X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=vv%2FvvLandmarks.cxx;h=d44c3be86f13e904e53e09429d2d00eb7e9c4372;hb=acdc20ec4afc95db1db29bf8d885a3b72c9c7ee0;hp=1503ae379f3c120325c344b660beb71bba76e1bc;hpb=934a64f5b51382ad6bbc78d9c8734691e599cf09;p=clitk.git
diff --git a/vv/vvLandmarks.cxx b/vv/vvLandmarks.cxx
index 1503ae3..d44c3be 100644
--- a/vv/vvLandmarks.cxx
+++ b/vv/vvLandmarks.cxx
@@ -1,26 +1,20 @@
/*=========================================================================
+ Program: vv http://www.creatis.insa-lyon.fr/rio/vv
- Program: vv
- Language: C++
- Author : Pierre Seroul (pierre.seroul@gmail.com)
+ Authors belong to:
+ - University of LYON http://www.universite-lyon.fr/
+ - Léon Bérard cancer center http://www.centreleonberard.fr
+ - CREATIS CNRS laboratory http://www.creatis.insa-lyon.fr
-Copyright (C) 2008
-Léon Bérard cancer center http://oncora1.lyon.fnclcc.fr
-CREATIS-LRMN http://www.creatis.insa-lyon.fr
+ This software is distributed WITHOUT ANY WARRANTY; without even
+ the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ PURPOSE. See the copyright notices for more information.
-This program is free software: you can redistribute it and/or modify
-it under the terms of the GNU General Public License as published by
-the Free Software Foundation, version 3 of the License.
+ It is distributed under dual licence
-This program is distributed in the hope that it will be useful,
-but WITHOUT ANY WARRANTY; without even the implied warranty of
-MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
-GNU General Public License for more details.
-
-You should have received a copy of the GNU General Public License
-along with this program. If not, see .
-
-=========================================================================*/
+ - BSD See included LICENSE.txt file
+ - CeCILL-B http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+ ===========================================================================**/
#include "vvLandmarks.h"
#include
@@ -35,248 +29,276 @@ along with this program. If not, see .
#include "vtkPointData.h"
#include "clitkCommon.h"
+//--------------------------------------------------------------------
vvLandmarks::vvLandmarks(int size)
{
- mLandmarks.resize(0);
- mFilename = "";
+ mLandmarks.resize(0);
+ mFilename = "";
- for (int i = 0; i < size; i++)
- {
- vtkPoints *points = vtkPoints::New();
- mPoints.push_back(points);
- }
- mPolyData = vtkPolyData::New();
- mIds = vtkFloatArray::New();
+ for (int i = 0; i < size; i++) {
+ vtkPoints *points = vtkPoints::New();
+ mPoints.push_back(points);
+ }
+ mPolyData = vtkPolyData::New();
+ mIds = vtkFloatArray::New();
}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
vvLandmarks::~vvLandmarks()
{
- for (unsigned int i = 0; i < mPoints.size(); i++) {
- mPoints[i]->Delete();
- }
- /*for(unsigned int i = 0; i < mText.size(); i++) {
- mText[i]->Delete();
- }*/
- if (mIds)
- mIds->Delete();
- if (mPolyData)
- mPolyData->Delete();
+ for (unsigned int i = 0; i < mPoints.size(); i++) {
+ mPoints[i]->Delete();
+ }
+ /*for(unsigned int i = 0; i < mText.size(); i++) {
+ mText[i]->Delete();
+ }*/
+ if (mIds)
+ mIds->Delete();
+ if (mPolyData)
+ mPolyData->Delete();
}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
void vvLandmarks::AddLandmark(float x,float y,float z,float t,double value)
{
- vvLandmark point;
- point.coordinates[0] = x;
- point.coordinates[1] = y;
- point.coordinates[2] = z;
- point.coordinates[3] = t;
- point.pixel_value=value;
- mLandmarks.push_back(point);
- mPoints[int(t)]->InsertNextPoint(x,y,z);
-
- /*std::stringstream numberVal;
- numberVal << (mLandmarks.size()-1);
- vvLandmarksGlyph *number = vvLandmarksGlyph::New();
- number->SetText(numberVal.str().c_str());
- number->BackingOff();
- mText.push_back(number);*/
- mIds->InsertNextTuple1(0.55);
- //mIds->InsertTuple1(mLandmarks.size(),mLandmarks.size());
- SetTime(int(t));
+ vvLandmark point;
+ point.coordinates[0] = x;
+ point.coordinates[1] = y;
