def main(argv=sys.argv):
if len(argv) != 2 and len(argv) != 3:
usage(argv)
config_uri = argv[1]
setup_logging(config_uri)
settings = get_appsettings(config_uri)
engine = engine_from_config(settings, 'sqlalchemy.')
DBSession.configure(bind=engine)
dir_name = dump_data()
if len(argv) == 3 and argv[2] == '--make-id-start-0':
id_verificator.start(dir_name)
def main(argv=sys.argv):
if len(argv) != 2 and len(argv) != 3:
usage(argv)
config_uri = argv[1]
setup_logging(config_uri)
settings = get_appsettings(config_uri)
engine = engine_from_config(settings, 'sqlalchemy.')
DBSession.configure(bind=engine)
script_dir = os.path.dirname(__file__)
rel_path_source_data = "../source_data/"
source_data_dir = os.path.join(script_dir, rel_path_source_data)
parse_data(source_data_dir)
verify_ids()
def main(argv=sys.argv):
if len(argv) != 2 and len(argv) != 3:
usage(argv)
config_uri = argv[1]
conf_parser_args = argv[2]
conf_parser = dict((k, True) for k in conf_parser_args.split(','))
setup_logging(config_uri)
settings = get_appsettings(config_uri)
engine = engine_from_config(settings, 'sqlalchemy.')
DBSession.configure(bind=engine)
script_dir = os.path.dirname(__file__)
rel_path_source_data = "./csv/"
source_data_dir = os.path.join(script_dir, rel_path_source_data)
csv_data = parse_data(source_data_dir)
analyze(csv_data, conf_parser)
def main(argv=sys.argv):
usage = 'usage: %prog -i INPUTFILE -c <config_uri>\n (example: "%prog -i data.scv development.ini")'
parser = OptionParser(usage = usage)
parser.add_option("-i", "--input", dest="infile",
action='store', type="string", help="read csv from INPUT file")
parser.add_option("-c", "--config", dest="config",
action='store', type="string", help="config file")
(options, args) = parser.parse_args()
if options.infile == None or options.config == None:
parser.error("incorrect number of arguments")
config_uri = options.config
setup_logging(config_uri)
settings = get_appsettings(config_uri)
engine = engine_from_config(settings, 'sqlalchemy.')
DBSession.configure(bind=engine)
# Заполним таблицы данными:
gen_sql(read_data(options.infile))
def main(global_config, **settings):
""" This function returns a Pyramid WSGI application.
"""
engine = engine_from_config(settings, 'sqlalchemy.')
DBSession.configure(bind=engine)
my_session_factory = UnencryptedCookieSessionFactoryConfig('sosecret')
authn_policy = AuthTktAuthenticationPolicy('sosecret', callback=groupfinder)
authz_policy = ACLAuthorizationPolicy()
config = Configurator(
settings=settings,
root_factory=my_session_factory,
authentication_policy=authn_policy,
authorization_policy=authz_policy
)
config.include('pyramid_mako')
config.add_static_view('static', 'nextgisbio:static', cache_max_age=3600)
config.add_static_view('contrib', 'nextgisbio:contrib', cache_max_age=3600)
config.add_route('home', '/', factory=RootFactory)
config.add_route('taxons_editor', '/taxons/editor', factory=RootFactory)
config.add_route('login', '/login', factory=RootFactory)
config.add_route('logout', '/logout', factory=RootFactory)
config.add_route('taxon_filter', '/taxon/filter', factory=RootFactory)
config.add_route('species_name', '/species', factory=RootFactory)
config.add_route('taxon_direct_child', '/taxon/direct_child', factory=RootFactory)
config.add_route('get_taxon_path', '/taxon/path/{id}', factory=RootFactory)
config.add_route('taxon_type', '/taxon/type/{id}', factory=RootFactory)
config.add_route('taxon_cbtree', '/cbtree/taxons', factory=RootFactory)
config.add_route('get_taxon_tree_childrens', '/tree/taxons/{taxon_parent_id}', factory=RootFactory)
config.add_route('taxon_tree', '/tree/taxons/', factory=RootFactory)
config.add_route('get_child_taxons_by_parent', '/taxon/child', factory=RootFactory)
config.add_route('get_taxon', '/taxon/{id}', factory=RootFactory)
config.add_route('get_synonyms', 'taxons/synonyms/{taxon_id}/', factory=RootFactory)
config.add_route('synonyms_by_taxon', 'taxons/synonyms/{taxon_id}/{synonym_id}', factory=RootFactory)
# reports
config.add_route('protected_species_list', '/reports/protected_species_list', factory=RootFactory)
config.add_route('redbook_filter', '/redbook/filter', factory=RootFactory)
config.add_route('species_by_redbook', '/species/redbook/{redbook_id}', factory=RootFactory)
