string ImgOverlay::extractPlane(spGframe_t gf, spDataInfo_t overlayData) {
if(overlayData == (spDataInfo_t)NULL) return "";
spViewInfo_t view = gf->getFirstView();
if(view == nullView) return "";
// get baseData
spImgInfo_t img = view->imgInfo;
if(img == nullImg) return "";
spDataInfo_t baseData = img->getDataInfo();
// determin size for overlay plane
int bfast = baseData->getFast();
int bmedium = baseData->getMedium();
int ofast = overlayData->getFast();
int omedium = overlayData->getMedium();
double blpe,olpe,blro,olro;
DDLSymbolTable *bst = baseData->st;
DDLSymbolTable *ost = overlayData->st;
if(!bst || !ost) return "";
bst->GetValue("roi",blpe, 0);
bst->GetValue("roi",blro, 1);
ost->GetValue("roi",olpe, 0);
ost->GetValue("roi",olro, 1);
int nfast = (int)(blpe*ofast/olpe);
int nmedium = (int)(blro*omedium/olro);
double scalex = (blpe*ofast)/(olpe*bfast);
double scaley = (blro*omedium)/(olro*bmedium);
// new data struct for extracted plane
// The only difference from baseData is ds2d->data, and data size nfast, nmedium.
dataStruct_t *ds2d = new dataStruct_t;
if(!ds2d) {
return "";
}
memcpy(ds2d, baseData->dataStruct, sizeof(*ds2d));
ds2d->data = NULL;
ds2d->auxparms = NULL;
float *buf = new float[nfast*nmedium];
if(buf == NULL)
{
delete ds2d;
Winfoprintf("VolData: allocate memory returned NULL pointer.");
return "";
}
int np = rebinOverlayData(gf, overlayData, nfast,nmedium, scalex, scaley, buf,false);
if(np<1) {
delete[] buf;
delete ds2d;
return "";
}
DDLSymbolTable *st = (DDLSymbolTable *)baseData->st->CloneList(false);
DDLSymbolTable *st2 = new DDLSymbolTable();
// New 2D datainfo
spDataInfo_t datainfo = spDataInfo_t(new DataInfo(ds2d, st, st2));
if(datainfo == (spDataInfo_t)NULL)
{
delete ds2d;
delete st2;
Winfoprintf("VolData: allocate memory returned NULL pointer.");
return "";
}
datainfo->st->SetData((float *)buf, sizeof(float) * nfast * nmedium);
delete[] buf;
// update header
char floatStr[16];
strcpy(floatStr, "float");
datainfo->st->SetValue("rank", 2);
datainfo->st->SetValue("bits", 32);
datainfo->st->SetValue("storage", floatStr);
datainfo->st->SetValue("matrix", nfast, 0);
datainfo->st->SetValue("matrix", nmedium, 1);
string newpath = overlayData->getFilepath()+string("_")+baseData->getShortName();
datainfo->st->SetValue("filename", newpath.c_str());
DataManager *dm = DataManager::get();
string key = dm->loadFile(newpath.c_str(), datainfo->st, datainfo->st2);
//Winfoprintf("-----key %s",key.c_str());
//ReviewQueue::get()->addImagePlane(dataInfo, key);
datainfo->st = NULL;
return key;
}
// calc centers for intersecting voxels
// center is in pixel, use baseImage's pixToData to convert to data pix.
// scale data pix to resolution of overlay image.
int ImgOverlay::rebinOverlayData(spGframe_t gf, spDataInfo_t overlayData, int nfast, int nmedium, double scalex, double scaley, float *buf, bool drawIntersect) {
if(overlayData == (spDataInfo_t)NULL) return 0;
spViewInfo_t fview = gf->getFirstView();
if(fview == nullView) return 0;
float *data = (float *)overlayData->getData();
if(!data) return 0;
iplan_view *view = (iplan_view *)malloc(sizeof(iplan_view));
iplan_stack *stack = (iplan_stack *)malloc(sizeof(iplan_stack));
getIBview(view, gf->id);
string dpath = overlayData->getFilepath();
dpath = dpath.substr(0,dpath.find_last_of("/"))+"/procpar";
string tpath = getCurexpdir()+"/curpar";
P_save(CURRENT,(char *)tpath.c_str());
P_read(CURRENT,(char *)dpath.c_str());
getStack(stack, VOLUME);
P_read(CURRENT,(char *)tpath.c_str());
float orig[3],voxsize[3],p1[3];
int ny = overlayData->getFast();
int nx = overlayData->getMedium();
int nz = overlayData->getSlow();
voxsize[0] = (stack->lpe)/nx;
voxsize[1] = (stack->lro)/ny;
voxsize[2] = (stack->lpe2)/nz;
orig[0] = - 0.5*(stack->lpe+voxsize[0]);
orig[1] = - 0.5*(stack->lro+voxsize[1]);
orig[2] = - 0.5*(stack->lpe2+voxsize[2]);
//float viewThk = 0.5*(view->slice.thk)*(view->pixelsPerCm);
float viewThk = getReal("aipOverlayThk",2, 1.5)*0.5*voxsize[2]*(view->pixelsPerCm);
int ix,iy;
double dx,dy;
int i,j,k, count=0;
for(i=0; i<nfast*nmedium; i++) buf[i] = (float)0.0;
int maxx=0, maxy=0, minx=nfast, miny=nmedium;
for(k=0;k<nz;k++)
for(j=0;j<ny;j++)
for(i=0;i<nx;i++) {
// p1 is the upper left corner of a 3d voxel
// p2 is the diagnal corner of p1
// Note, p1[0] and p2[0] are swapped
p1[0] = orig[0] + i*voxsize[0];
p1[1] = orig[1] + j*voxsize[1];
p1[2] = orig[2] + k*(voxsize[2]);
// transform p1, p2 to pixel space (base image space)
transform(stack->u2m, p1);
transform(view->m2p, p1);
if(!(p1[2]>viewThk) && !(p1[2]< -viewThk)) {
// vox intersects with base image
fview->pixToData(p1[0],aip_mnumypnts - p1[1] - 1,dx,dy);
ix = (int)(dx*scalex);
iy = (int)(dy*scaley);
if(ix >=0 && ix < nfast && iy >= 0 && iy < nmedium) {
int ind = csi_getInd(ny-1-j,i,k,ny,nx,nz);
if((data+ind))
buf[ix+iy*nfast] = data[ind];
// buf[ix+iy*nfast] = *(data+ind);
if(drawIntersect) {
Dpoint_t polygon[2];
polygon[0].x = polygon[1].x = p1[0];
polygon[0].y = polygon[1].y = aip_mnumypnts - p1[1] - 1;
GraphicsWin::drawPolyline(polygon, 2, 4);
}
if(ix<minx) minx=ix;
if(iy<miny) miny=iy;
if(ix>maxx) maxx=ix;
if(iy>maxy) maxy=iy;
count++;
}
}
}
//Winfoprintf("###%d",count);
free(view);
free(stack);
// smooth data
// if a data point is missing, use average of its neighboring points
int ind,ind2,n;
float f;
for(j=1; j<maxy-1; j++) {
for(i=1; i<maxx-1; i++) {
ind=i+j*nfast;
if(buf[ind] == 0.0) {
n=0;
f=0.0;
for(iy=j-1; iy<j+1; iy++) {
for(ix=i-1; ix<i+1; ix++) {
ind2=ix+iy*nfast;
if(buf[ind2] != 0.0) {
f+=buf[ind2];
n++;
}
}
}
if(n>1) buf[ind]=f/n;
}
}
}
return count;
}