+ point.coordinates[2] = z;
+ point.coordinates[3] = t;
+ point.pixel_value=value;
+ mLandmarks.push_back(point);
+ mPoints[int(t)]->InsertNextPoint(x,y,z);
+
+ std::stringstream numberVal;
+ numberVal << (mLandmarks.size()-1);
+ /*
+ vvLandmarksGlyph *number = vvLandmarksGlyph::New();
+ number->SetText(numberVal.str().c_str());
+ number->BackingOff();
+ DD(numberVal.str().c_str());
+ mText.push_back(number);
+ */
+
+ mIds->InsertNextTuple1(0.55);
+ //mIds->InsertTuple1(mLandmarks.size(),mLandmarks.size());
+ SetTime(int(t));
}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
void vvLandmarks::RemoveLastLandmark()
{
- mPoints[mLandmarks.back().coordinates[3]]->SetNumberOfPoints(
- mPoints[mLandmarks.back().coordinates[3]]->GetNumberOfPoints()-1);
- mPolyData->Modified();
- //mText.pop_back();
- mLandmarks.pop_back();
- mIds->RemoveLastTuple();
+ mPoints[mLandmarks.back().coordinates[3]]->SetNumberOfPoints(
+ mPoints[mLandmarks.back().coordinates[3]]->GetNumberOfPoints()-1);
+ mPolyData->Modified();
+ // mText.pop_back();
+ mLandmarks.pop_back();
+ mIds->RemoveLastTuple();
}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
void vvLandmarks::ChangeComments(int index, std::string comments)
{
- mLandmarks[index].comments = comments;
+ mLandmarks[index].comments = comments;
}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
double vvLandmarks::GetPixelValue(int index)
{
- return mLandmarks[index].pixel_value;
+ return mLandmarks[index].pixel_value;
}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
float* vvLandmarks::GetCoordinates(int index)
{
- return mLandmarks[index].coordinates;
+ return mLandmarks[index].coordinates;
}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
std::string vvLandmarks::GetComments(int index)
{
- return mLandmarks[index].comments;
+ return mLandmarks[index].comments;
}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
void vvLandmarks::LoadFile(std::string filename)
{
- std::ifstream fp(filename.c_str(), std::ios::in|std::ios::binary);
- if (!fp.is_open())
- {
- std::cerr <<"Unable to open file " << filename << std::endl;
- return;
+ std::ifstream fp(filename.c_str(), std::ios::in|std::ios::binary);
+ if (!fp.is_open()) {
+ std::cerr <<"Unable to open file " << filename << std::endl;
+ return;
+ }
+ mFilename = filename;
+ mLandmarks.clear();
+ char line[255];
+ for (unsigned int i = 0; i < mPoints.size(); i++)
+ mPoints[i]->SetNumberOfPoints(0);
+ bool first_line=true;
+ while (fp.getline(line,255)) {
+ // DD(line);
+ std::string stringline = line;
+ if (first_line) {
+ first_line=false;
+ ///New landmark format: first line is "LANDMARKSXX", where XX is the version number
+ if (stringline.size() >= 10 && stringline.compare(0,9,"LANDMARKS")==0) {
+ std::istringstream ss(stringline.c_str()+9);
+ ss >> mFormatVersion;
+ continue; //skip first line
+ } else
+ mFormatVersion=0;
}
- mFilename = filename;
- mLandmarks.clear();
- char line[255];
- for (unsigned int i = 0; i < mPoints.size();i++)
- mPoints[i]->SetNumberOfPoints(0);
- bool first_line=true;
- while (fp.getline(line,255))
- {
- std::string stringline = line;
- if (first_line)
- {
- first_line=false;
- ///New landmark format: first line is "LANDMARKSXX", where XX is the version number
- if (stringline.size() >= 10 && stringline.compare(0,9,"LANDMARKS")==0)
- {
- std::istringstream ss(stringline.c_str()+9);
- ss >> mFormatVersion;
- continue; //skip first line
- }
- else
- mFormatVersion=0;
+ if (stringline.size() > 1) {
+ vvLandmark point;
+ int previousSpace = 0;
+ int space=0;
+ if (mFormatVersion>0) {
+ space = stringline.find(" ", previousSpace+1);
+ if (space < -1 || space > (int)stringline.size()) {
+ ErrorMsg(mLandmarks.size(),"index");
+ continue;
+ }
+ //int index = atoi(stringline.substr(previousSpace,space - previousSpace).c_str());
+ previousSpace = space;
+ }
+ space = stringline.find(" ", previousSpace+1);
+ if (space < -1 || space > (int)stringline.size()) {
+ ErrorMsg(mLandmarks.size(),"x position");
