Mercurial > repos > thanhlv > data_manager_build_ariba_database

diff data_manager/ariba_database_builder.py @ 9:218301fbbb99 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/thanhleviet/galaxy-tools commit 3a0b92d1a2dcd5c5b75e5b63727850139af21ace-dirty"
author thanhlv
date Fri, 02 Oct 2020 11:43:36 +0000
parents 78bf08fa1e75
children
line wrap: on
line diff
--- a/data_manager/ariba_database_builder.py	Sun May 19 09:09:24 2019 -0400
+++ b/data_manager/ariba_database_builder.py	Fri Oct 02 11:43:36 2020 +0000
@@ -7,7 +7,7 @@
 import os
 import shutil
 import errno
-
+from pprint import pprint
 
 data_table_name = "ariba_databases"
 
@@ -158,6 +158,7 @@
 
 genes_dict = {
     "card" : "CARD",
+    "ncbi" : "ncbi",
     "resfinder" : "Resfinder",
     "plasmidfinder" : "Plasmidfinder",
     "megares" : "Megares",
@@ -212,7 +213,7 @@
         name = args.db_name
 
     params = json.loads(open(args.params).read())
-        
+    pprint(params)    
     target_directory = params['output_data'][0]['extra_files_path']
     
     if not os.path.isdir(target_directory):