hquant.c

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   mean[s] = CreateVector(&dStack,swidth[s]);
   SequenceMean(seq[s],mean[s]);
   if (trace&T_MEAN) {
      printf("Stream %d",s);
      ShowVector(" global mean:\n",mean[s],20);
   }
   switch(ck){
   case INVDIAGC: 
   case DIAGC: 
      cov[s].var = CreateVector(&dStack,swidth[s]);
      SequenceCov(seq[s],ck,cov[s],mean[s]);
      if(trace&T_MEAN) ShowVector("Global variance",cov[s].var,20);
      break;
   case FULLC: 
      cov[s].inv = CreateTriMat(&dStack,swidth[s]);
      SequenceCov(seq[s],ck,cov[s],mean[s]);
      if(trace&T_MEAN) ShowTriMat("Global covariance",cov[s].inv,20,20);
      break;
   case NULLC: 
   default:          
      cov[s].var = NULL;
      if(trace&T_MEAN) printf("Using Euclidean distance\n");      
      break;
   }
}

/* ClusterVecs: apply required clustering to vectors in stream s */
void ClusterVecs(Sequence *seq, int s)
{
   switch(tType) {
   case binTree:
      cs[s] = TreeCluster(&cStack,seq[s],cbSizes[s],ck,ck,cov[s]);
      break;
   
   case linTree:
      cs[s] = FlatCluster(&cStack,seq[s],cbSizes[s],ck,ck,cov[s]);
      break;
   
   default:
      HError(2590,"ClusterVecs: Unsupported tree type %d",tType);
   }
   if(trace&T_CLUST) ShowClusterSet(cs[s]);
}

/* ---------------- Procedures to construct a VQ table ------------ */

/* AddLinEntries: Construct linear VQ table from cluster set */
VQNode  AddLinEntries(ClusterSet *cs, int s)
{
   int i,rid;
   VQNode n = NULL, lastN = NULL;
   Cluster *c;
   
   for (i=1,c=cs->cl+1; i<=cs->numClust; i++,c++) {
      rid = (i==cs->numClust)?0:i+1;
      if( globClustVar )
         n = CreateVQNode(i,i,0,rid,c->vCtr,ck,cov[s]);
      else
         n = CreateVQNode(i,i,0,rid,c->vCtr,ck,c->cov);
      n->right = lastN;
      lastN = n;
   }  
   return(n);
}

/* AddBinEntries: Construct binary tree VQ table from cluster set */ 
VQNode AddBinEntries(ClusterSet *cs, short nid, int s)
{
   Cluster *c;
   VQNode n;
   Covariance* cptr;

   /* parent is leaf node so end recursion */
   if(nid > cs->numClust) return(NULL);

   /* Create this node */
   c = cs->cl + nid;    /* cluster corresponding to this node */

   if( globClustVar )   /* Output global covariance */
      cptr = &(cov[s]);
   else
      cptr = &(c->cov);

   if (nid > cs->numClust/2)    /* if a leaf node */
      n = CreateVQNode(nid-(cs->numClust/2),nid,0,0,c->vCtr,ck,*cptr);
   else
      n = CreateVQNode(0,nid,2*nid,2*nid + 1,c->vCtr,ck,*cptr);

   /* tree-structured clusters stored as follows:
      1
      2   3
      4   5 6  7
      . . . . . . . .
      so lid = 2*nid, rid = 2*nid+1, leaves have nid > numClust/2 */

   /* recursively create  children */
   n->left  = AddBinEntries(cs, 2*nid, s);
   n->right = AddBinEntries(cs, 2*nid+1, s);
   return(n);
}

/* WriteVQTable: Create VQ table in memory then write to file */
void WriteVQTable(ClusterSet *cs[], char *fn)
{
   int s;
   VQTable vq;

   vq = CreateVQTab(fn,(short)info.tgtPK,tType,ck,swidth);
   for (s=1;s<=swidth[0];s++){
      if (cs[s]->isTree)
         vq->tree[s] = AddBinEntries(cs[s],1,s);
      else
         vq->tree[s] = AddLinEntries(cs[s],s);
      if (trace&T_TOP) printf("[%d] ",cs[s]->numClust);
   }
   StoreVQTab(vq,fn);
   if (trace&T_TOP) printf("entries -> %s\n",fn);
   if(trace & T_TAB) PrintVQTab(vq);
}


/* ------------------------ Initialisation ----------------------- */

/* CheckStreamWidths: check that user-specified stream widths make sense */
void CheckStreamWidths(BufferInfo info)
{
   int s, sum = 0;

   for(s=1; s<=swidth[0];s++){
      if(swidth[s] > info.tgtVecSize)
         HError(2530,"CheckStreamWidths: Specified stream %d width [%d] is wider than data [%d]",
                s,swidth[s], info.tgtVecSize);
      if(widthSet && swidth[s] == 0 )
         HError(2530,"CheckStreamWidths: Width for stream %d must be specified",s);
      sum += swidth[s];
   }

   if(sum > info.tgtVecSize)
      HError(2530,"CheckStreamWidths: Specified stream widths are wider than data [%d]",
             info.tgtVecSize);

   for(; s<SMAX; s++) {
      if(cbSizes[s] != DEF_NCLUST)
         HError(-2530,"CheckStreamWidths: Codebook size set for non-existent stream %d",s);
   }
}