+ continue;
+ }
+ point.coordinates[0] = atof(replace_dots(stringline.substr(previousSpace,space - previousSpace)).c_str());
+ // DD(point.coordinates[0]);
+ previousSpace = space;
+ space = stringline.find(" ", previousSpace+1);
+ if (space < -1 || space > (int)stringline.size()) {
+ ErrorMsg(mLandmarks.size(),"y position");
+ continue;
+ }
+ point.coordinates[1] = atof(replace_dots(stringline.substr(previousSpace,space - previousSpace)).c_str());
+ // DD(point.coordinates[1]);
+ previousSpace = space;
+ space = stringline.find(" ", previousSpace+1);
+ if (space < -1 || space > (int)stringline.size()) {
+ ErrorMsg(mLandmarks.size(),"z position");
+ continue;
+ }
+ point.coordinates[2] = atof(replace_dots(stringline.substr(previousSpace,space - previousSpace)).c_str());
+ previousSpace = space;
+ if (mFormatVersion>0) {
+ space = stringline.find(" ", previousSpace+1);
+ if (space < -1 || space > (int)stringline.size()) {
+ ErrorMsg(mLandmarks.size(),"t position");
+ continue;
}
- DD(mFormatVersion);
- if (stringline.size() > 1)
- {
- vvLandmark point;
- int previousSpace = 0;
- int space=0;
- if (mFormatVersion>0)
- {
- space = stringline.find(" ", previousSpace+1);
- if (space < -1 || space > (int)stringline.size())
- {
- ErrorMsg(mLandmarks.size(),"index");
- continue;
- }
- //int index = atoi(stringline.substr(previousSpace,space - previousSpace).c_str());
- previousSpace = space;
- }
- space = stringline.find(" ", previousSpace+1);
- if (space < -1 || space > (int)stringline.size())
- {
- ErrorMsg(mLandmarks.size(),"x position");
- continue;
- }
- point.coordinates[0] = atof(replace_dots(stringline.substr(previousSpace,space - previousSpace)).c_str());
- previousSpace = space;
- space = stringline.find(" ", previousSpace+1);
- if (space < -1 || space > (int)stringline.size())
- {
- ErrorMsg(mLandmarks.size(),"y position");
- continue;
- }
- point.coordinates[1] = atof(replace_dots(stringline.substr(previousSpace,space - previousSpace)).c_str());
- previousSpace = space;
- space = stringline.find(" ", previousSpace+1);
- if (space < -1 || space > (int)stringline.size())
- {
- ErrorMsg(mLandmarks.size(),"z position");
- continue;
- }
- point.coordinates[2] = atof(replace_dots(stringline.substr(previousSpace,space - previousSpace)).c_str());
- previousSpace = space;
- if (mFormatVersion>0)
- {
- space = stringline.find(" ", previousSpace+1);
- if (space < -1 || space > (int)stringline.size())
- {
- ErrorMsg(mLandmarks.size(),"t position");
- continue;
- }
- point.coordinates[3] = atof(replace_dots(stringline.substr(previousSpace,space - previousSpace)).c_str());
- previousSpace = space;
- space = stringline.find(" ", previousSpace+1);
- if (space < -1 || space > (int)stringline.size())
- {
- ErrorMsg(mLandmarks.size(),"pixel value");
- continue;
- }
- point.pixel_value = atof(replace_dots(stringline.substr(previousSpace,space - previousSpace)).c_str());
- }
- else
- {
- point.pixel_value=0.; //Not in file
- point.coordinates[3]=0.;
- }
- previousSpace = space;
- //this is the maximum size of comments
- space = (stringline.find("\n", previousSpace+1) < 254 ? stringline.find("\n", previousSpace+1) : 254);
- point.comments = stringline.substr(previousSpace,space - (previousSpace)).c_str();
- mLandmarks.push_back(point);
- mIds->InsertNextTuple1(0.55);
- mPoints[int(point.coordinates[3])]->InsertNextPoint(
- point.coordinates[0],point.coordinates[1],point.coordinates[2]);
+ point.coordinates[3] = atof(replace_dots(stringline.substr(previousSpace,space - previousSpace)).c_str());
+ previousSpace = space;
+ space = stringline.find(" ", previousSpace+1);
+ if (space < -1 || space > (int)stringline.size()) {
+ ErrorMsg(mLandmarks.size(),"pixel value");
+ continue;
}
+ point.pixel_value = atof(replace_dots(stringline.substr(previousSpace,space - previousSpace)).c_str());
+ // DD(point.pixel_value);
+ } else {
+ point.pixel_value=0.; //Not in file
+ point.coordinates[3]=0.;
+ }
+ previousSpace = space;
+ //this is the maximum size of comments