# Фильтр видов по его типу, подстроки названия и (если указан) id
config.add_route('species_filter', '/species/{type}/{id:[0-9]*}', factory=RootFactory)
# Карточки наблюдений, где был описан определенный таксон:
config.add_route('points_text', '/points_text/', factory=RootFactory)
# Экспорт карточек наблюдений
config.add_route('cards_download', '/cards_download/{format}/', factory=RootFactory)
# Создание новой карточки наблюдения
config.add_route('new_card', '/cards/new', factory=RootFactory)
# Сохранить карточку после редактирования
config.add_route('save_card', '/cards/save', factory=RootFactory)
# Карточка наблюдений в формате json
config.add_route('cards_view', '/cards/{id}', factory=RootFactory)
config.add_route('card', '/card/{id}', factory=RootFactory)
config.add_route('get_card_images', '/card/{id}/images', factory=RootFactory)
# Аннотированные списки в квадрате № id, с описанем определенного таксона:
config.add_route('anns_text', '/anns_text/square/{id}', factory=RootFactory)
# Экспорт аннотированных списков
config.add_route('anns_download', '/anns_download/{format}/', factory=RootFactory)
# Создание нового анн. списка
config.add_route('new_anlist', '/annotation/new', factory=RootFactory)
# Сохранить анн. список после редактирования
config.add_route('save_anlist', '/annotation/save', factory=RootFactory)
config.add_route('annotation', '/annotation/{id}', factory=RootFactory)
# Квадраты и ключевые участки
config.add_route('squares_text', '/squares_text/', factory=RootFactory)
# Квадрат и ключевые участки, на которые он попадает
config.add_route('square', '/square/{id}', factory=RootFactory)
# Аннотации по ключевому участку
config.add_route('karea_ann', '/key_area/{id}/ann', factory=RootFactory)
# Квадраты, где был найден определенный таксон:
config.add_route('areal_text', '/areal_text/', factory=RootFactory)
# Квадраты, где был найден определенный таксон:
config.add_route('areal_download', '/areal/download/', factory=RootFactory)
# Выдать данные из таблицы связей квадраты-КУ в формате csv
config.add_route('s_ka_association_download', 'association_download', factory=RootFactory)
config.add_route('upload_image', '/images/upload/{type}/{id}', factory=RootFactory)
config.add_route('remove_image', '/images/remove/{type}/{image_id}', factory=RootFactory)
config.add_route('cards_table', '/cards/table/', factory=RootFactory)
config.add_route('cards_jtable_browse', '/cards/manager/jtable/list', factory=RootFactory)
config.add_route('cards_by_user', '/reports/cards_by_user/', factory=RootFactory)
config.add_route('cards_by_user_jtable_browse', '/reports/cards_by_user/jtable/list', factory=RootFactory)
config.add_route('export_cards_table', '/export/cards/', factory=RootFactory)
config.add_route('persons_manager', '/persons/manager', factory=RootFactory)
config.add_route('persons_jtable_browse', '/persons/manager/jtable/list', factory=RootFactory)
config.add_route('persons_jtable_save', '/persons/manager/jtable/save', factory=RootFactory)
config.add_route('persons_jtable_delete', '/persons/manager/jtable/delete', factory=RootFactory)
config.add_route('persons_get_users_options', '/persons/manager/options/users', factory=RootFactory)
config.add_route('get_users', '/users/', factory=RootFactory)
# Справочники:
config.add_route('person_name', '/person_name', factory=RootFactory)
# Инфоресурсы
config.add_route('inforesources_name', 'inforesources_name', factory=RootFactory)
# jtable specific views
config.add_route('table_browse_jtable', '{table}/jtable', factory=RootFactory)
config.add_route('table_save_jtable', '{table}/jtable/save', factory=RootFactory)
config.add_route('table_delete_jtable', '{table}/jtable/delete', factory=RootFactory)
# Выдать данные из таблицы в формате json
config.add_route('table_browse', '{table}_browse', factory=RootFactory)
# Выдать данные по конкретной записи из таблицы в формате json:
config.add_route('table_view', '/{table}/{id}', factory=RootFactory)
# Выдать данные из таблицы в формате csv
config.add_route('table_download', '{table}_download', factory=RootFactory)
config.scan()
return config.make_wsgi_app()
def main(argv=sys.argv):
if len(argv) != 2 and len(argv) != 3:
usage(argv)
config_uri = argv[1]
setup_logging(config_uri)
settings = get_appsettings(config_uri)
engine = engine_from_config(settings, 'sqlalchemy.')
