changed default rank of comparecov.py

Author: Dom Laetsch

comparecov.py

@@ -21,8 +21,8 @@
 
         -p, --plotgroups INT        Number of (taxonomic) groups to plot, remaining 
                                      groups are placed in 'other' [default: 7]
-        -r, --rank RANK             Taxonomic rank used for colouring of blobs [default: phylum]
-                                     (Supported: species, genus, family, order, phylum, superkingdom) 
+        -r, --rank RANK             Taxonomic rank used for colouring of blobs [default: superkingdom]
+                                     (Supported: superkingdom) 
         -x, --taxrule TAXRULE       Taxrule which has been used for computing taxonomy 
                                      (Supported: bestsum, bestsumorder) [default: bestsum]
         --sort <ORDER>              Sort order for plotting [default: span]

lib/BtPlot.py

@@ -400,7 +400,7 @@ def plotScatterCov(self, cov_lib, cov_dict, info_flag, x_label, y_label, scale,
         for group in self.plot_order:
             i += 1
             group_length_array = array(self.stats[group]['length'])
-            group_cov_y_array = array([cov_dict[name] for name in self.stats[group]['name']])
+            group_cov_y_array = array([cov_dict[name] for name in self.stats[group]['name']]) # fix it!
             group_cov_x_array = array(self.stats[group]['covs'][cov_lib])
             # calculate values for legend
             if len(group_length_array) > 0: