vector<V3DLONG> landMarkList2poss(LandmarkList LandmarkList_input, V3DLONG _offset_Y, V3DLONG _offest_Z)
{
vector<V3DLONG> poss_result;
V3DLONG count_landmark=LandmarkList_input.count();
for (V3DLONG idx_input=0;idx_input<count_landmark;idx_input++)
{
poss_result.push_back(landMark2pos(LandmarkList_input.at(idx_input), _offset_Y, _offest_Z));
}
return poss_result;
}
void processImage(V3DPluginCallback2 &callback, QWidget *parent)
{
v3dhandle curwin = callback.currentImageWindow();
if (!curwin)
{
v3d_msg("You don't have any image open in the main window.");
return;
}
Image4DSimple* p4DImage = callback.getImage(curwin);
QString imgname = callback.getImageName(curwin);
if (!p4DImage)
{
v3d_msg("The image pointer is invalid. Ensure your data is valid and try again!");
return;
}
int tmpx,tmpy,tmpz,x1,y1,z1;
LandmarkList listLandmarks = callback.getLandmark(curwin);
LocationSimple tmpLocation(0,0,0);
int marknum = listLandmarks.count();
if(marknum ==0)
{
v3d_msg("No markers in the current image, please double check.");
return;
}
UndirectedGraph g(marknum);
for (int i=0;i<marknum;i++)
{
tmpLocation = listLandmarks.at(i);
tmpLocation.getCoord(tmpx,tmpy,tmpz);
x1 = tmpx;
y1 = tmpy;
z1 = tmpz;
for (int j=0;j<marknum;j++)
{
EdgeQuery edgeq = edge(i, j, *&g);
if (!edgeq.second && i!=j)
{
tmpLocation = listLandmarks.at(j);
tmpLocation.getCoord(tmpx,tmpy,tmpz);
double Vedge = sqrt(double(x1-tmpx)*double(x1-tmpx) + double(y1-tmpy)*double(y1-tmpy) + double(z1-tmpz)*double(z1-tmpz));
add_edge(i, j, LastVoted(i, Weight(Vedge)), *&g);
}
}
}
// property_map<UndirectedGraph, edge_weight_t>::type weightmap = get(edge_weight, *&g);
vector < graph_traits < UndirectedGraph >::vertex_descriptor > p(num_vertices(*&g));
prim_minimum_spanning_tree(*&g, &p[0]);
NeuronTree marker_MST;
QList <NeuronSWC> listNeuron;
QHash <int, int> hashNeuron;
listNeuron.clear();
hashNeuron.clear();
for (std::size_t i = 0; i != p.size(); ++i)
{
NeuronSWC S;
tmpLocation = listLandmarks.at(i);
tmpLocation.getCoord(tmpx,tmpy,tmpz);
int pn;
if(p[i] == i)
pn = -1;
else
pn = p[i] + 1;
S.n = i+1;
S.type = 7;
S.x = tmpx;
S.y = tmpy;
S.z = tmpz;
S.r = 1;
S.pn = pn;
listNeuron.append(S);
hashNeuron.insert(S.n, listNeuron.size()-1);
}
marker_MST.n = -1;
marker_MST.on = true;
marker_MST.listNeuron = listNeuron;
marker_MST.hashNeuron = hashNeuron;
/*
double** markEdge = new double*[marknum];
for(int i = 0; i < marknum; i++)
{
markEdge[i] = new double[marknum];
}
for (int i=0;i<marknum;i++)
{
tmpLocation = listLandmarks.at(i);
tmpLocation.getCoord(tmpx,tmpy,tmpz);
x1 = tmpx;
y1 = tmpy;
z1 = tmpz;
for (int j=0;j<marknum;j++)
{
tmpLocation = listLandmarks.at(j);
tmpLocation.getCoord(tmpx,tmpy,tmpz);
markEdge[i][j] = sqrt(double(x1-tmpx)*double(x1-tmpx) + double(y1-tmpy)*double(y1-tmpy) + double(z1-tmpz)*double(z1-tmpz));
}
}
//NeutronTree structure
NeuronTree marker_MST;
QList <NeuronSWC> listNeuron;
QHash <int, int> hashNeuron;
listNeuron.clear();
hashNeuron.clear();
//set node
NeuronSWC S;
tmpLocation = listLandmarks.at(0);
tmpLocation.getCoord(tmpx,tmpy,tmpz);
S.n = 1;
S.type = 7;
S.x = tmpx;
S.y = tmpy;
S.z = tmpz;
S.r = 1;
S.pn = -1;
listNeuron.append(S);
hashNeuron.insert(S.n, listNeuron.size()-1);
int* pi = new int[marknum];
for(int i = 0; i< marknum;i++)
pi[i] = 0;
pi[0] = 1;
int indexi,indexj;
for(int loop = 0; loop<marknum;loop++)
{
double min = INF;
for(int i = 0; i<marknum; i++)
{
if (pi[i] == 1)
{
for(int j = 0;j<marknum; j++)
{
if(pi[j] == 0 && min > markEdge[i][j])
{
min = markEdge[i][j];
indexi = i;
indexj = j;
}
}
}
}
if(indexi>=0)
{
tmpLocation = listLandmarks.at(indexj);
tmpLocation.getCoord(tmpx,tmpy,tmpz);
S.n = indexj+1;
S.type = 7;
S.x = tmpx;
S.y = tmpy;
S.z = tmpz;
S.r = 1;
S.pn = indexi+1;
listNeuron.append(S);
hashNeuron.insert(S.n, listNeuron.size()-1);
}else
{
break;
}
pi[indexj] = 1;
indexi = -1;
indexj = -1;
}
marker_MST.n = -1;
marker_MST.on = true;
marker_MST.listNeuron = listNeuron;
marker_MST.hashNeuron = hashNeuron;
*/
QString outfilename = imgname + "_boost_marker.swc";
if (outfilename.startsWith("http", Qt::CaseInsensitive))
{
QFileInfo ii(outfilename);
outfilename = QDir::home().absolutePath() + "/" + ii.fileName();
}
//v3d_msg(QString("The anticipated output file is [%1]").arg(outfilename));
writeSWC_file(outfilename,marker_MST);
v3d_msg(QString("You have totally [%1] markers for the file [%2] and the computed MST has been saved to the file [%3]").arg(marknum).arg(imgname).arg(outfilename));
return;
}
