Cleaning up quick code (#1349)

Did some quick, mostly cosmetic changes and updates to the quick launch changes. This mostly entailed changing strings to constants and cleaning up some code to make it neater.

Changes -- PR AMI, updating ag loss, and dropping pr from some threshold counts.
This commit is contained in:
Emma Nechamkin 2022-03-02 16:50:04 -05:00 committed by GitHub
parent df268d4d91
commit aea49cbb5a
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6 changed files with 341 additions and 348 deletions

View file

@ -22,7 +22,6 @@ DATA_CENSUS_CSV_DIR = DATA_CENSUS_DIR / "csv"
DATA_CENSUS_CSV_FILE_PATH = DATA_CENSUS_CSV_DIR / "us.csv"
DATA_CENSUS_CSV_STATE_FILE_PATH = DATA_CENSUS_CSV_DIR / "fips_states_2010.csv"
# Score paths
DATA_SCORE_DIR = DATA_PATH / "score"
@ -66,6 +65,9 @@ CENSUS_COUNTIES_COLUMNS = ["USPS", "GEOID", "NAME"]
# Drop FIPS codes from map
DROP_FIPS_CODES = ["66", "78"]
# Drop FIPS codes from incrementing
DROP_FIPS_FROM_NON_WTD_THRESHOLDS = "72"
# Percent prefixes for rounding
PERCENT_PREFIXES_SUFFIXES = [
"Percent",

View file

@ -298,33 +298,20 @@ class ScoreETL(ExtractTransformLoad):
] = df[input_column_name].rank(pct=True, ascending=ascending)
else:
# For agricultural loss, we are using whether there is value at all to determine percentile
# This is not the most thoughtfully written code, but it works.
# Take only rows with agrivalue
tmp_df = df[df[field_names.AGRICULTURAL_VALUE_BOOL_FIELD] == 1][
[input_column_name, field_names.GEOID_TRACT_FIELD]
].copy()
# Construct a percentile only among those tracts
tmp_df["temporary_ranking"] = tmp_df[input_column_name].transform(
lambda x: x.rank(pct=True, ascending=True)
)
# # Create a map for just those tracts and map it onto the df
temporary_ranking = tmp_df.set_index(field_names.GEOID_TRACT_FIELD)[
"temporary_ranking"
].to_dict()
# For agricultural loss, we are using whether there is value at all to determine percentile and then
# filling places where the value is False with 0
df[
f"{output_column_name_root}"
f"{field_names.PERCENTILE_FIELD_SUFFIX}"
] = np.where(
df[field_names.AGRICULTURAL_VALUE_BOOL_FIELD].isna(),
np.nan,
df[field_names.GEOID_TRACT_FIELD]
.map(temporary_ranking)
.fillna(0),
] = (
df.where(
df[field_names.AGRICULTURAL_VALUE_BOOL_FIELD].astype(float)
== 1.0
)[input_column_name]
.rank(ascending=ascending, pct=True)
.fillna(
df[field_names.AGRICULTURAL_VALUE_BOOL_FIELD].astype(float)
)
)
# Create the urban/rural percentiles.

