# HG changeset patch
# User dfornika
# Date 1561400741 14400
# Node ID c946718c1328d065f3f0749341382ac09ea71922
# Parent  b2966fea70b0d91bd5ab01f7ac2b31122872bb13
planemo upload for repository https://github.com/dfornika/galaxytools/tree/master/data_managers/data_manager_build_mob_suite_database/ commit ded3b42d8a746eac2973cc17826160e43ac11186-dirty

diff -r b2966fea70b0 -r c946718c1328 data_manager/mob_suite_build_database.py
--- a/data_manager/mob_suite_build_database.py	Mon Jun 24 14:14:45 2019 -0400
+++ b/data_manager/mob_suite_build_database.py	Mon Jun 24 14:25:41 2019 -0400
@@ -7,6 +7,7 @@
 import errno
 import json
 import os
+import shutil
 import string
 import subprocess
 import sys
@@ -34,7 +35,7 @@
         '--mode', mob_cluster_args['mode'],
     ]
 
-    print(json.dumps(mob_cluster_args))
+    print(json.dumps(mob_cluster_args_list))
 
     print("Sleeping for 20s")
     time.sleep(20)
@@ -42,7 +43,7 @@
     
     subprocess.check_call(['mob_cluster'] + mob_cluster_args_list, cwd=target_directory)
 
-    os.rename(
+    shutil.copyfile(
         os.path.join(database_path, 'references_updated.fasta'),
         os.path.join(database_path, 'ncbi_plasmid_full_seqs.fas')
     )