Adds missing setMarkerOpacity fn and updates call, closes #16

+Neuropixel/+Utils/setMarkerOpacity.m

@@ -0,0 +1,48 @@
+function setMarkerOpacity(s, faceAlpha, edgeAlpha)
+% stores information in UserData struct to cause saveFigure to render
+% marker points as translucent when exporting to svg
+    if nargin < 3
+        edgeAlpha = faceAlpha;
+    end
+
+    for i = 1:length(s)
+        % old version, simply tag it as translucent for saveFigure to pick
+        % up during SVG authoring
+
+        userdata = get(s(i),'UserData');
+        userdata.svg.MarkerFaceAlpha = faceAlpha;
+        userdata.svg.MarkerEdgeAlpha = edgeAlpha;
+        set(s(i),'UserData', userdata);
+
+        if ~verLessThan('matlab', '8.4')
+            mh = s.MarkerHandle;
+            if ~isa(mh, 'matlab.graphics.GraphicsPlaceholder')
+                if ~isempty(mh.EdgeColorData)
+                    mh.EdgeColorType = 'truecoloralpha';
+                    mh.EdgeColorData(4) = uint8(edgeAlpha*255);
+                end
+                if ~isempty(mh.FaceColorData)
+                    mh.FaceColorType = 'truecoloralpha';
+                    mh.FaceColorData(4) = uint8(faceAlpha*255);
+                end
+            end
+
+            % keep transparent
+            addlistener(s(i),'MarkedClean',...
+                @(ObjH, EventData) keepAlpha(ObjH, EventData, faceAlpha, edgeAlpha));
+        end
+    end
+end
+
+function keepAlpha(src, ~, faceAlpha, edgeAlpha)  
+    mh = src.MarkerHandle;
+    if ~isempty(mh.EdgeColorData)
+        mh.EdgeColorType = 'truecoloralpha';
+        mh.EdgeColorData(4) = uint8(edgeAlpha*255);
+    end
+    if ~isempty(mh.FaceColorData)
+        mh.FaceColorType = 'truecoloralpha';
+        mh.FaceColorData(4) = uint8(faceAlpha*255);
+    end
+end
+

+Neuropixel/KilosortMetrics.m

@@ -1130,7 +1130,7 @@ function plotClusterDriftmap(m, varargin)
 
                 if showIndividual && (~onlyGaps || hasGaps)
                     h = plot(x, y, '.', 'Color', cmap(iC,:), 'MarkerSize', sz, 'UserData', ud);
-                    TrialDataUtilities.Plotting.setMarkerOpacity(h, alpha);
+                    Neuropixel.Utils.setMarkerOpacity(h, alpha);
 
                     hold on;
                 end
@@ -2668,4 +2668,4 @@ function multiple_plotDriftmap(mSet, varargin)
         end
     end
 
-end
+end