# HG changeset patch
# User estrain
# Date 1653241627 0
# Node ID f04658d0a54e5ce702171576daa65c78cb18babe
# Parent  985615d3572752f3d142db0822462350c2ebc892
Uploaded

diff -r 985615d35727 -r f04658d0a54e data_manager_amrfinderplus/data_manager/data_manager_amrfinderplus.py
--- a/data_manager_amrfinderplus/data_manager/data_manager_amrfinderplus.py	Sun May 22 17:46:39 2022 +0000
+++ b/data_manager_amrfinderplus/data_manager/data_manager_amrfinderplus.py	Sun May 22 17:47:07 2022 +0000
@@ -82,7 +82,6 @@
    
     parser = argparse.ArgumentParser(description='Download NCBI amrFinderPlus Databases')
     parser.add_argument('--name', type=str, required=True, nargs=1, help='Database name')
-    parser.add_argument('--path', type=str, required=True, nargs=1, help='Absolute path to new database folder')
     parser.add_argument('--value', type=str, required=True, nargs=1, help='Database value')
     parser.add_argument('--key', type=str, required=True, nargs=1, help='Database value')
     parser.add_argument('--out', type=str, required=True, nargs=1, help='output file')
@@ -95,7 +94,7 @@
     version=download_from_ncbi()    
     os.chdir("..")
 
-    shutil.copytree("output",args.path[0])
-    print_json(version,args.key[0],args.path[0],args.name[0],args.value[0],args.out[0])
+    #shutil.copytree("output",args.path[0])
+    print_json(version,args.key[0],os.path.abspath("output"),args.name[0],args.value[0],args.out[0])
 
 if __name__ == "__main__": main()