std::unique_ptr<File> Extractor::readFile() {
auto fileName = readFileName();
readFileTimestamp();
readFileOwnerId();
readFileGroupId();
readFileMode();
auto fileSize = readFileSize();
readUntilEndOfFileHeader();
auto fileContent = readFileContent(fileSize);
return std::make_unique<StringFile>(fileContent, fileName);
}
//----------------------------------------------------------------------------------
Gnuplot::Gnuplot() :
mGnuPipe(NULL),
mTerminal("X11"),
mStyle("lines"),
mCurrentWindowNumber(0),
mMaxCommandSize(4096)
{
const std::string fileName = readFileName();
if (fileExists(fileName)==false)
{
std::cout << "\nGnuplot location was not found"
<< "\nTherefore, change the line in 'GnuplotLocation.txt"
<< "\nto your Gnuplot location.\n";
exit(1);
}
mGnuPipe = popen((fileName+" -persist").c_str(),"w");
if (mGnuPipe==NULL) assert(!"Couldn't open connection to gnuplot");
setLineStyles();
addWindow();
changeWindow(0);
}
void Store::askFileNames()
{
fileNames[0] = readFileName("Insert the customers' file: ");
fileNames[1] = readFileName("Insert the products' file: ");
fileNames[2] = readFileName("Insert the transactions' file: ");
}
StarDict::StarDict( const char *filename )
{
ifoFileName = filename;
idxFileName = filename;
idxFileName.replace( idxFileName.size() - 4, 4, ".idx" );
dictFileName = filename;
dictFileName.replace( dictFileName.size() - 4, 4, ".dict" );
// Ifo file
file.open( ifoFileName.c_str() );
if( !file.is_open() )
{
m_isOk = false;
return;
}
// Read the ifo file
string ifoline;
while( !file.eof() )
{
getline( file, ifoline );
if( ifoline.find( "=" ) == string::npos ) continue;
if( ifoline.find( '\n' ) != string::npos ) ifoline.erase( ifoline.size() - 1 );
if( ifoline.find( "version=" ) != string::npos ) m_version = ifoline.substr( 8 );
if( ifoline.find( "bookname=" ) != string::npos ) m_bookname = ifoline.substr( 9 );
if( ifoline.find( "sametypesequence=" ) != string::npos ) m_sametypesequence = ifoline.substr( 17 );
if( ifoline.find( "idxfilesize=" ) != string::npos ) m_idxfilesize = atoi( ifoline.substr( 12 ).c_str() );
if( ifoline.find( "wordcount=" ) != string::npos ) m_wordcount = atoi( ifoline.substr( 10 ).c_str() );
if( ifoline.find( "author=" ) != string::npos ) m_author = ifoline.substr( 7 );
if( ifoline.find( "email=" ) != string::npos ) m_email = ifoline.substr( 6 );
if( ifoline.find( "website=" ) != string::npos ) m_website = ifoline.substr( 8 );
if( ifoline.find( "description=" ) != string::npos ) m_description = ifoline.substr( 12 );
if( ifoline.find( "date=" ) != string::npos ) m_date = ifoline.substr( 5 );
}
file.close();
if( m_sametypesequence != "m" )
{
// This class only support sametypesequence == "m" for now
m_isOk = false;
//cout << "Dictionary not loaded. Stardict plugin supports only sametypesequence == \"m\"" << endl;
return;
}
// Index file
// it should be on the same directory that ifo file
file.open( idxFileName.c_str() );
if( !file.is_open() )
{
idxFileName += ".gz";
file.open( idxFileName.c_str() );
if( !file.is_open() )
{
m_isOk = false;
return;
}
isIdxCompressed = true;
file.close();
}else{
isIdxCompressed = false;
file.close();
}
// Definition file (.dict)
// it should be on the same directory that index file
// Checks if the definition file is compressed or not
file.open( dictFileName.c_str() );
if( !file.is_open() )
{
dictFileName += ".dz";
file.open( dictFileName.c_str() );
if( !file.is_open() )
{
m_isOk = false;
return;
}
// The definition file is compressed (.dict.dz)
// Read the header
isCompressed = true;
char header[12];
file.readsome( header, 12 );
if( header[0] != '\x1f' || header[1] != '\x8b' ) //ID1 = 31 (0x1f, \037) ID2 = 139 (0x8b, \213)
{
m_isOk = false;
return;
}
//header[2] // COMPRESSION
FTEXT = header[3] & 1;
FHCRC = header[3] & 2;
m_extraField = header[3] & 4;
m_hasName = header[3] & 8;
FCOMMENT = header[3] & 16;
m_mtime = (unsigned char)header[4] | (unsigned char)header[5] << 8 + (unsigned char)header[6] << 16 + (unsigned char)header[7] << 24;
//header[8] // Compression type
//header[9] // Operating System
