BoundingBox GlNode::getBoundingBox(GlGraphInputData* data) {
node n=node(id);
if(data->getElementRotation()->getNodeValue(n)==0) {
BoundingBox box;
box.expand(data->getElementLayout()->getNodeValue(n)-data->getElementSize()->getNodeValue(n)/2.f);
box.expand(data->getElementLayout()->getNodeValue(n)+data->getElementSize()->getNodeValue(n)/2.f);
assert(box.isValid());
return box;
}
else {
float cosAngle=static_cast<float>(cos(data->getElementRotation()->getNodeValue(n)/180.*M_PI));
float sinAngle=static_cast<float>(sin(data->getElementRotation()->getNodeValue(n)/180.*M_PI));
Coord tmp1(data->getElementSize()->getNodeValue(n)/2.f);
Coord tmp2(tmp1[0] ,-tmp1[1], tmp1[2]);
Coord tmp3(-tmp1[0],-tmp1[1],-tmp1[2]);
Coord tmp4(-tmp1[0], tmp1[1],-tmp1[2]);
tmp1=Coord(tmp1[0]*cosAngle-tmp1[1]*sinAngle,tmp1[0]*sinAngle+tmp1[1]*cosAngle,tmp1[2]);
tmp2=Coord(tmp2[0]*cosAngle-tmp2[1]*sinAngle,tmp2[0]*sinAngle+tmp2[1]*cosAngle,tmp2[2]);
tmp3=Coord(tmp3[0]*cosAngle-tmp3[1]*sinAngle,tmp3[0]*sinAngle+tmp3[1]*cosAngle,tmp3[2]);
tmp4=Coord(tmp4[0]*cosAngle-tmp4[1]*sinAngle,tmp4[0]*sinAngle+tmp4[1]*cosAngle,tmp4[2]);
BoundingBox bb;
bb.expand(data->getElementLayout()->getNodeValue(n)+tmp1);
bb.expand(data->getElementLayout()->getNodeValue(n)+tmp2);
bb.expand(data->getElementLayout()->getNodeValue(n)+tmp3);
bb.expand(data->getElementLayout()->getNodeValue(n)+tmp4);
return bb;
}
}
//复数类的四则运算
int main()
{
Fushu a(10);
Fushu b(20);
Fushu tmp1(a+b);
tmp1.Show();
Fushu tmp2(a-b);
tmp2.Show();
Fushu tmp3(a*b);
tmp3.Show();
Fushu tmp4(a/b);
tmp4.Show();
return 0;
}
int test_rotate90()
{
#ifdef _MSC_VER
cv::Mat matSrc = cv::imread("E:/GitCode/OpenCV_Test/test_images/1.jpg", 1);
#else
cv::Mat matSrc = cv::imread("test_images/1.jpg", 1);
#endif
if (!matSrc.data) {
std::cout << "read image fail" << std::endl;
return -1;
}
int width = matSrc.cols;
int height = matSrc.rows;
fbc::Mat_<uchar, 3> mat1(height, width, matSrc.data);
fbc::Mat_<uchar, 3> matTranspose(width, height);
fbc::transpose(mat1, matTranspose);
// clockwise rotation 90
fbc::Mat_<uchar, 3> matRotate90(width, height);
fbc::flip(matTranspose, matRotate90, 1);
cv::Mat tmp2(width, height, CV_8UC3, matRotate90.data);
#ifdef _MSC_VER
cv::imwrite("E:/GitCode/OpenCV_Test/test_images/rotate_90.jpg", tmp2);
#else
cv::imwrite("test_images/rotate_90.jpg", tmp2);
#endif
// clockwise rotation 180
fbc::Mat_<uchar, 3> matRotate180(height, width);
fbc::flip(mat1, matRotate180, -1);
