int main(int argc, const char * argv[])
{
struct TDCMopts opts;
readIniFile(&opts, argv);
#ifdef mydebugtest
//strcpy(opts.indir, "/Users/rorden/desktop/sliceOrder/dicom2/Philips_PARREC_Rotation/NoRotation/DBIEX_4_1.PAR");
strcpy(opts.indir, "/Users/rorden/desktop/sliceOrder/dicom2/test");
#else
printf("Chris Rorden's dcm2niiX version %s\n",kDCMvers);
if (argc < 2) {
showHelp(argv, opts);
return 0;
}
strcpy(opts.indir,argv[argc-1]);
strcpy(opts.outdir,opts.indir);
int i = 1;
int lastCommandArg = -1;
while (i < (argc)) { //-1 as final parameter is DICOM directory
if ((strlen(argv[i]) > 1) && (argv[i][0] == '-')) { //command
if (argv[i][1] == 'h')
showHelp(argv, opts);
else if ((argv[i][1] == 'z') && ((i+1) < argc)) {
i++;
if ((argv[i][0] == 'i') || (argv[i][0] == 'I') ) {
opts.isGz = true; //force use of internal compression instead of pigz
strcpy(opts.pigzname,"");
} else if ((argv[i][0] == 'n') || (argv[i][0] == 'N') || (argv[i][0] == '0'))
opts.isGz = false;
else
opts.isGz = true;
} else if ((argv[i][1] == 'f') && ((i+1) < argc)) {
i++;
strcpy(opts.filename,argv[i]);
} else if ((argv[i][1] == 'o') && ((i+1) < argc)) {
i++;
strcpy(opts.outdir,argv[i]);
}
lastCommandArg = i;
} //if parameter is a command
i ++; //read next parameter
} //while parameters to read
//printf("%d %d",argc,lastCommandArg);
if (argc == (lastCommandArg+1)) { //+1 as array indexed from 0
//the user did not provide an input filename, report filename structure
char niiFilename[1024];
strcpy(opts.outdir,"");//no input supplied
nii_createDummyFilename(niiFilename, opts);
printf("%s\n",niiFilename);
return EXIT_SUCCESS;
}
#endif
clock_t start = clock();
nii_loadDir(&opts);
printf ("Conversion required %f seconds.\n",((float)(clock()-start))/CLOCKS_PER_SEC);
saveIniFile(opts);
return EXIT_SUCCESS;
}
void transformDicom(char *filename, char *outdir)
{
TDCMopts opts;
char auxFile[1024];
defaultOptions(opts, outdir);
changeFileExt(filename, "", auxFile);
extractFileName(auxFile, opts.filename);
// opts.isVerbose = 2;
if (0)
{
strcpy(opts.indir, filename);
nii_loadDir(&opts);
}
else singleDICOM(&opts, filename);
}
