void LayerVolumeTrack::UpdateData()
{
  if (!m_volumeSource->GetEmbeddedColorTable())
  {
    cerr << "Did not find color table in track volume.\n";
    m_ctabStripped = CTABdeepCopy(this->GetProperty()->GetLUTCTAB());
  }
  else
    m_ctabStripped = CTABdeepCopy(m_volumeSource->GetEmbeddedColorTable());

  if (m_ctabStripped)
  {
    MRI* mri = m_volumeSource->GetMRI();
    QList<int> list;
    for (int i = 0; i < mri->nframes; i++)
      list << mri->frames[i].label;

    int nTotalCount;
    int nValid = 0;
    CTABgetNumberOfTotalEntries( m_ctabStripped, &nTotalCount );
    for ( int i = 0; i < nTotalCount; i++ )
    {
      CTABisEntryValid( m_ctabStripped, i, &nValid );
      if (nValid)
      {
        if (list.contains(i))
        {
          // update name
          QString name = mri->frames[list.indexOf(i)].name;
          if (name.isEmpty())
            name = cma_label_to_name(i);
          strcpy(m_ctabStripped->entries[i]->name, qPrintable(name));
        }
        else
        {
          // remove this entry
          free(m_ctabStripped->entries[i]);
          m_ctabStripped->entries[i] = 0;
        }
      }
    }
  }

  RebuildActors();
}
/*---------------------------------------------------------------*/
int main(int argc, char *argv[]) {
  int nargs,n,err;
  MRIS *SurfReg[100];
  MRI *SrcVal, *TrgVal;
  char *base;
  COLOR_TABLE *ctab=NULL;

  nargs = handle_version_option (argc, argv, vcid, "$Name:  $");
  if (nargs && argc - nargs == 1) exit (0);
  argc -= nargs;
  cmdline = argv2cmdline(argc,argv);
  uname(&uts);
  getcwd(cwd,2000);

  Progname = argv[0] ;
  argc --;
  argv++;
  ErrorInit(NULL, NULL, NULL) ;
  DiagInit(NULL, NULL, NULL) ;
  if (argc == 0) usage_exit();
  parse_commandline(argc, argv);
  check_options();
  if (checkoptsonly) return(0);
  dump_options(stdout);

  // Load in surface registrations
  for(n=0; n<nsurfs;n++){
    printf("%d Loading %s\n",n+1,SurfRegFile[n]);
    base = fio_basename(SurfRegFile[n],".tri");
    if(strcmp(base,"ic7")==0){
      // Have to do it this way to rescale. Need to find a better more robust way.
      printf("   reading as ico 7, rescaling radius to 100\n");
      SurfReg[n] = ReadIcoByOrder(7, 100);
    }
    else
      SurfReg[n] = MRISread(SurfRegFile[n]);
    free(base);
    if(SurfReg[n]==NULL) exit(1);
  }

  // Load in source data
  SrcVal = NULL;
  if(DoSynthRand) {
    if (SynthSeed < 0) SynthSeed = PDFtodSeed();
    printf("INFO: synthesizing, seed = %d\n",SynthSeed);
    srand48(SynthSeed);
    MRIrandn(SrcVal->width, SrcVal->height, SrcVal->depth,
             SrcVal->nframes,0, 1, SrcVal);
  }
  else if(DoSynthOnes != 0) {
    printf("INFO: filling input with all 1s\n");
    MRIconst(SrcVal->width, SrcVal->height, SrcVal->depth,
             SrcVal->nframes, 1, SrcVal);
  }
  else if(AnnotFile) {
    printf("Loading annotation %s\n",AnnotFile);
    err = MRISreadAnnotation(SurfReg[0], AnnotFile);
    if(err) exit(1);
    SrcVal = MRISannotIndex2Seg(SurfReg[0]);
    ctab = CTABdeepCopy(SurfReg[0]->ct);
  }
  else if(LabelFile) {
    LABEL *srclabel;
    printf("Loading label %s\n",LabelFile);
    srclabel = LabelRead(NULL, LabelFile);
    if(srclabel == NULL) exit(1);
    SrcVal = MRISlabel2Mask(SurfReg[0],srclabel,NULL);
    printf("   %d points in input label\n",srclabel->n_points);
    LabelFree(&srclabel);
  }
  else {
    printf("Loading %s\n",SrcValFile);
    SrcVal = MRIread(SrcValFile);
    if(SrcVal==NULL) exit(1);
  }

  // Apply registration to source
  TrgVal = MRISapplyReg(SrcVal, SurfReg, nsurfs, ReverseMapFlag, DoJac, UseHash);
  if(TrgVal == NULL) exit(1);

  // Save output
  if(AnnotFile){
    printf("Converting to target annot\n");
    err = MRISseg2annot(SurfReg[nsurfs-1],TrgVal,ctab);
    if(err) exit(1);
    printf("Writing %s\n",TrgValFile);
    MRISwriteAnnotation(SurfReg[nsurfs-1], TrgValFile);
  } 
  else if(LabelFile){
    LABEL *label;
    label = MRISmask2Label(SurfReg[nsurfs-1], TrgVal, 0, 10e-5);
    printf("   %d points in output label\n",label->n_points);
    err = LabelWrite(label,TrgValFile);
    if(err){
      printf("ERROR: writing label file %s\n",TrgValFile);
      exit(1);
    }
    LabelFree(&label);
  }
  else{
    printf("Writing %s\n",TrgValFile);
    MRIwrite(TrgVal,TrgValFile);
  }
  
  printf("mris_apply_reg done\n");
  return 0;
}