if there's fluor on this frame, look there for possible segmentations

src/MATLAB/+Segmentation/FluorHulls.m

+% We've already segmented the fluor images, so all we need to do here is
+% find the convex hulls in the image that's passed in.
+function [objs features] = FluorHulls(im, t)
+    objs = [];
+    features = [];
+    
+    [L num] = bwlabel(im);
+    for n=1:num
+        [r c] = find(L==n);
+        pix = find(L == n);
+        
+        ch = convhull(c, r);
+        no = [];
+        no.t = t;
+        no.points = [c(ch), r(ch)];
+        no.ID = -1;
+        no.indPixels = pix;
+        no.indTailPixels  = [];
+        no.BrightInterior=1;
+        no.Eccentricity=0;
+        no.imPixels=im(pix);
+        
+        nf = [];
+        nf.darkRatio = 0;
+        nf.haloRatio = 0;
+        nf.igRatio = 0;
+        nf.darkIntRatio = 0;
+        nf.brightInterior = 1;
+        
+        nf.polyPix = [];
+        nf.perimPix = [];
+        nf.igPix = [];
+        nf.haloPix = [];
+        
+        objs=[objs no];
+        features = [features nf];
+    end
+end

src/MATLAB/+Segmentation/PartialImageSegment.m

@@ -26,7 +26,7 @@
 %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
 
 function [hulls features] = PartialImageSegment(img, centerPt, subSize, alpha, time)
-    global CONSTANTS
+    global CONSTANTS HaveFluor FluorData
 
     if ( length(subSize) < 2 )
         subSize = [subSize(1) subSize(1)];
@@ -56,6 +56,16 @@ function [hulls features] = PartialImageSegment(img, centerPt, subSize, alpha, t
         objFeat = [objFeat hemObjFeat];
     end
     
+    if Helper.HaveFluor() && HaveFluor(time)
+        greenInd = FluorData(time).greenInd;
+        flImg = zeros(size(img));
+        flImg(greenInd) = 1;
+        subImg = flImg(coordMin(2):coordMax(2), coordMin(1):coordMax(1));
+        [flObjs, flObjFeat] = Segmentation.FluorHulls(subImg, 1);
+        objs = [objs flObjs];
+        objFeat = [objFeat flObjFeat];
+    end
+    
     [hulls features] = fixupFromSubimage(coordMin, img, subImg, objs, objFeat);
 end