cv::Mat tmp3(height, width, CV_8UC3, matRotate180.data);
#ifdef _MSC_VER
cv::imwrite("E:/GitCode/OpenCV_Test/test_images/rotate_180.jpg", tmp3);
#else
cv::imwrite("test_images/rotate_180.jpg", tmp3);
#endif
// clockwise rotation 270
fbc::Mat_<uchar, 3> matRotate270(width, height);
fbc::flip(matTranspose, matRotate270, 0);
cv::Mat tmp4(matTranspose.rows, matTranspose.cols, CV_8UC3, matRotate270.data);
#ifdef _MSC_VER
cv::imwrite("E:/GitCode/OpenCV_Test/test_images/rotate_270.jpg", tmp4);
#else
cv::imwrite("test_images/rotate_270.jpg", tmp4);
#endif
return 0;
}
int _tmain(int argc, _TCHAR* argv[])
{
unordered_set<string> dict;
string tmp1("hot");
string tmp2("dot");
string tmp3("dog");
string tmp4("lot");
string tmp5("log");
dict.insert(tmp1);
dict.insert(tmp2);
dict.insert(tmp3);
dict.insert(tmp4);
dict.insert(tmp5);
string start("hit");
string end("cog");
Solution instance;
vector<vector<string> > vvs = instance.findLadders(start, end, dict);
return 0;
}
gaussian_model EMclustering::maximization(MatrixXf x, MatrixXf r)
{
int d = x.rows();
int n = x.cols();
int k = r.cols();
//cerr<<x<<endl;
VectorXf nk(r.rows());
nk = r.colwise().sum();
VectorXf w(nk.size());
w = nk/n;
MatrixXf tmp1(x.rows(),r.cols());
tmp1 = x * r;
VectorXf tmp2(nk.size());
tmp2 = nk.array().inverse();
//cerr<<tmp2<<endl<<endl;
MatrixXf mu(x.rows(),r.cols());
mu = tmp1 * tmp2.asDiagonal() ;
MatrixXf *sigma = new MatrixXf[k];
for(int i=0;i<k;i++)
sigma[i].setZero(d,d);
MatrixXf sqrtr(r.rows(),r.cols());
sqrtr = r.cwiseSqrt();
MatrixXf xo(d,n);
MatrixXf tmp3(d,d);
tmp3.setIdentity(d,d);
for(int i=0;i<k;i++)
{
xo = x.colwise() - mu.col(i);
VectorXf tmp4(sqrtr.rows());
tmp4 = sqrtr.col(i);
tmp4 = tmp4.adjoint();
xo = xo* tmp4.asDiagonal();
sigma[i] = xo*xo.adjoint()/nk(i);
sigma[i] = sigma[i] + tmp3*1e-6;
//cerr<<sigma[i]<<endl<<endl;
}
gaussian_model model;
model.mu = mu;
model.sigma = new MatrixXf[k];
for(int i=0;i<k;i++)
model.sigma[i] = sigma[i];
model.weight = w;
nk.resize(0);
w.resize(0);
tmp1.resize(0,0);
tmp2.resize(0);
tmp3.resize(0,0);
mu.resize(0,0);
for(int i=0;i<k;i++)
sigma[i].resize(0,0);
delete [] sigma;
sqrtr.resize(0,0);
xo.resize(0,0);
tmp3.resize(0,0);
//cerr<<"---"<<endl;
model.weight = model.weight.adjoint();
//cerr<<model.weight<<endl<<endl;
//cerr<<model.mu<<endl<<endl;
//for(int i=0;i<k;i++)
//{
// cerr<<model.sigma[i]<<endl<<endl;
//}
return model;
}
///
/// @par Detailed description
/// ...
/// @param [in, out] (param1) ...
/// @return ...
/// @note ...
