentFile " << theCurrentFile << std::endl;
    theCurrentFile--;
    if (theCurrentFile != -1)
      close();  // last file will be closed by the user
  }
  //only real closing if all files are closed
  //-  std::cout << " eof " << isok << " " << theCurrentFile << std::endl;
  if (theCurrentFile != -1) {
    return false;
  } else {
    return isok;
  }
}
 
void ALIFileIn::close() {
  //-  std::cout << " close " << theCurrentFile << " size " << theFiles.size() << std::endl;
  /*  if( theCurrentFile+1 != 0 ) {
    ErrorInLine();
    std::cerr << "trying to close file while reading other files included in it " << theCurrentFile+1 << std::endl;
    //    exit(0);
    } else { */
  theFiles[theCurrentFile + 1]->close();
  theFiles.pop_back();
  //  }
}