Add ability to cache ETL data sources (#2169)

* Add a rough prototype allowing a developer to pre-download data sources for all ETLs

* Update code to be more production-ish

* Move fetch to Extract part of ETL
* Create a downloader to house all downloading operations
* Remove unnecessary "name" in data source

* Format source files with black

* Fix issues from pylint and get the tests working with the new folder structure

* Clean up files with black

* Fix unzip test

* Add caching notes to README

* Fix tests (linting and case sensitivity bug)

* Address PR comments and add API keys for census where missing

* Merging comparator changes from main into this branch for the sake of the PR

* Add note on using cache (-u) during pipeline
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Travis Newby 2023-03-03 12:26:24 -06:00 committed by GitHub
commit 6f39033dde
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52 changed files with 1787 additions and 686 deletions

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@ -3,6 +3,8 @@ from data_pipeline.etl.base import ExtractTransformLoad
from data_pipeline.etl.base import ValidGeoLevel
from data_pipeline.score import field_names
from data_pipeline.utils import get_module_logger
from data_pipeline.etl.datasource import DataSource
from data_pipeline.etl.datasource import ZIPDataSource
logger = get_module_logger(__name__)
@ -15,11 +17,18 @@ class EJSCREENETL(ExtractTransformLoad):
INPUT_GEOID_TRACT_FIELD_NAME: str = "ID"
def __init__(self):
self.EJSCREEN_FTP_URL = "https://gaftp.epa.gov/EJSCREEN/2021/EJSCREEN_2021_USPR_Tracts.csv.zip"
self.EJSCREEN_CSV = (
self.get_tmp_path() / "EJSCREEN_2021_USPR_Tracts.csv"
# fetch
self.ejscreen_url = "https://gaftp.epa.gov/EJSCREEN/2021/EJSCREEN_2021_USPR_Tracts.csv.zip"
# input
self.ejscreen_source = (
self.get_sources_path() / "EJSCREEN_2021_USPR_Tracts.csv"
)
# output
self.CSV_PATH = self.DATA_PATH / "dataset" / "ejscreen"
self.df: pd.DataFrame
self.COLUMNS_TO_KEEP = [
@ -43,22 +52,29 @@ class EJSCREENETL(ExtractTransformLoad):
field_names.UST_FIELD,
]
def extract(self) -> None:
super().extract(
self.EJSCREEN_FTP_URL,
self.get_tmp_path(),
verify=False, # EPA EJScreen end point has certificate issues often
)
def get_data_sources(self) -> [DataSource]:
return [
ZIPDataSource(
source=self.ejscreen_url, destination=self.get_sources_path()
)
]
def extract(self, use_cached_data_sources: bool = False) -> None:
super().extract(
use_cached_data_sources
) # download and extract data sources
def transform(self) -> None:
self.df = pd.read_csv(
self.EJSCREEN_CSV,
self.ejscreen_source,
dtype={self.INPUT_GEOID_TRACT_FIELD_NAME: str},
# EJSCREEN writes the word "None" for NA data.
na_values=["None"],
low_memory=False,
)
def transform(self) -> None:
# rename ID to Tract ID
self.output_df = self.df.rename(
columns={