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/* Copyright (c) 2008-2022 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 "file/ofstream.h"
#include "file/utils.h"
#include "file/path.h"
#include "file/entry.h"
#include "header.h"
#include "formats/list.h"
#include "image_io/default.h"
namespace MR
{
namespace Formats
{
std::unique_ptr<ImageIO::Base> XDS::read (Header& H) const
{
if (!Path::has_suffix (H.name(), ".bfloat") &&
!Path::has_suffix (H.name(), ".bshort"))
return std::unique_ptr<ImageIO::Base>();
H.ndim() = 4;
int BE;
std::string name (H.name());
name.replace (name.size()-6, 6, "hdr");
std::ifstream in (name.c_str());
if (!in)
throw Exception ("error reading header file \"" + name + "\": " + strerror (errno));
int dim[3];
in >> dim[0] >> dim[1] >> dim[2] >> BE;
H.size(0) = dim[1];
H.size(1) = dim[0];
H.size(2) = dim[2];
in.close();
H.datatype() = (Path::has_suffix (H.name(), ".bfloat") ? DataType::Float32 : DataType::UInt16);
if (BE)
H.datatype().set_flag (DataType::LittleEndian);
else
H.datatype().set_flag (DataType::BigEndian);
H.size(2) = 1;
H.spacing(0) = 3.0;
H.spacing(1) = 3.0;
H.spacing(2) = 10.0;
H.spacing(3) = 1.0;
H.stride(0) = -1;
H.stride(1) = -2;
H.stride(2) = 0;
H.stride(3) = 3;
std::unique_ptr<ImageIO::Default> io_handler (new ImageIO::Default (H));
io_handler->files.push_back (File::Entry (H.name()));
return std::move (io_handler);
}
bool XDS::check (Header& H, size_t num_axes) const
{
if (!Path::has_suffix (H.name(), ".bfloat") &&
!Path::has_suffix (H.name(), ".bshort"))
return false;
if (num_axes > 4)
throw Exception ("cannot create XDS image with more than 4 dimensions");
if (num_axes == 4 && H.size (2) > 1)
throw Exception ("cannot create multi-slice XDS image with a single file");
if (num_axes < 2)
throw Exception ("cannot create XDS image with less than 2 dimensions");
H.ndim() = 4;
H.size(2) = 1;
for (size_t n = 0; n < 4; ++n)
if (H.size (n) < 1)
H.size(n) = 1;
H.spacing(0) = 3.0;
H.spacing(1) = 3.0;
H.spacing(2) = 10.0;
H.spacing(3) = 1.0;
H.stride(0) = -1;
H.stride(1) = -2;
H.stride(2) = 0;
H.stride(3) = 3;
DataType dtype (Path::has_suffix (H.name(), ".bfloat") ? DataType::Float32 : DataType::UInt16);
if (H.datatype().is_big_endian()) dtype.set_flag (DataType::LittleEndian);
else dtype.set_flag (DataType::BigEndian);
H.datatype() = dtype;
return true;
}
std::unique_ptr<ImageIO::Base> XDS::create (Header& H) const
{
std::string header_name (H.name());
header_name.replace (header_name.size()-6, 6, "hdr");
File::OFStream out (header_name);
out << H.size (1) << " " << H.size (0) << " " << H.size (3)
<< " " << (H.datatype().is_little_endian() ? 1 : 0) << "\n";
out.close();
std::unique_ptr<ImageIO::Default> io_handler (new ImageIO::Default (H));
File::create (H.name(), footprint (H, "11 1"));
io_handler->files.push_back (File::Entry (H.name()));
return std::move (io_handler);
}
}
}
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