//void startVesselTracing ( V3DPluginCallback2 &v3d, QWidget *parent )
void startVesselTracing(V3DPluginCallback2 &v3d,int xflag,int yflag,int zflag,int xbegin, int xend,int xdis,int ybegin,int yend,int ydis,int zbegin,int zend,int zdis,QString swcfile,int slipsize,int pruning_flag,int c)
{
v3dhandle curwin = v3d.currentImageWindow();
if (!curwin)
{
v3d_msg("You don't have any image open in the main window.");
return;
}
//ensure the 3d viewer window is open; if not, then open it
// v3d.open3DWindow(curwin);
// get land mark list
LandmarkList seedList = v3d.getLandmark(curwin);
Image4DSimple* oldimg = v3d.getImage(curwin);
unsigned char* data1d = oldimg->getRawDataAtChannel(c-1);
ImagePixelType pixeltype = oldimg->getDatatype();
V3DLONG pagesz = oldimg->getTotalUnitNumberPerChannel();
unsigned char *output_image=0;
switch (pixeltype)
{
case V3D_UINT8:
try {output_image = new unsigned char [pagesz];}
catch(...) {v3d_msg("cannot allocate memory for output_image."); return;}
for(V3DLONG i = 0; i<pagesz; i++)
output_image[i] = data1d[i];
break;
default: v3d_msg("Invalid data type. Do nothing."); return;
}
V3DLONG in_sz[4];
in_sz[0] = oldimg->getXDim(); in_sz[1] = oldimg->getYDim(); in_sz[2] = oldimg->getZDim();in_sz[3] = 1;
// simple_saveimage_wrapper(v3d, "temp.v3draw", (unsigned char *)output_image, in_sz, pixeltype);
MOSTImage img;
// set data
img.setData( (unsigned char*)output_image, oldimg->getXDim(),oldimg->getYDim(),oldimg->getZDim(),oldimg->getCDim(),oldimg->getDatatype());
if ( seedList.isEmpty() )
{
QTime qtime_seed;
qtime_seed.start();
//img.auto_detect_seedz(seedList,img.getZDim()/2);
if(xflag)
{
for(int i =xbegin;i<=xend;i+=xdis)
img.auto_detect_seedx(seedList,i,InitThreshold,seed_size_all);
// img.auto_detect_seedx(seedList,xend);
}
if(yflag)
{
for(int i =ybegin;i<=yend;i+=ydis)
img.auto_detect_seedy(seedList,i,InitThreshold,seed_size_all);
// img.auto_detect_seedy(seedList,yend);
}
if(zflag)
{
for(int i =zbegin;i<=zend;i+=zdis)
img.auto_detect_seedz(seedList,i,InitThreshold,seed_size_all);
//img.auto_detect_seedz(seedList,zend);
}
qDebug(" cost time seed = %g sec", qtime_seed.elapsed()*0.001);
}
// clear visited, only excute once
static long init_flag = 0;
/* if ( init_flag <= 0 )
{
visited.fill( false, oldimg->getTotalUnitNumber());
init_flag ++;
}*/
for(init_flag = 0;init_flag<oldimg->getTotalUnitNumber();init_flag++)
{
visited.push_back(false);
}
// converte the formate
NeuronTree vt;
QTime qtime;
qtime.start();
vt = img.trace_seed_list(seedList, visited,InitThreshold,res_x_all,res_y_all,res_z_all,swcfile,slipsize,pruning_flag);
qDebug(" cost time totol= %g sec", qtime.elapsed()*0.001);
v3d_msg(QString("Now you can drag and drop the generated swc fle [%1] into Vaa3D.").arg(swcfile),1);
// NeuronTree vt_old = v3d.getSWC(curwin);
// visualization
// v3d.setLandmark(curwin, seedList);
// v3d.setSWC(curwin,vt);
// v3d.pushObjectIn3DWindow(curwin);
// v3d.updateImageWindow(curwin);
//img.~MOSTImage();
}
bool findedgeimg(V3DPluginCallback2 &callback, const V3DPluginArgList & input, V3DPluginArgList & output)
{
cout<<"Welcome to Label edge of a mask image"<<endl;
if (output.size() != 1) return false;
int method_code = 0;
if (input.size()>=2)
{
vector<char*> paras = (*(vector<char*> *)(input.at(1).p));
if(paras.size() >= 1) method_code = atoi(paras.at(0));
}
char * inimg_file = ((vector<char*> *)(input.at(0).p))->at(0);
char * outimg_file = ((vector<char*> *)(output.at(0).p))->at(0);
cout<<"method_code = "<<method_code<<endl;
cout<<"inimg_file = "<<inimg_file<<endl;
cout<<"outimg_file = "<<outimg_file<<endl;
Image4DSimple *image = callback.loadImage(inimg_file);
if (!image || !image->valid())
{
cerr<<"load image "<<inimg_file<<" error!"<<endl;
return false;
}
V3DLONG szx=image->getXDim(),
szy=image->getYDim(),
szz=image->getZDim(),
szc=image->getCDim();
V3DLONG N = image->getTotalUnitNumber();
//create the output buffer
unsigned char *outputData = 0;
try
{
outputData = new unsigned char [N];
for (V3DLONG tmpi=0; tmpi<N; ++tmpi) outputData[tmpi] = 0; //preset to be all 0
}
catch (...)
{
v3d_msg("Fail to allocate memory.");
if (outputData) {
delete []outputData;
outputData=0;
}
return false;
}
Image4DSimple outputImage;
outputImage.setData((unsigned char*)outputData, szx, szy, szz, szc, V3D_UINT8);
Image4DProxy<Image4DSimple> outputIProxy(&outputImage);
//now do computation
{
bool bset255 = (method_code==0) ? false : true;
Image4DProxy<Image4DSimple> p(image);
Image4DProxy_foreach(p, ix, iy, iz, ic)
{
double v = p.value_at(ix, iy, iz, ic);
V3DLONG cx, cy, cz;
bool bb=false;
for (cz = iz-1; cz<iz+2; ++cz)
{
for (cy = iy-1; cy<iy+2; ++cy)
{
for (cx = ix-1; cx<ix+2; ++cx)
{
if (!p.is_inner(cx, cy, cz, ic))
continue;
if (v!=p.value_at(cx, cy, cz, ic))
{
*outputIProxy.at(ix, iy, iz, ic) = (bset255) ? 255 : v;
bb = true;
break;
}
}
if (bb) break;
}
if (bb) break;
}
//note that all value had been preset as 0, thus no need to set as the background color in case not an edge point
}
}
