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/*
* Copyright (c) 2008-2018 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, you can obtain one at http://mozilla.org/MPL/2.0/
*
* MRtrix3 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.
*
* For more details, see http://www.mrtrix.org/
*/
#include "command.h"
#include "progressbar.h"
#include "file/ofstream.h"
#include "dwi/tractography/scalar_file.h"
#include "dwi/tractography/properties.h"
using namespace MR;
using namespace MR::DWI;
using namespace App;
void usage ()
{
AUTHOR = "David Raffelt (david.raffelt@florey.edu.au)";
SYNOPSIS = "Print out information about a track scalar file";
ARGUMENTS
+ Argument ("tracks", "the input track scalar file.")
.allow_multiple()
.type_file_in();
OPTIONS
+ Option ("count",
"count number of tracks in file explicitly, ignoring the header")
+ Option ("ascii",
"save values of each track scalar file in individual ascii files, with the "
"specified prefix.")
+ Argument ("prefix").type_text();
}
void run ()
{
auto opt = get_options ("ascii");
bool actual_count = get_options ("count").size();
for (size_t i = 0; i < argument.size(); ++i) {
Tractography::Properties properties;
Tractography::ScalarReader<float> file (argument[i], properties);
std::cout << "***********************************\n";
std::cout << " Track scalar file: \"" << argument[i] << "\"\n";
for (Tractography::Properties::iterator i = properties.begin(); i != properties.end(); ++i) {
std::string S (i->first + ':');
S.resize (22, ' ');
std::cout << " " << S << i->second << "\n";
}
if (properties.comments.size()) {
std::cout << " Comments: ";
for (vector<std::string>::iterator i = properties.comments.begin(); i != properties.comments.end(); ++i)
std::cout << (i == properties.comments.begin() ? "" : " ") << *i << "\n";
}
for (std::multimap<std::string,std::string>::const_iterator i = properties.roi.begin(); i != properties.roi.end(); ++i)
std::cout << " ROI: " << i->first << " " << i->second << "\n";
if (actual_count) {
vector<float > tck;
size_t count = 0;
{
ProgressBar progress ("counting tracks in file");
while (file (tck)) {
++count;
++progress;
}
}
std::cout << "actual count in file: " << count << "\n";
}
if (opt.size()) {
ProgressBar progress ("writing track scalar data to ascii files");
vector<float> tck;
size_t count = 0;
while (file (tck)) {
std::string filename (opt[0][0]);
filename += "-000000.txt";
std::string num (str (count));
filename.replace (filename.size()-4-num.size(), num.size(), num);
File::OFStream out (filename);
for (vector<float>::iterator i = tck.begin(); i != tck.end(); ++i)
out << (*i) << "\n";
out.close();
count++;
++progress;
}
}
}
}
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