Added in an annotation coverage summary statistic as a default behavior

Author: DanielOlson

src/main.cpp

@@ -105,7 +105,7 @@ int main_wrapper(int argc, const char *argv[]) {
              param_strings.size(), real_coverage, fdr, arg_string.c_str());
     }
 
-    printf("-----------\n");
+    printf("----------------------------\n");
     if (best_coverage_index >= 0) {
       double real_coverage =
           (double)coverage[best_coverage_index] / (double)seq_length;
@@ -148,6 +148,12 @@ int main_wrapper(int argc, const char *argv[]) {
                       settings->mask_with_n);
     fclose(f);
   }
+  if (!settings->disable_summary) {
+    seq_length = ultra->reader->fastaReader->total_seq_length;
+    double coverage_ratio = (double)true_coverage / (double)seq_length;
+    printf("----------------------------\n");
+    printf("Annotation Coverage: %.4f (%llu / %llu)\n", coverage_ratio, true_coverage, seq_length);
+  }
 
   delete ultra;
   if (settings->estimate_fdr) {