SeeCAT third-party notices
==========================

SeeCAT is licensed under the GNU General Public License, version 3 or (at
your option) any later version; see LICENSE. The release also contains the
third-party files listed below, each under its own terms. SPM and BrainNet
Viewer are used from the user's own installation and are not distributed
with SeeCAT.


1. dcm2niix
-----------
Files:   external/dcm2niix/<win|mac|lnx>/ (release zips only)
Version: v1.0.20260724, unmodified binaries from
         https://github.com/rordenlab/dcm2niix/releases/tag/v1.0.20260724
Licence: BSD 2-clause, below. The Windows zip also contains the Microsoft
         Visual C++ runtime DLLs that Microsoft allows to be redistributed
         with applications built with Visual C++.

The following files are from different authors and have their own licenses

nifti.h, nifti1_io.h/nifti1_io_core.cpp is public domain
  http://niftilib.sourceforge.net
  http://sourceforge.net/projects/niftilib/files/latest/download
ujpeg.h/ujpeg.cpp uses the MIT license (see file for license text)
  http://keyj.emphy.de/nanojpeg/
miniz.c is optional, it is public domain (http://unlicense.org)
 https://github.com/richgel999/miniz
OpenJpeg is optional, it uses a BSD license
 https://github.com/uclouvain/openjpeg/blob/master/LICENSE
CharLS is optional, it uses a BSD license
 https://github.com/team-charls/charls/blob/master/LICENSE.md
zlib is optional and includes a simple license
 https://www.zlib.net/zlib_license.html
Jasper is optional and provides its own license
 https://github.com/mdadams/jasper/blob/master/LICENSE

---
The Software has been developed for research purposes only and is not a clinical tool
Copyright (c) 2014-2025 Chris Rorden. All rights reserved.

Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:

1. Redistributions of source code must retain the above copyright notice, this
   list of conditions and the following disclaimer.

2. Redistributions in binary form must reproduce the above copyright notice,
   this list of conditions and the following disclaimer in the documentation
   and/or other materials provided with the distribution.

THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.


2. Colin27 underlays (ch2, ch2better)
-------------------------------------
Files:   SeeCAT/templates/ch2.nii.gz (MRIcron distribution),
         SeeCAT/templates/ch2better.nii.gz (MRIcroGL distribution)
Source:  the Colin27 single-subject average (Holmes CJ et al., J Comput
         Assist Tomogr 1998;22:324-333), as prepared by Chris Rorden for
         MRIcron and MRIcroGL.
Terms:   the MNI notice for Colin27, from
         https://www.bic.mni.mcgill.ca/ServicesAtlases/Colin27 :

Copyright (C) 1993-2009 Louis Collins, McConnell Brain Imaging Centre,
Montreal Neurological Institute, McGill University. Permission to use, copy,
modify, and distribute this software and its documentation for any purpose
and without fee is hereby granted, provided that the above copyright notice
appear in all copies. The authors and McGill University make no
representations about the suitability of this software for any purpose. It
is provided "as is" without express or implied warranty. The authors are not
responsible for any data loss, equipment damage, property loss, or injury to
subjects or patients resulting from the use or misuse of this software
package.

         and the MRIcron licence (BSD), from
         https://github.com/neurolabusc/MRIcron/blob/master/license.txt :

MRIcron medical viewer
Copyright (c) 2006-2021 Chris Rorden
All rights reserved.

Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:

Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.

Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.

Neither the names of the copyright owners nor the names of this project
(MRIcron) may be used to endorse or promote products derived from this
software without specific prior written permission.

THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE
FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.


3. MNI ICBM152 2009c nonlinear asymmetric template
--------------------------------------------------
Files:   SeeCAT/templates/mni_icbm152_t1_tal_nlin_asym_09c.nii.gz (gzipped,
         otherwise unchanged)
Source:  https://www.bic.mni.mcgill.ca/ServicesAtlases/ICBM152NLin2009
         Fonov VS et al., NeuroImage 2011;54:313-327; Fonov VS et al.,
         NeuroImage 2009;47:S102.
Terms:   the notice on that page:

Copyright (C) 1993-2004 Louis Collins, McConnell Brain Imaging Centre,
Montreal Neurological Institute, McGill University. Permission to use, copy,
modify, and distribute this software and its documentation for any purpose
and without fee is hereby granted, provided that the above copyright notice
appear in all copies. The authors and McGill University make no
representations about the suitability of this software for any purpose. It
is provided "as is" without express or implied warranty. The authors are not
responsible for any data loss, equipment damage, property loss, or injury to
subjects or patients resulting from the use or misuse of this software
package.


4. Masks derived from SPM's tissue probability maps
---------------------------------------------------
Files:   SeeCAT/templates/tpl-IXI549Space_res-{2,3}_*_mask.nii
Source:  thresholded from spm/tpm/TPM.nii by seecat.util.make_templates
         (thresholds in each JSON sidecar).
Terms:   SPM is Copyright (C) 1991,1994-2023 Wellcome Centre for Human
         Neuroimaging, distributed under the GNU General Public License,
         version 2 or (at your option) any later version; the derived masks
         are distributed with SeeCAT under GPL-3.0-or-later.
Credit:  Ashburner J, Friston KJ. Unified segmentation. NeuroImage
         2005;26:839-851. The TPM was built from IXI data
         (https://brain-development.org/ixi-dataset/, CC BY-SA 3.0).


5. Used from the user's installation (not distributed)
------------------------------------------------------
- SPM12 (r7771+) or SPM25, GPL-2.0-or-later: https://www.fil.ion.ucl.ac.uk/spm/
  Atlas labels in the viewer are read from SPM's
  tpm/labels_Neuromorphometrics.nii (Neuromorphometrics, Inc.,
  http://www.neuromorphometrics.com/, under the terms that come with SPM).
- BrainNet Viewer 2.0 (optional): https://www.nitrc.org/projects/bnv/
  AAL and Brodmann labels are read from its installation.
