#!/usr/bin/env python
import os
if not 'DJANGO_SETTINGS_MODULE' in os.environ:
    os.environ['DJANGO_SETTINGS_MODULE'] = 'htsworkflow.settings'

import logging
import sys
from htsworkflow.pipelines.retrieve_config import *
from htsworkflow.pipelines import retrieve_config

#Turn on built-in command-line parsing.
retrieve_config.DISABLE_CMDLINE = False


def main(argv=None):
    if argv is None:
        argv = sys.argv

    #Display help if no args are presented
    options = getCombinedOptions(argv)

    if options.verbose:
        logging.basicConfig(level=logging.DEBUG)
    else:
        logging.basicConfig(level=logging.INFO)

    msg_list = ['ERROR MESSAGES:']
    if options.flowcell is None:
        msg_list.append(
          "  Flow cell argument required. -f <flowcell> or "\
          "--flowcell=<flowcell>")

    if options.url is None:
        msg_list.append(
          "  URL argument required (-u <url> or --url=<url>), or entry\n" \
          "    in /etc/ga_frontend/ga_frontend.conf or ~/.ga_frontend.conf")

    if options.genome_dir is None:
        msg_list.append(
          "  genome_dir argument required (-g <genome_dir> or \n" \
          "    --genome_dir=<genome_dir>, or entry in \n" \
          "    /etc/ga_frontend/ga_frontend.conf or ~/.ga_frontend.conf")

    if len(msg_list) > 1:
        print '\n'.join(msg_list)
        return 1

    saveConfigFile(options)

    return 0

if __name__ == "__main__":
    sys.exit(main(sys.argv[1:]))