/* Initialise: set up global data storage */
void Initialise(char *datafn)
{
   ParmBuf pbuf;
   int s;
   Boolean eSep;

   CreateHeap(&iStack,"inBuf",     MSTAK, 1, 0.5, 100000, LONG_MAX);
   CreateHeap(&dStack,"seqStack",  MSTAK, 1, 0.5, 100000, LONG_MAX);
   CreateHeap(&cStack,"clustStack",MSTAK, 1, 0.5, 100000, LONG_MAX);

   /* Peek at first data file to get observation format */
   if((pbuf = OpenBuffer(&iStack, datafn, 0, UNDEFF, FALSE_dup, FALSE_dup))==NULL)
      HError(2550,"Initialise: Config parameters invalid");
   GetBufferInfo(pbuf, &info);
   CloseBuffer(pbuf);
   ResetHeap(&iStack);

   /* set/validate stream widths */
   if(swidth[0] > 0)
      CheckStreamWidths(info);
   else
      ZeroStreamWidths(1,swidth);

   /* Create an observation to hold the input parameters */
   SetStreamWidths(info.tgtPK,info.tgtVecSize,swidth,&eSep);
   obs = MakeObservation(&gstack,swidth,info.tgtPK,FALSE,eSep);

   if (segLab != NULL)
      segId = GetLabId(segLab,TRUE);

   /* Create sequences to hold all data*/
   for (s=1;s<=swidth[0];s++)
      dSeq[s] = CreateSequence(&dStack,4096);
}

/* ------------------------- Load Data  ----------------------------- */

/* CheckData: check data file consistent with already loaded data */
void CheckData(char *fn, BufferInfo newInfo) 
{
   if (newInfo.tgtVecSize!=info.tgtVecSize)
      HError(2531,"CheckData: Wrong vector size in %s [%d], should be [%d]",
             fn,newInfo.tgtVecSize,info.tgtVecSize);
   if (newInfo.tgtPK != info.tgtPK)
      HError(2531,"CheckData: Parm kind of %s differs from data already read",fn);
}

/* LoadFile: load whole file or segments and accumulate variance */
void LoadFile(char *fn)
{
   ParmBuf pbuf;
   BufferInfo info;
   char labfn[80];
   Transcription *trans;
   long segStIdx,segEnIdx;  
   int i,s,j,ncas,nObs=0;
   LLink p;

   if (segId == NULL)  {   /* load whole parameter file */
      if((pbuf=OpenBuffer(&iStack, fn, 0, dff, FALSE_dup, FALSE_dup))==NULL)
         HError(2550,"LoadFile: Config parameters invalid");
      GetBufferInfo(pbuf,&info);
      CheckData(fn,info);
      nObs = ObsInBuffer(pbuf);
      
      for (i=0; i<nObs; i++) {
         for(s=1;s<=swidth[0];s++)
            obs.fv[s] = CreateVector(&dStack,swidth[s]);
         ReadAsTable(pbuf,i,&obs);
         for(s=1;s<=swidth[0];s++)
            StoreItem(dSeq[s],(Ptr)obs.fv[s]);
      }
      CloseBuffer(pbuf);
   }
   else { /* load segment of parameter file */
      MakeFN(fn,labDir,labExt,labfn);
      trans = LOpen(&iStack,labfn,lff);
      ncas = NumCases(trans->head,segId);
      if ( ncas > 0) {
         if((pbuf=OpenBuffer(&iStack, fn, 0, dff, FALSE_dup, FALSE_dup))==NULL)
            HError(2550,"LoadFile: Config parameters invalid");
         GetBufferInfo(pbuf,&info);
         CheckData(fn,info);
         for (i=1,nObs=0; i<=ncas; i++) {
            p = GetCase(trans->head,segId,i);
            segStIdx= (long) (p->start/info.tgtSampRate);
            segEnIdx  = (long) (p->end/info.tgtSampRate);
            if (trace&T_SEGS)
               printf(" loading seg %s [%ld->%ld]\n",
                      segId->name,segStIdx,segEnIdx);
            if (segEnIdx >= ObsInBuffer(pbuf))
               segEnIdx = ObsInBuffer(pbuf)-1;
            if (segEnIdx >= segStIdx) {
               for (j=segStIdx;j<=segEnIdx;j++) {
                  /* SJY: The HInit code I copied this from had no */
                  /* SJY: CreateVector call here -- a bug? */
                  for(s=1;s<=swidth[0];s++)
                     obs.fv[s] = CreateVector(&dStack,swidth[s]);
                  ReadAsTable(pbuf,j,&obs);
                  for(s=1;s<=swidth[0];s++)
                     StoreItem(dSeq[s],(Ptr)obs.fv[s]);
                  ++nObs;
               }
            }
         }        
         CloseBuffer(pbuf);
      }  
   }
   ResetHeap(&iStack);
   if (trace&T_LOAD) {
      printf(" %5d obs loaded from %s, streams: ",nObs,fn);
      for(s=1;s<=swidth[0];s++) printf("[%d]" ,swidth[s]);
      printf("\n"); fflush(stdout);
   }        
}

/* ----------------------------------------------------------- */
/*                      END:  HQuant.c                         */
/* ----------------------------------------------------------- */