# Path: brede/config.py
# CONFIG_FILENAMES = [
#     'brede.cfg',
#     '~/etc/brede.cfg',
#     '~/brede.cfg']
# DEFAULTS = """
# [requests]
# user_agent = brede
# 
# [data]
# data_dir = ~/brede_data
# """


import errno
import logging
import os
import time
    import cPickle as pickle
    import pickle
from datetime import datetime
from os.path import expanduser, join
    from ConfigParser import NoSectionError
    from configparser import NoSectionError
from Bio import Entrez, Medline
from brede.config import config
    from docopt import docopt

try:
except ImportError:





class Pubmed(object):
    """Interface to Pubmed bibliographic information.

    PubMed data in the form of MEDLINE records are cache on the local
    filesystem as pickle data in the data directory. If the record is not
    available locally it is fetch via the Internet on the Entrez server.
    """

    last_download_time = datetime.now()

    def __init__(self):
        """Setup directories."""
        self.logger = logging.getLogger(__name__ + '.Pubmed')
        self.logger.addHandler(logging.NullHandler())

        self.data_dir = expanduser(config.get('data', 'data_dir'))
        self.logger.info('Data directory: {}'.format(self.data_dir))
        self.pubmed_dir = join(self.data_dir, 'pubmed')
        self.setup_data_dir()
        self.pause_between_downloads = 0.334

        try:

# Path: brede/config.py
# CONFIG_FILENAMES = [
#     'brede.cfg',
#     '~/etc/brede.cfg',
#     '~/brede.cfg']
# DEFAULTS = """
# [requests]
# user_agent = brede
# 
# [data]
# data_dir = ~/brede_data
# """


# Path: brede/data/pubmed.py
import errno
import logging
import os
import time
    import cPickle as pickle
    import pickle
from datetime import datetime
from os.path import expanduser, join
    from ConfigParser import NoSectionError
    from configparser import NoSectionError
from Bio import Entrez, Medline
from brede.config import config
    from docopt import docopt


try:
except ImportError:





class Pubmed(object):
    """Interface to Pubmed bibliographic information.

    PubMed data in the form of MEDLINE records are cache on the local
    filesystem as pickle data in the data directory. If the record is not
    available locally it is fetch via the Internet on the Entrez server.
    """

    last_download_time = datetime.now()

    def __init__(self):
        """Setup directories."""
        self.logger = logging.getLogger(__name__ + '.Pubmed')
        self.logger.addHandler(logging.NullHandler())

        self.data_dir = expanduser(config.get('data', 'data_dir'))
        self.logger.info('Data directory: {}'.format(self.data_dir))
        self.pubmed_dir = join(self.data_dir, 'pubmed')
        self.setup_data_dir()
        self.pause_between_downloads = 0.334

        try:

            Entrez.email = config.get('bio', 'email')