void
sasio::Files::
read_pdb(const std::string &filename)
{
std::string line, word ;
std::string element_string ;
std::ifstream infile(filename) ;
int count = 0 ;
int frame = 0 ;
//string s(line, index, number_characters) ;
std::vector<float> vector_x;
std::vector<float> vector_y;
std::vector<float> vector_z;
while(getline(infile,line))
{
std::istringstream record(line) ;
record >> word ;
std::string temp1(word,0,5) ;
if(temp1 != "ATOM" && temp1 != "HETAT")
{
std::cout << "excluding: " << word << std::endl ;
}
else
{
std::string tmp(line,0,6) ;
_atom_record().push_back(tmp) ;
std::string tmp2(line,6,5) ;
_atom_index().push_back(stoi(tmp2)) ;
std::string tmp3(line,12,4) ;
_atom_name().push_back(tmp3) ;
std::string tmp4(line,16,1) ;
_atom_altloc().push_back(tmp4) ;
std::string tmp5(line,17,3) ;
_atom_resname().push_back(tmp5) ;
std::string tmp6(line,21,1) ;
_atom_chain().push_back(tmp6) ;
std::string tmp7(line,22,4) ;
_atom_resid().push_back(stoi(tmp7)) ;
std::string tmp8(line,26,1) ;
_atom_icode().push_back(tmp8) ;
std::string tmp9(line,30,8) ;
vector_x.push_back(stof(tmp9)) ;
std::string tmp10(line,38,8) ;
vector_y.push_back(stof(tmp10)) ;
std::string tmp11(line,46,8) ;
vector_z.push_back(stof(tmp11)) ;
try
{
std::string tmp12(line,54,6) ;
if(util::has_only_spaces(tmp12))
{
_atom_occupancy().push_back("0.00") ;
}
else
{
_atom_occupancy().push_back(tmp12) ;
}
}
catch(const std::out_of_range& oor)
{
_atom_occupancy().push_back("0.00") ;
std::cerr<<"Occupancy: Out of range error: "<< oor.what() <<std::endl ;
}
try
{
std::string tmp13(line,60,6) ;
if(util::has_only_spaces(tmp13))
{
_atom_beta().push_back("0.00") ;
}
else
{
_atom_beta().push_back(tmp13) ;
}
}
catch(const std::out_of_range& oor)
{
_atom_beta().push_back("0.00") ;
std::cerr<<"Beta: Out of range error: "<< oor.what() <<std::endl ;
}
try
{
std::string tmp14(line,72,4) ;
if(util::has_only_spaces(tmp14))
{
_atom_segname().push_back("SEGN") ;
}
else
{
_atom_segname().push_back(tmp14) ;
}
}
catch(const std::out_of_range& oor)
{
_atom_segname().push_back("SEGN") ;
std::cerr<<"Segname: Out of range error: "<< oor.what() <<std::endl ;
}
try
{
std::string tmp15(line,76,2) ;
if(util::has_only_spaces(tmp15))
{
std::cout << "Element not found" << std::endl;
element_string = element_from_name(tmp3) ;
_atom_element().push_back(element_string) ;
}
else
{
_atom_element().push_back(tmp15) ;
}
}
catch(const std::out_of_range& oor)
{
element_string = element_from_name(tmp3) ;
_atom_element().push_back(element_string) ;
std::cerr<<"Element: Out of range error: "<< oor.what() <<std::endl ;
}
try
{
std::string tmp16(line,78,2) ;
if(util::has_only_spaces(tmp16))
{
_atom_charge().push_back(" ") ;
}
else
{
_atom_charge().push_back(tmp16) ;
}
}
catch(const std::out_of_range& oor)
{
_atom_charge().push_back(" ") ;
std::cerr<<"Charge: Out of range error: "<< oor.what() <<std::endl ;
}
count++ ;
}
}
_natoms() = count ;
infile.close() ;
int nf = _number_of_frames() ;
if(_number_of_frames() == 0)
{
_x().setZero(_natoms(), 1);
_y().setZero(_natoms(), 1);
_z().setZero(_natoms(), 1);
}
else
{
resize_array() ;
}
for(int i = 0 ; i < _natoms() ; ++i)
{
_x()(i,_number_of_frames()) = vector_x[i] ;
_y()(i,_number_of_frames()) = vector_y[i] ;
_z()(i,_number_of_frames()) = vector_z[i] ;
}
std::vector<std::string> s_element ;
s_element = util::strip_white_space(_atom_element()) ;
_atom_selement() = s_element ;
dynamic_cast<sasmol::SasMol*>(this)->calc_mass() ;
_atom_com() = dynamic_cast<sasmol::SasMol*>(this)->calc_com(frame) ;
_number_of_frames() += 1 ;
_set_unique_attributes();
/*
1 2 3 4 5 6 7 8
