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| Original file line number | Diff line number | Diff line change |
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| % Brainstorm | ||
| % v. 3.230117 (17-Jan-2023) | ||
| % v. 3.230118 (18-Jan-2023) |
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| function sClusters = in_clusters(ClusterFile, FileFormat) | ||
| % IN_CLUSTERS: Read clusters of channels from a file | ||
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| % @============================================================================= | ||
| % This function is part of the Brainstorm software: | ||
| % https://neuroimage.usc.edu/brainstorm | ||
| % | ||
| % Copyright (c) University of Southern California & McGill University | ||
| % This software is distributed under the terms of the GNU General Public License | ||
| % as published by the Free Software Foundation. Further details on the GPLv3 | ||
| % license can be found at http://www.gnu.org/copyleft/gpl.html. | ||
| % | ||
| % FOR RESEARCH PURPOSES ONLY. THE SOFTWARE IS PROVIDED "AS IS," AND THE | ||
| % UNIVERSITY OF SOUTHERN CALIFORNIA AND ITS COLLABORATORS DO NOT MAKE ANY | ||
| % WARRANTY, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO WARRANTIES OF | ||
| % MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE, NOR DO THEY ASSUME ANY | ||
| % LIABILITY OR RESPONSIBILITY FOR THE USE OF THIS SOFTWARE. | ||
| % | ||
| % For more information type "brainstorm license" at command prompt. | ||
| % =============================================================================@ | ||
| % | ||
| % Authors: Francois Tadel, 2023 | ||
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| % Read file | ||
| switch (FileFormat) | ||
| case 'BST' | ||
| ClusterMat = load(ClusterFile); | ||
| if ~isfield(ClusterMat, 'Clusters') | ||
| error('Invalid Brainstorm clusters file: missing field "Clusters".'); | ||
| end | ||
| case 'MNE' | ||
| sMontage = in_montage_mne(FileName); | ||
| for i = 1:length(sMontage) | ||
| ClusterMat.Clusters(i).Label = sMontage(i).Name; | ||
| ClusterMat.Clusters(i).Sensors = sMontage(i).ChanNames; | ||
| end | ||
| otherwise | ||
| error('Invalid file format.'); | ||
| end | ||
| if isempty(ClusterMat.Clusters) | ||
| error(['No clusters available in file: ' FileName]); | ||
| end | ||
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| % Create standardized Brainstorm structure | ||
| sClusters = repmat(db_template('cluster'), 1, length(ClusterMat.Clusters)); | ||
| % Loop on all the new clusters | ||
| for i = 1:length(ClusterMat.Clusters) | ||
| sClusters(i).Sensors = ClusterMat.Clusters(i).Sensors; | ||
| if isfield(ClusterMat.Clusters(i), 'Label') && ~isempty(ClusterMat.Clusters(i).Label) | ||
| sClusters(i).Label = ClusterMat.Clusters(i).Label; | ||
| end | ||
| if isfield(ClusterMat.Clusters(i), 'Color') && ~isempty(ClusterMat.Clusters(i).Color) | ||
| sClusters(i).Color = ClusterMat.Clusters(i).Color; | ||
| end | ||
| if isfield(ClusterMat.Clusters(i), 'Function') && ~isempty(ClusterMat.Clusters(i).Function) | ||
| sClusters(i).Function = ClusterMat.Clusters(i).Function; | ||
| end | ||
| end | ||
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| function varargout = process_channel_addcluster( varargin ) | ||
| % PROCESS_CHANNEL_ADDCLUSTER: Import clusters in the selected channel files. | ||
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| % @============================================================================= | ||
| % This function is part of the Brainstorm software: | ||
| % https://neuroimage.usc.edu/brainstorm | ||
| % | ||
| % Copyright (c) University of Southern California & McGill University | ||
| % This software is distributed under the terms of the GNU General Public License | ||
| % as published by the Free Software Foundation. Further details on the GPLv3 | ||
| % license can be found at http://www.gnu.org/copyleft/gpl.html. | ||
| % | ||
| % FOR RESEARCH PURPOSES ONLY. THE SOFTWARE IS PROVIDED "AS IS," AND THE | ||
| % UNIVERSITY OF SOUTHERN CALIFORNIA AND ITS COLLABORATORS DO NOT MAKE ANY | ||
| % WARRANTY, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO WARRANTIES OF | ||
| % MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE, NOR DO THEY ASSUME ANY | ||
