void DatVolumeWriter::write(const std::string& filename, const VolumeBase* volumeHandle)
throw (tgt::IOException)
{
tgtAssert(volumeHandle, "No volume handle");
const VolumeRAM* volume = volumeHandle->getRepresentation<VolumeRAM>();
if (!volume) {
LWARNING("No volume");
return;
}
std::string datname = filename;
std::string rawname = getFileNameWithoutExtension(filename) + ".raw";
LINFO("saving " << datname << " and " << rawname);
std::fstream datout(datname.c_str(), std::ios::out);
std::fstream rawout(rawname.c_str(), std::ios::out | std::ios::binary);
if (!datout.is_open() || !rawout.is_open() || datout.bad() || rawout.bad())
throw tgt::IOException();
datout << getDatFileString(volumeHandle, rawname);
if (datout.bad())
throw tgt::IOException();
datout.close();
// write raw file
const char* data = static_cast<const char*>(volume->getData());
size_t numbytes = volume->getNumBytes();
rawout.write(data, numbytes);
if (rawout.bad())
throw tgt::IOException();
rawout.close();
}
void MlRankBoostDataset::writeRankBoostDataSet(const char* samplePath)
{
string fileName, dirPath;
getFileNameWithoutExtension(samplePath, fileName);
getDirFromFullPath(samplePath, dirPath);
// write data file, include tag information
ofstream ofs(samplePath);
if (! ofs.good())
error("Couldn't open data file for writing: ",samplePath);
cout << "Writing: " << samples_.size() << " samples.." << endl;
for (size_t i=0; i<samples_.size(); i++)
samples_[i].writeToStream(ofs, true);
ofs.close();
// write phi file
string phiPath = dirPath + "/" + fileName + ".phi";
ofs.open(phiPath.c_str());
if (! ofs.good())
{
error("Could not write feedback file: ",phiPath.c_str());
}
else
{
for (size_t i=0; i<phi_.size(); i++)
ofs << phi_[i].idx0 << "\t" << phi_[i].idx1 << "\t" << scientific << setprecision(4) << phi_[i].weight << endl;
ofs.close();
}
}
//==============================================================================
bool File::moveToTrash() const
{
if (! exists())
return true;
File trashCan ("~/.Trash");
if (! trashCan.isDirectory())
trashCan = "~/.local/share/Trash/files";
if (! trashCan.isDirectory())
return false;
return moveFileTo (trashCan.getNonexistentChildFile (getFileNameWithoutExtension(),
getFileExtension()));
}
void createNewFile (Project& project, Project::Item parent) override
{
auto newFile = askUserToChooseNewFile (String (defaultClassName) + ".h", "*.h;*.cpp", parent);
if (newFile != File())
{
auto headerFile = newFile.withFileExtension (".h");
auto cppFile = newFile.withFileExtension (".cpp");
headerFile.replaceWithText (String());
cppFile.replaceWithText (String());
auto& odm = ProjucerApplication::getApp().openDocumentManager;
if (auto* cpp = dynamic_cast<SourceCodeDocument*> (odm.openFile (nullptr, cppFile)))
{
if (auto* header = dynamic_cast<SourceCodeDocument*> (odm.openFile (nullptr, headerFile)))
{
std::unique_ptr<JucerDocument> jucerDoc (new ComponentDocument (cpp));
if (jucerDoc != nullptr)
{
jucerDoc->setClassName (newFile.getFileNameWithoutExtension());
jucerDoc->flushChangesToDocuments (&project);
jucerDoc.reset();
cpp->save();
header->save();
odm.closeDocument (cpp, true);
odm.closeDocument (header, true);
parent.addFileRetainingSortOrder (headerFile, true);
parent.addFileRetainingSortOrder (cppFile, true);
}
}
}
}
}
