Robust handling of filenames with dots (.) in them (#35)

* Robust handling of filenames with dots in them

* Minor Fixes

SingleCellDataExtraction.py

@@ -236,8 +236,12 @@ def ExtractSingleCells(masks,image,channel_names,output, mask_props=None, intens
     scdata_z = MaskZstack(masks_loaded,image,channel_names_loaded_checked, mask_props=mask_props, intensity_props=intensity_props)
     #Write the singe cell data to a csv file using the image name
 
+    # Determine the image name by cutting off its extension
     im_full_name = os.path.basename(image)
-    im_name = im_full_name.split('.')[0]
+    im_tokens = im_full_name.split(os.extsep)
+    if len(im_tokens) < 2: im_name = im_tokens[0]
+    elif im_tokens[-2] == "ome": im_name = os.extsep.join(im_tokens[0:-2])
+    else: im_name = os.extsep.join(im_tokens[0:-1])
 
     # iterate through each mask and export csv with mask name as suffix
     for k,v in scdata_z.items():