| % LIABILITY OR RESPONSIBILITY FOR THE USE OF THIS SOFTWARE. | ||
| % | ||
| % For more information type "brainstorm license" at command prompt. | ||
| % =============================================================================@ | ||
| % | ||
| % Authors: Francois Tadel, 2023 | ||
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| eval(macro_method); | ||
| end | ||
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| %% ===== GET DESCRIPTION ===== | ||
| function sProcess = GetDescription() | ||
| % Description the process | ||
| sProcess.Comment = 'Import clusters of channels'; | ||
| sProcess.Category = 'Custom'; | ||
| sProcess.SubGroup = {'Import', 'Channel file'}; | ||
| sProcess.Index = 90; | ||
| sProcess.Description = 'https://neuroimage.usc.edu/brainstorm/Tutorials/ChannelClusters'; | ||
| % Definition of the input accepted by this process | ||
| sProcess.InputTypes = {'data', 'raw'}; | ||
| sProcess.OutputTypes = {'data', 'raw'}; | ||
| sProcess.nInputs = 1; | ||
| sProcess.nMinFiles = 1; | ||
| % File selection options | ||
| SelectOptions = {... | ||
| '', ... % Filename | ||
| '', ... % FileFormat | ||
| 'open', ... % Dialog type: {open,save} | ||
| 'Import clusters...', ... % Window title | ||
| 'ImportChannel', ... % LastUsedDir: {ImportData,ImportChannel,ImportAnat,ExportChannel,ExportData,ExportAnat,ExportProtocol,ExportImage,ExportScript} | ||
| 'single', ... % Selection mode: {single,multiple} | ||
| 'files', ... % Selection mode: {files,dirs,files_and_dirs} | ||
| bst_get('FileFilters', 'clusterin'), ... % Available file formats | ||
| 'ClusterIn'}; % DefaultFormats: {ChannelIn,DataIn,DipolesIn,EventsIn,MriIn,NoiseCovIn,ResultsIn,SspIn,SurfaceIn,TimefreqIn | ||
| % Option: Event file | ||
| sProcess.options.clusterfile.Comment = 'Cluster file:'; | ||
| sProcess.options.clusterfile.Type = 'filename'; | ||
| sProcess.options.clusterfile.Value = SelectOptions; | ||
| end | ||
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| %% ===== FORMAT COMMENT ===== | ||
| function Comment = FormatComment(sProcess) | ||
| Comment = sProcess.Comment; | ||
| end | ||
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| %% ===== RUN ===== | ||
| function OutputFiles = Run(sProcess, sInputs) | ||
| % Get options | ||
| ClusterFile = sProcess.options.clusterfile.Value{1}; | ||
| FileFormat = sProcess.options.clusterfile.Value{2}; | ||
| % Load input cluster file | ||
| sClusters = in_clusters(ClusterFile, FileFormat); | ||
| % Get unique channel files | ||
| AllChannelFiles = unique({sInputs.ChannelFile}); | ||
| % Process each channel file | ||
| for iFile = 1:length(AllChannelFiles) | ||
| Compute(AllChannelFiles{iFile}, sClusters); | ||
| end | ||
| % Return all the files in input | ||
| OutputFiles = {sInputs.FileName}; | ||
| end | ||
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| %% ===== ADD CLUSTERS TO CHANNEL FILE ===== | ||
| function Compute(ChannelFile, sClusters) | ||
| % Load file | ||
| ChannelFile = file_fullpath(ChannelFile); | ||
| ChannelMat = in_bst_channel(ChannelFile); | ||
| % Add or replace clusters | ||
| for i = 1:length(sClusters) | ||
| % If cluster already exists, update it, otherwise create a new entry | ||
| if ~isfield(ChannelMat, 'Clusters') || isempty(ChannelMat.Clusters) | ||
| ChannelMat.Clusters = repmat(db_template('cluster'), 0, 1); | ||
| iCluster = 1; | ||
| else | ||
| iCluster = find(strcmp(sClusters(i).Label, {ChannelMat.Clusters.Label})); | ||
| if isempty(iCluster) | ||
| iCluster = length(ChannelMat.Clusters) + 1; | ||
| end | ||
| end | ||
| % Copy all the fields | ||
| ChannelMat.Clusters(iCluster).Sensors = sClusters(i).Sensors; | ||
| ChannelMat.Clusters(iCluster).Label = sClusters(i).Label; | ||
| ChannelMat.Clusters(iCluster).Function = sClusters(i).Function; | ||
| % Add color if not defined yet | ||
| if ~isempty(sClusters(i).Color) | ||
| ChannelMat.Clusters(iCluster).Color = sClusters(i).Color; | ||
| else | ||
| ColorTable = panel_scout('GetScoutsColorTable'); | ||
| iColor = mod(iCluster-1, length(ColorTable)) + 1; | ||
| ChannelMat.Clusters(i).Color = ColorTable(iColor,:); | ||
| end | ||
| end | ||
| % Save modified file | ||
| bst_save(ChannelFile, ChannelMat, 'v7'); | ||
| end | ||
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