# HG changeset patch
# User bebatut
# Date 1497279007 14400
# Node ID 01d511f950d9a9e491548c8dffa3842ffd25039c
# Parent  d2a91cfb9eef691fefc672010724d2bb842a9a1b
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_sortmerna_database_downloader commit a17ff4bb67251145f59ed1f4b437b4950308db08-dirty

diff -r d2a91cfb9eef -r 01d511f950d9 data_manager/data_manager_sortmerna_download.py
--- a/data_manager/data_manager_sortmerna_download.py	Mon Jun 12 10:25:42 2017 -0400
+++ b/data_manager/data_manager_sortmerna_download.py	Mon Jun 12 10:50:07 2017 -0400
@@ -126,12 +126,14 @@
         if not filename.endswith("fasta"):
             continue
         input_filepath = os.path.join(file_dir, filename)
-        output_dir = os.path.join(target_dir, filename)
-        os.mkdir(output_dir)
+        # Extract the db name
         db_name = os.path.splitext(filename)[0]
-        fasta_filepath = os.path.join(output_dir, "%s.fasta" % db_name)
-        indexed_filepath = os.path.join(output_dir, db_name)
-        # Move file
+        # Create the directory where to put the fasta files and indexed files
+        filedir = os.path.join(target_dir, filename)
+        os.mkdir(filedir)
+        fasta_filepath = os.path.join(filedir, "%s.fasta" % db_name)
+        indexed_filepath = os.path.join(filedir, db_name)
+        # Move the fasta file
         os.rename(input_filepath, fasta_filepath)
         # Index the file with indexdb_rna
         command = "indexdb_rna --ref %s,%s" % (