012345678901234567890123456789012345678901234567890123456789012345678901234567890
1 2 3 4 5 6 7 8
12345678901234567890123456789012345678901234567890123456789012345678901234567890
0 6 1 2 7
ATOM 1 N GLY X 1 -21.525 -67.562 86.759 1.00 0.00 GAG N
ATOM 2 HT1 GLY X 1 -22.003 -68.460 86.892 1.00 0.00 GAG H
ATOM 3 HT2 GLY X 1 -21.905 -66.929 87.525 1.00 0.00 GAG H
*/
}
void
sasio::Files::
write_pdb(const std::string &filename, int &frame)
{
std::ofstream outfile(filename) ;
std::string time_and_user_string ;
time_and_user_string = util::time_and_user();
std::string temp_remark = "REMARK PDB FILE WRITTEN ";
temp_remark += time_and_user_string ;
std::string remark(temp_remark,0,80) ;
std::cout << remark << std::endl ;
outfile << remark << std::endl;
//std::string dum1 =" 1 2 3 4 5 6 7 8";
//std::string dum2 ="12345678901234567890123456789012345678901234567890123456789012345678901234567890";
//outfile << dum1 << std::endl;
//outfile << dum2 << std::endl;
std::stringstream line ;
std::stringstream my_stringstream;
for(int i = 0 ; i < _natoms() ; ++i)
{
line.str( std::string() );
line.clear() ;
std::string tmp(_atom_record()[i],0,6) ;
line << std::setfill(' ') << std::setw(6) << tmp ;
if(_atom_index()[i] > 99999)
{
std::string tmp2(std::to_string(99999),0,5) ;
line << std::setfill(' ') << std::setw(5) << std::right << tmp2 ;
}
else if(_atom_index()[i] < -9999)
{
std::string tmp2(std::to_string(-9999),0,5) ;
line << std::setfill(' ') << std::setw(5) << std::right << tmp2 ;
}
else
{
std::string tmp2(std::to_string(_atom_index()[i]),0,5) ;
line << std::setfill(' ') << std::setw(5) << std::right << tmp2 ;
}
std::string tmp0 = " ";
line << tmp0 ;
std::string tmp3(_atom_name()[i],0,4) ;
line << std::setfill(' ') << std::setw(4) << std::left << tmp3 ;
std::string tmp4(_atom_altloc()[i],0,1) ;
line << std::setw(1) << tmp4 ;
std::string tmp5(_atom_resname()[i],0,3) ;
line << std::setfill(' ') << std::setw(4) << std::left << tmp5 ;
std::string tmp6(_atom_chain()[i],0,1) ;
line << std::setfill(' ') << std::setw(1) << std::left << tmp6 ;
if(_atom_resid()[i] > 9999)
{
std::string tmp7(std::to_string(9999),0,4) ;
line << std::setfill(' ') << std::setw(4) << std::right << tmp7 ;
}
else if(_atom_resid()[i] < -999)
{
std::string tmp7(std::to_string(-999),0,4) ;
line << std::setfill(' ') << std::setw(4) << std::right << tmp7 ;
}
else
{
std::string tmp7(std::to_string(_atom_resid()[i]),0,4) ;
line << std::setfill(' ') << std::setw(4) << std::right << tmp7 ;
}
std::string tmp8(_atom_icode()[i],0,1) ;
line << std::setw(4) << std::left << tmp8 ;
//std::string f_str = std::to_string(f);
//here
//
my_stringstream << _x()(i,frame) ;
//my_stringstream << std::to_string(_x()(i,frame)) ;
//line << std::setfill(' ') << std::setw(8) << std::right << my_stringstream.str() ;
line << std::setfill(' ') << std::setw(8) << std::right << my_stringstream.str() ;
my_stringstream << _y()(i,frame) ;
line << my_stringstream.str() ;
my_stringstream << _z()(i,frame) ;
line << my_stringstream.str() ;
std::string tmp12(_atom_occupancy()[i],0,6) ;
line << std::setfill(' ') << std::setw(6) << std::right << tmp12 ;
std::string tmp13(_atom_beta()[i],0,6) ;
line << std::setfill(' ') << std::setw(6) << std::right << tmp13 ;
std::string tmp14(_atom_segname()[i],0,4) ;
line << std::setfill(' ') << std::setw(10) << std::right << tmp14 ;
std::string tmp15(_atom_element()[i],0,2) ;
line << std::setfill(' ') << std::setw(2) << std::right << tmp15 ;
std::string tmp16(_atom_charge()[i],0,2) ;
line << std::setfill(' ') << std::setw(2) << std::right << tmp16 ;
outfile << line.str() << std::endl ;
}
outfile << "END" << std::endl;
outfile.close() ;
}
