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implement channel map creation and saving
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,70 @@ | ||
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| function cm = createValidChanMap(q, varargin) | ||
| cm = []; | ||
| if isfield(q, 'chanMap') && ... | ||
| isfield(q, 'xcoords') && ... | ||
| isfield(q, 'ycoords') && ... | ||
| numel(q.chanMap)==numel(q.xcoords) &&... | ||
| numel(q.chanMap)==numel(q.ycoords) | ||
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| if min(q.chanMap)==0 | ||
| q.chanMap = q.chanMap+1; | ||
| end | ||
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| % has required fields - we accept it | ||
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| cm.chanMap = q.chanMap(:); | ||
| cm.xcoords = q.xcoords(:); | ||
| cm.ycoords = q.ycoords(:); | ||
| cm.chanMap0ind = q.chanMap(:)-1; | ||
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| if isfield(q, 'connected') | ||
| if numel(q.connected)==numel(cm.chanMap) | ||
| cm.connected = q.connected(:); | ||
| else | ||
| warning('Invalid chanMap variable ''connected'': must be the same size as chanMap. Using default.'); | ||
| end | ||
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| else | ||
| cm.connected = true(size(cm.chanMap)); | ||
| end | ||
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| cm.kcoords = ones(size(cm.chanMap)); | ||
| if isfield(q, 'kcoords') | ||
| if numel(q.kcoords)==numel(cm.chanMap) | ||
| cm.kcoords = q.kcoords(:); | ||
| else | ||
| warning('Invalid chanMap variable ''kcoords'': must be the same size as chanMap. Using default.'); | ||
| end | ||
| elseif isfield(q, 'shankInd') | ||
| if numel(q.shankInd)==numel(cm.chanMap) | ||
| cm.kcoords = q.shankInd(:); | ||
| else | ||
| warning('Invalid chanMap variable ''shankInd'': must be the same size as chanMap. Using default.'); | ||
| end | ||
| end | ||
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| if isfield(q, 'name') | ||
| cm.name = q.name; | ||
| else | ||
| if nargin>1 | ||
| filename = varargin{1}; | ||
| x = strfind(filename, 'kilosortChanMap'); | ||
| if ~isempty(x) | ||
| cm.name = filename(1:x-2); | ||
| else | ||
| cm.name = filename; | ||
| end | ||
| else | ||
| cm.name = 'unknown'; | ||
| end | ||
| end | ||
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| if isfield(q, 'siteSize') | ||
| cm.siteSize = siteSize; | ||
| end | ||
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| else | ||
| warning('Invalid channel map: A valid channel map must have chanMap, xcoords, and ycoords, and they must all be the same size.') | ||
| end |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,21 @@ | ||
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| function chanMaps = loadChanMaps() | ||
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| ksroot = fileparts(fileparts(mfilename('fullpath'))); | ||
| chanMapFiles = dir(fullfile(ksroot, 'configFiles', '*.mat')); | ||
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| idx = 1; | ||
| chanMaps = []; | ||
| for c = 1:numel(chanMapFiles) | ||
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| q = load(fullfile(ksroot, 'configFiles', chanMapFiles(c).name)); | ||
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| cm = createValidChanMap(q, chanMapFiles(c).name); | ||
| if ~isempty(cm) | ||
| if idx==1; chanMaps = cm; else; chanMaps(idx) = cm; end; | ||
| idx = idx+1; | ||
| end | ||
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| end |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,21 @@ | ||
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| function saveNewChanMap(cm, obj) | ||
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| newName = cm.name; | ||
| if strcmp(cm.name, 'unknown') | ||
| answer = inputdlg('Name for this channel map:'); | ||
| if ~isempty(answer) && ~isempty(answer{1}) | ||
| newName = answer{1}; | ||
| else | ||
| newName = ''; | ||
| end | ||
| end | ||
| if ~isempty(newName) | ||
| ksRoot = fileparts(fileparts(mfilename('fullpath'))); | ||
| newFn = [answer{1} '_kilosortChanMap.mat']; | ||
| save(fullfile(ksRoot, 'configFiles', newFn), '-struct', 'cm'); | ||
| obj.log(['Saved new channel map: ' fullfile(ksRoot, 'configFiles', newFn)]); | ||
| else | ||
| obj.log('Could not save new channel map without a name'); | ||
| end |