DBSession.configure(bind=engine)
md5_pass = False
if len(argv) == 3 and argv[2] == '--md5-pass':
md5_pass = True
Base.metadata.drop_all(engine)
Base.metadata.create_all(engine)
# Заполним таблицы данными:
# Таксоны
taxons_file = 'nextgisbio/initial_data/csv/taxon.csv'
Taxon.add_from_file(taxons_file)
synonym_file = 'nextgisbio/initial_data/csv/synonym.csv'
Synonym.add_from_file(synonym_file)
# Справочники
person_file = 'nextgisbio/initial_data/csv/person.csv'
Person.add_from_file(person_file)
taxa_file = 'nextgisbio/initial_data/csv/taxa_scheme.csv'
Taxa_scheme.add_from_file(taxa_file)
museum_file = 'nextgisbio/initial_data/csv/museum.csv'
Museum.add_from_file(museum_file)
coord_type_file = 'nextgisbio/initial_data/csv/coord_type.csv'
Coord_type.add_from_file(coord_type_file)
ant_file = 'nextgisbio/initial_data/csv/anthr_press.csv'
Anthr_press.add_from_file(ant_file)
vital_file = 'nextgisbio/initial_data/csv/vitality.csv'
Vitality.add_from_file(vital_file)
abundance_file = 'nextgisbio/initial_data/csv/abundance.csv'
Abundance.add_from_file(abundance_file)
footprint_file = 'nextgisbio/initial_data/csv/footprint.csv'
Footprint.add_from_file(footprint_file)
pheno_file = 'nextgisbio/initial_data/csv/pheno.csv'
Pheno.add_from_file(pheno_file)
infores_file = 'nextgisbio/initial_data/csv/inforesources.csv'
Inforesources.add_from_file(infores_file)
area_type_file = 'nextgisbio/initial_data/csv/area_type.csv'
Area_type.add_from_file(area_type_file)
legend_file = 'nextgisbio/initial_data/csv/legend.csv'
Legend.add_from_file(legend_file)
key_area_file = 'nextgisbio/initial_data/csv/key_area.csv'
Key_area.add_from_file(key_area_file)
# Нужно добавить шейпы и заполнить данными таблицу
# связей (square_keyarea_association) многие-ко-многим между Squares и Key_area
shp_file = 'nextgisbio/initial_data/shp/key_areas_25km.shp'
association_file = 'nextgisbio/initial_data/csv/square_karea_association.csv'
Squares.add_from_file(association_file, shp_file)
# Карточки и аннотации
cards_file = 'nextgisbio/initial_data/csv/cards.csv'
Cards.add_from_file(cards_file)
ann_file = 'nextgisbio/initial_data/csv/annotation.csv'
Annotation.add_from_file(ann_file)
# Пользователи
users_file = 'nextgisbio/initial_data/csv/user.csv'
User.add_from_file(users_file, md5_pass)
red_books_csv = 'nextgisbio/initial_data/csv/redbooks.csv'
RedBook.import_from_csv(red_books_csv)
images_csv = 'nextgisbio/initial_data/csv/images.csv'
Images.import_from_csv(images_csv)
cards_images_csv = 'nextgisbio/initial_data/csv/cards_images.csv'
CardsImages.import_from_csv(cards_images_csv)