+ space = (stringline.find("\n", previousSpace+1) < 254 ? stringline.find("\n", previousSpace+1) : 254);
+ if (previousSpace != -1) {
+ point.comments = stringline.substr(previousSpace,space - (previousSpace)).c_str();
+ }
+ // DD(point.comments);
+ mLandmarks.push_back(point);
+ mIds->InsertNextTuple1(0.55);
+ mPoints[int(point.coordinates[3])]->InsertNextPoint(
+ point.coordinates[0],point.coordinates[1],point.coordinates[2]);
}
- SetTime(0);
+ }
+ SetTime(0);
}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
bool vvLandmarks::ErrorMsg(int num,const char * text)
{
- std::cerr << "error when loading point " << num << " at " << text << std::endl;
- return false;
+ std::cerr << "error when loading point " << num << " at " << text << std::endl;
+ return false;
}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
void vvLandmarks::SaveFile(std::string filename)
{
- std::string fileContent = "LANDMARKS1\n"; //File format version identification
- for (unsigned int i = 0; i < mLandmarks.size(); i++) {
- std::stringstream out;
- out.imbue(std::locale("C")); //This is to specify that the dot is to be used as the decimal separator
- out << i << " "
- << mLandmarks[i].coordinates[0] << " "
- << mLandmarks[i].coordinates[1] << " "
- << mLandmarks[i].coordinates[2] << " "
- << mLandmarks[i].coordinates[3] << " "
- << mLandmarks[i].pixel_value << " ";
- fileContent += out.str();
- if (mLandmarks[i].comments.size() == 0)
- fileContent += " ";
- else
- fileContent += mLandmarks[i].comments;
- fileContent += "\n";
- }
- std::ofstream fp(filename.c_str(), std::ios::trunc);
- if ( !fp )
- {
- std::cerr << "Unable to open file" << std::endl;
- return;
- }
- fp << fileContent.c_str()<< std::endl;
- fp.close();
+ std::string fileContent = "LANDMARKS1\n"; //File format version identification
+ for (unsigned int i = 0; i < mLandmarks.size(); i++) {
+ std::stringstream out;
+ out.imbue(std::locale("C")); //This is to specify that the dot is to be used as the decimal separator
+ out << i << " "
+ << mLandmarks[i].coordinates[0] << " "
+ << mLandmarks[i].coordinates[1] << " "
+ << mLandmarks[i].coordinates[2] << " "
+ << mLandmarks[i].coordinates[3] << " "
+ << mLandmarks[i].pixel_value << " ";
+ fileContent += out.str();
+ if (mLandmarks[i].comments.size() == 0)
+ fileContent += " ";
+ else
+ fileContent += mLandmarks[i].comments;
+ fileContent += "\n";
+ }
+ std::ofstream fp(filename.c_str(), std::ios::trunc);
+ if ( !fp ) {
+ std::cerr << "Unable to open file" << std::endl;
+ return;
+ }
+ fp << fileContent.c_str()<< std::endl;
+ fp.close();
}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
void vvLandmarks::SetTime(int time)
{
- if (time >= 0 && time <= ((int)mPoints.size() -1))
- {
- mPolyData->SetPoints(mPoints[time]);
- mPolyData->GetPointData()->SetScalars(mIds);
- mPolyData->Modified();
- mPolyData->Update();
- }
+ if (time >= 0 && time <= ((int)mPoints.size() -1)) {
+ mPolyData->SetPoints(mPoints[time]);
+ mPolyData->GetPointData()->SetScalars(mIds);
+ mPolyData->Modified();
+ mPolyData->Update();
+ }
}
+//--------------------------------------------------------------------
+
+//--------------------------------------------------------------------
std::string vvLandmarks::replace_dots(std::string input)
{
- ///Replaces the dots used in the file with the decimal separator in use on the platform
- lconv * conv=localeconv();
- unsigned int position = input.find( "." );
- while ( position < input.size() )
- {
- input.replace(position, 1, conv->decimal_point);
- position = input.find( ".", position + 1 );
- }
- return input;
+ ///Replaces the dots used in the file with the decimal separator in use on the platform
+ lconv * conv=localeconv();
+ unsigned int position = input.find( "." );
+ while ( position < input.size() ) {
+ input.replace(position, 1, conv->decimal_point);
+ position = input.find( ".", position + 1 );
+ }
+ return input;
}
+//--------------------------------------------------------------------