diff --git a/biobb_structure_checking/constants.py b/biobb_structure_checking/constants.py index ceb6f7c..858edf1 100644 --- a/biobb_structure_checking/constants.py +++ b/biobb_structure_checking/constants.py @@ -103,8 +103,9 @@ def set_defaults(base_dir_path, args=None): dest='input_structure_path', help='Input structure. ' '1) Fetch from remote pdb:{pdbid}[.format] ' - '2) Local file: Formats pdb(qt)|pqr|cif. ' - 'Format assumed from extension.' + '2) Direct fetch from custom URL ' + '3) Local file: Formats pdb(qt)|pqr|cif. ' + 'For 2) and 3) Format assumed from extension.' ) CMD_LINE.add_argument( @@ -133,7 +134,7 @@ def set_defaults(base_dir_path, args=None): CMD_LINE.add_argument( '--pdb_server', dest='pdb_server', - help='Server for retrieving structures (default(wwPDB)|MMB|BSC) (Ignored, used default)' + help='Server for retrieving structures (default(ftp at wwPDB)|MMB|BSC), use alternate server for http(s) download' ) CMD_LINE.add_argument( @@ -146,7 +147,7 @@ def set_defaults(base_dir_path, args=None): '--nocache', dest='nocache', action='store_true', - help='Do not cache remote downloaded structures' + help='Do not cache downloaded structures' ) CMD_LINE.add_argument(