fix number of hmmhits core compilation

Author: trvinh

fdog/libs/corecompile.py

@@ -231,6 +231,7 @@ def compile_core(args):
                 if not leaf == refspec_id and \
                         not leaf in added_taxa and \
                         not leaf in ignored_taxa:
+                    output_fn.print_debug(debugCore, '','')
                     output_fn.print_debug(
                         debugCore, '',
                         'Leaf %s - %s' % (leaf, tax_ids[leaf]))

fdog/libs/hmm.py

@@ -68,11 +68,12 @@ def sort_hmm_hits(hmm_hits, hitLimit = 10, scoreCutoff = 10, debug = False):
                     score_dict[best_domain_score].append(best_domain_hit)
     output_fn.print_debug(debug, 'All HMM hits', ori_hits)
     hmm_cand = {}
-    n = 1
+    n = 0
     score_dict = {
         key:val for key, val in score_dict.items() \
         if key >= cutoff
     }
+    output_fn.print_debug(debug, 'Candidate HMM hits', score_dict)
     for score in sorted(score_dict, reverse = True):
         if n < hitLimit:
             for id in score_dict[score]:

setup.py

@@ -26,7 +26,7 @@
 
 setup(
     name="fdog",
-    version="0.1.8",
+    version="0.1.9",
     python_requires='>=3.7.0',
     description="Feature-aware Directed OrtholoG search tool",
     long_description=long_description,