Commit f1e28780 authored by AITE Meziane's avatar AITE Meziane

doc update for compare_padmet

parent 4a32be4c
......@@ -20,13 +20,13 @@ Description:
compare 2 padmet files
usage:
compare_sbml_padmet.py --padmet=FILE --output_dir=DIR --padmetRef=FILE [-v]
compare_padmet.py --padmet=FILES/DIR --output=DIR --padmetRef=FILE [-v]
option:
-h --help Show help.
--padmet=FILE pathname of the padmet files, sep all files by ',', ex: /path/padmet1.padmet;/path/padmet2.padmet
--output_dir=FILE pathname of the output folder
--sbml=FILE pathanme of the sbml file
--padmet=FILES/DIR pathname of the padmet files, sep all files by ',', ex: /path/padmet1.padmet;/path/padmet2.padmet OR a folder
--output=DIR pathname of the output folder
--padmetRef=FILE pathanme of the database ref in padmet
"""
from padmet.classes import PadmetSpec, PadmetRef
import os
......@@ -36,8 +36,7 @@ import csv
def main():
args = docopt.docopt(__doc__)
#args = {"--padmet":"/home/maite/Forge/docker/aureme_workspace/bft/networks/draft_curated.padmet,/home/maite/Forge/docker/aureme_workspace/bft/networks/bft_final.padmet", "-v":True,"--output_dir":"/home/maite/Forge/docker/aureme_workspace/bft/networks/compare"}
root_folder = args["--output_dir"]
root_folder = args["--output"]
if not root_folder.endswith("/"): root_folder += "/"
verbose = args["-v"]
padmetRef = PadmetRef(args["--padmetRef"])
......
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