fix(fix prodigal_fail_counter):

Ecogenomics · Feb 15, 2023 · 476a4da · 476a4da
1 parent 7012655
commit 476a4da
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Showing 3 changed files with 11 additions and 4 deletions.
diff --git a/docs/src/changelog.rst b/docs/src/changelog.rst
@@ -2,6 +2,13 @@
 Change log
 ==========
 
+2.2.3
+-----
+
+Bug Fixes:
+
+* Fix prodigal_fail_counter issue
+
 2.2.2
 -----
 

diff --git a/gtdbtk/__init__.py b/gtdbtk/__init__.py
@@ -29,4 +29,4 @@
 __status__ = 'Production'
 __title__ = 'GTDB-Tk'
 __url__ = 'https://github.com/Ecogenomics/GTDBTk'
-__version__ = '2.2.2'
+__version__ = '2.2.3'
diff --git a/gtdbtk/classify.py b/gtdbtk/classify.py
@@ -381,7 +381,7 @@ def run(self,
         output_files = {}
 
         for marker_set_id in ('ar53', 'bac120'):
-            warning_counter, prodigal_fail_counter = 0, 0
+            warning_counter, prodigal_failed_counter = 0, 0
             if marker_set_id == 'ar53':
                 marker_summary_fh = CopyNumberFileAR53(align_dir, prefix)
                 marker_summary_fh.read()
@@ -635,8 +635,8 @@ def run(self,
                 # This is a executive direction: failed prodigal and genomes with no markers are nit bacterial or archaeal
                 # but they need to be included in one of the summary file
                 if marker_set_id == 'bac120':
-                    prodigal_fail_counter = self.add_failed_genomes_to_summary(align_dir, summary_file, prefix)
-                    warning_counter = warning_counter + prodigal_fail_counter
+                    prodigal_failed_counter = self.add_failed_genomes_to_summary(align_dir, summary_file, prefix)
+                    warning_counter = warning_counter + prodigal_failed_counter
 
                 # Symlink to the summary file from the root
                 if marker_set_id == 'bac120':