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/* Copyright (c) 2008-2025 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/.
*
* Covered Software is provided under this License on an "as is"
* basis, without warranty of any kind, either expressed, implied, or
* statutory, including, without limitation, warranties that the
* Covered Software is free of defects, merchantable, fit for a
* particular purpose or non-infringing.
* See the Mozilla Public License v. 2.0 for more details.
*
* For more details, see http://www.mrtrix.org/.
*/
#include "command.h"
#include "connectome/enhance.h"
using namespace MR;
using namespace MR::Connectome;
using namespace MR::Math;
using namespace App;
const char* operations[] = {
"to_symmetric",
"upper_triangular",
"lower_triangular",
"transpose",
"zero_diagonal",
NULL
};
void usage ()
{
AUTHOR = "Matteo Frigo (matteo.frigo@inria.fr)";
SYNOPSIS = "Perform basic operations on a connectome";
ARGUMENTS
+ Argument ("input", "the input connectome.").type_text ()
+ Argument ("operation", "the operation to apply, one of: " + join(operations, ", ") + ".").type_choice (operations)
+ Argument ("output", "the output connectome.").type_text();
}
void run ()
{
MR::Connectome::matrix_type connectome = load_matrix (argument[0]);
MR::Connectome::check(connectome);
const int op = argument[1];
const std::string& output_path = argument[2];
INFO("Applying \'" + str(operations[op]) + "\' transformation to the input connectome.");
switch (op) {
case 0: MR::Connectome::to_symmetric (connectome); break;
case 1: MR::Connectome::to_upper (connectome); break;
case 2: MR::Connectome::to_upper (connectome); connectome.transposeInPlace(); break;
case 3: connectome.transposeInPlace(); break;
case 4: connectome.matrix().diagonal().setZero(); break;
default: assert (0);
}
MR::save_matrix(connectome, output_path);
}
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