// If has extra field, read it
if( m_extraField )
{
XLEN = (unsigned char)header[10] | (unsigned char)header[11] << 8;
readExtraField();
}
// If has name of decompressed file, read it
if( m_hasName )
{
readFileName();
}
// If has a comment field, read it
if( FCOMMENT )
{
readFileName();
}
// If has a CRC field, read it
if( FHCRC )
{
*crc16[0] = file.get();
*crc16[1] = file.get();
}
// Get the current position
// This is start position of the chunks of compressed data
offset = file.tellg();
file.close();
}else{
isCompressed = false;
file.close();
}
m_isOk = true;
}
int main()
{
FILE * fin = NULL;
char fn[MAX], input[MAX], word[MAX];
int choice = 0;
int sentSize = 5;
int aSize, nSize, vSize, pSize;
char ** articles = NULL;
char ** nouns = NULL;
char ** verbs = NULL;
char ** preps = NULL;
char ** sentence = NULL;
srand(time(NULL));
readFileName(fn);
openFile(fn, fin, &aSize, &nSize, &vSize, &pSize);
articles = fillArray(fn,"article", articles, aSize, fin);
nouns = fillArray(fn,"noun", nouns, aSize, fin);
verbs = fillArray(fn,"verb", verbs, aSize, fin);
preps = fillArray(fn,"preposition", preps, aSize, fin);
displayAmounts(aSize, nSize, vSize, pSize);
sortStringArray(articles, aSize);
sortStringArray(nouns, nSize);
sortStringArray(verbs, vSize);
sortStringArray(preps, pSize);
do
{
choice = menu();
if(choice == 1)
{
sentence = createSentence(articles, nouns, verbs, preps, aSize, nSize, vSize, pSize);
printArray2D(sentence,sentSize);
}// end choice == 1
else if(choice == 2)
{
displayAllWords(articles, nouns, verbs, preps, aSize, nSize, vSize, pSize);
}// end choice == 2
else if(choice == 3)
{
whichArray(input);
whatWord(word);
if(strcmp(input,"ARTICLES") == 0)
addWord(articles, word, &aSize);
else if(strcmp(input,"NOUNS") == 0)
addWord(nouns, word, &nSize);
else if(strcmp(input,"VERBS") == 0)
addWord(verbs, word, &vSize);
else if(strcmp(input,"PREPOSITIONS") == 0)
addWord(preps, word, &pSize);
}// end choice == 3
else if(choice == 4)
{
whichArray(input);
whatWord(word);
if(strcmp(input,"ARTICLES") == 0)
removeWord(articles, word, &aSize);
else if(strcmp(input,"NOUNS") == 0)
removeWord(nouns, word, &nSize);
else if(strcmp(input,"VERBS") == 0)
removeWord(verbs, word, &vSize);
else if(strcmp(input,"PREPOSITIONS") == 0)
removeWord(preps, word, &pSize);
}// end choice == 4
else if(choice == 5)
{
displayTogetherSorted(articles, nouns, verbs, preps, aSize, nSize, vSize, pSize);
}// end choice == 5
}while(choice != 6);
return 0;
}
// main
int main(int argc, const char* argv[])
{
// welcome message
printf("--- Welcome to Jon's Neighbor-Join & 2-Approximation! ---\n\n");
// predeclared filename
char* filename;
Input* ipt = NULL;
if (DEBUG_INPUT)
// set up the path
filename = "/Users/jonfast/Desktop/phylogeny.txt";
else
// read the file name
filename = readFileName();
clock_t start, end;
// experiment
// i is the number of taxa
// j is the number of base pairs
for (int j = 0; j < 1; j++) {
// setup and fill the input structures
if (INPUT_RANDOM)
getInput(filename, 1000, &ipt);
else
getTestInput(language, 300, j, &ipt);
// summarize input if appropriate
if (PRINT)
summarizeInput(ipt);
// free filename if input is standard
if (!DEBUG_INPUT)
free(filename);
start = clock();
// setup the graph container
StarGraphContainer* containerStar = NULL;
createStarContainer(&containerStar, ipt);
// calculate the neighbor join tree
calculateNeighborJoin(containerStar, &hammingDistance);
// print a summary
if (PRINT) {
summarizeStarContainer(containerStar);
}
// stop the clock and check result
end = clock();
printf("%2.4f\n", (double) (end - start) / CLOCKS_PER_SEC);
}
start = clock();
/*
// now try the two approximation
GraphContainer* container = NULL;
createCliqueContainer(&container, ipt);
Leaf* someLeaf = NULL;
twoApproximation(container, &someLeaf);
if (PRINT)
printTree(someLeaf);
end = clock();
printf("2-Approximation Running Time: %2.4f\n", (double) (end - start) / CLOCKS_PER_SEC);
// done, destroy all (non-freed) objects
destroyInput(ipt);
destroyContainer(container);
// all done
printf("Done!\n");
return 0;
*/
}
