# Copyright (c) 2021. Harvard University
#
# Developed by Research Software Engineering,
# Faculty of Arts and Sciences, Research Computing (FAS RC)
# Author: Michael A Bouzinier
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
#
import argparse
from deprecated.sphinx import deprecated
from nsaph import init_logging
from nsaph.data_model.model import Table
from nsaph.db import Connection
## Area Deprivation Index (ADI)
## https://www.neighborhoodatlas.medicine.wisc.edu/
[docs]@deprecated(
reason="We do not support automatic import of ADI dataset",
version="0.2"
)
def add_gis_columns(table: Table, db: str = None, section: str = None):
with Connection(filename=db, section=section) as connection:
cur = connection.cursor()
table.parse_fips12(cur)
table.make_int_column(cur, "adi_natrank", "nat_rank", index=False)
table.make_int_column(cur, "adi_staternk", "state_rank", index=False)
table.make_iso_column("fips5", cur, include="nat_rank")
connection.commit()
if __name__ == '__main__':
init_logging()
parser = argparse.ArgumentParser (description="Post-process ADI data")
parser.add_argument("--tdef", "-t",
help="Path to a table definition file for a table",
required=True)
parser.add_argument("--db",
help="Path to a database connection parameters file",
default="database.ini",
required=False)
parser.add_argument("--section",
help="Section in the database connection parameters file",
default="postgres",
required=False)
args = parser.parse_args()
table = Table(args.tdef, None)
add_gis_columns (table, args.db, args.section)