void NrrdVolumeWriter::write(const std::string& filename, const VolumeHandleBase* volumeHandle)
throw (tgt::IOException)
{
tgtAssert(volumeHandle, "No volume handle");
const Volume* volume = volumeHandle->getRepresentation<Volume>();
if (!volume) {
LWARNING("No volume");
return;
}
std::string nhdrname = filename;
std::string rawname = getFileNameWithoutExtension(filename) + ".raw";
LINFO("saving " << nhdrname << " and " << rawname);
std::fstream nhdrout(nhdrname.c_str(), std::ios::out);
std::fstream rawout(rawname.c_str(), std::ios::out | std::ios::binary);
if (nhdrout.bad() || rawout.bad()) {
LWARNING("Can't open file");
throw tgt::IOException();
}
// write nrrd header
std::string type;
const char* data = 0;
size_t numbytes = 0;
if (const VolumeUInt8* vol = dynamic_cast<const VolumeUInt8*>(volume)) {
type = "uchar";
data = reinterpret_cast<const char*>(vol->voxel());
numbytes = vol->getNumBytes();
}
else if (const VolumeUInt16* vol = dynamic_cast<const VolumeUInt16*>(volume)) {
type = "ushort";
data = reinterpret_cast<const char*>(vol->voxel());
numbytes = vol->getNumBytes();
}
else if (const Volume4xUInt8* vol = dynamic_cast<const Volume4xUInt8*>(volume)) {
type = "uint";
data = reinterpret_cast<const char*>(vol->voxel());
numbytes = vol->getNumBytes();
}
else
LERROR("Format currently not supported");
tgt::ivec3 dimensions = volumeHandle->getDimensions();
tgt::vec3 spacing = volumeHandle->getSpacing();
nhdrout << "NRRD0001" << std::endl; // magic number
nhdrout << "content: " << tgt::FileSystem::fileName(filename) << std::endl;
nhdrout << "dimension: 3" << std::endl;
nhdrout << "type: " << type << std::endl;
nhdrout << "sizes: " << dimensions.x << " " << dimensions.y << " " << dimensions.z << std::endl;
nhdrout << "spacings: " << spacing.x << " " << spacing.y << " " << spacing.z << std::endl;
nhdrout << "datafile: " << tgt::FileSystem::fileName(rawname) << std::endl;
nhdrout << "encoding: raw" << std::endl;
nhdrout.close();
// write raw file
rawout.write(data, numbytes);
rawout.close();
}
size_t MlRankBoostDataset::readRankBoostDataSet(const char* samplePath,
size_t maxSampleIdx)
{
string fileName, dirPath;
getFileNameWithoutExtension(samplePath, fileName);
getDirFromFullPath(samplePath, dirPath);
// read data file, include tag information
ifstream ifs(samplePath);
if (! ifs.good())
error("Couldn't MlRankBoostDataset for reading: ", samplePath);
// count number of samples
size_t counter=0;
while (ifs.good())
{
if (ifs.get() == '>')
counter++;
}
ifs.close();
ifs.open(samplePath);
samples_.resize(counter<maxSampleIdx ? counter : maxSampleIdx);
counter=0;
while (! ifs.eof() && counter < maxSampleIdx)
{
if (samples_[counter].readFromStream(ifs))
counter++;
}
if (counter<samples_.size())
samples_.resize(counter);
// read phi file
phi_.clear();
string phiPath = dirPath + "/" + fileName + ".phi";
ifs.open(phiPath.c_str());
if (! ifs.good())
{
cout << "Warning: could not find feedback file " << phiPath << endl;
}
else
{
char buffer[64];
while (! ifs.eof())
{
ifs.getline(buffer,64);
istringstream iss(buffer);
OrderedPair op;
iss >> op.idx0 >> op.idx1 >> op.weight;
if (op.idx0 < maxSampleIdx && op.idx1 < maxSampleIdx)
{
assert(op.idx0 < op.idx1);
if (op.weight < 0.0)
op.weight = 1.0;
phi_.push_back(op);
totalPhiWeight_ += op.weight;
}
}
}
return (samples_.size());
}