View file

@ -264,7 +264,8 @@ class CensusACSMedianIncomeETL(ExtractTransformLoad):
low_memory=False,
)
logger.info("Pulling PR info down.")
logger.info("Pulling PR tract list down.")
# This step is necessary because PR is not in geocorr at the level that gets joined
pr_file = self.get_tmp_path() / "pr_tracts" / "pr_tracts.csv"
download_file_from_url(
file_url=self.PUERTO_RICO_S3_LINK, download_file_name=pr_file
@ -273,11 +274,11 @@ class CensusACSMedianIncomeETL(ExtractTransformLoad):
filepath_or_buffer=self.get_tmp_path()
/ "pr_tracts"
/ "pr_tracts.csv",
# Skip second row, which has descriptions.
# The following need to remain as strings for all of their digits, not get converted to numbers.
dtype={"GEOID10_TRACT": str},
low_memory=False,
)
self.pr_tracts["State Abbreviation"] = "PR"
# Download MSA median incomes
logger.info("Starting download of MSA median incomes.")
@ -298,12 +299,10 @@ class CensusACSMedianIncomeETL(ExtractTransformLoad):
msa_median_incomes_df = self._transform_msa_median_incomes()
state_median_incomes_df = self._transform_state_median_incomes()
# Adds 945 PR tracts
geocorr_df_plus_pr = geocorr_df.merge(
self.pr_tracts, how="outer", indicator=True
)
# Adds 945 PR tracts to the geocorr dataframe
geocorr_df_plus_pr = geocorr_df.merge(self.pr_tracts, how="outer")
# Join tracts on MSA incomes (this is where we lose PR)
# Join tracts on MSA incomes
merged_df = geocorr_df_plus_pr.merge(
msa_median_incomes_df, on=self.MSA_ID_FIELD_NAME, how="left"
)

View file

@ -5,6 +5,7 @@ import pandas as pd
from data_pipeline.score.score import Score
import data_pipeline.score.field_names as field_names
from data_pipeline.utils import get_module_logger
import data_pipeline.etl.score.constants as constants
logger = get_module_logger(__name__)
@ -195,7 +196,8 @@ class ScoreM(Score):
)
self._increment_total_eligibility_exceeded(
climate_eligibility_columns, skip_fips=("72")
climate_eligibility_columns,
skip_fips=constants.DROP_FIPS_FROM_NON_WTD_THRESHOLDS,
)
return self.df[climate_eligibility_columns].any(axis="columns")
@ -239,7 +241,8 @@ class ScoreM(Score):
)
self._increment_total_eligibility_exceeded(
energy_eligibility_columns, skip_fips=("72")
energy_eligibility_columns,
skip_fips=constants.DROP_FIPS_FROM_NON_WTD_THRESHOLDS,
)
return self.df[energy_eligibility_columns].any(axis="columns")
@ -290,7 +293,8 @@ class ScoreM(Score):
)
self._increment_total_eligibility_exceeded(
transportion_eligibility_columns, skip_fips=("72")
transportion_eligibility_columns,
skip_fips=constants.DROP_FIPS_FROM_NON_WTD_THRESHOLDS,
)
return self.df[transportion_eligibility_columns].any(axis="columns")
@ -351,7 +355,8 @@ class ScoreM(Score):
)
self._increment_total_eligibility_exceeded(
housing_eligibility_columns, skip_fips=("72")
housing_eligibility_columns,
skip_fips=constants.DROP_FIPS_FROM_NON_WTD_THRESHOLDS,
)
return self.df[housing_eligibility_columns].any(axis="columns")
@ -402,7 +407,8 @@ class ScoreM(Score):
)
self._increment_total_eligibility_exceeded(
pollution_eligibility_columns, skip_fips=("72")
pollution_eligibility_columns,
skip_fips=constants.DROP_FIPS_FROM_NON_WTD_THRESHOLDS,
)
return self.df[pollution_eligibility_columns].any(axis="columns")
@ -432,7 +438,7 @@ class ScoreM(Score):
self._increment_total_eligibility_exceeded(
[field_names.WASTEWATER_DISCHARGE_LOW_INCOME_LOW_HIGHER_ED_FIELD],
skip_fips=("72"),
skip_fips=constants.DROP_FIPS_FROM_NON_WTD_THRESHOLDS,
)
return self.df[
@ -510,7 +516,8 @@ class ScoreM(Score):
)
self._increment_total_eligibility_exceeded(
health_eligibility_columns, skip_fips=("72")
health_eligibility_columns,
skip_fips=constants.DROP_FIPS_FROM_NON_WTD_THRESHOLDS,
)
return self.df[health_eligibility_columns].any(axis="columns")

View file

@ -152,7 +152,7 @@ pycparser = "*"
[[package]]
name = "charset-normalizer"
version = "2.0.11"
version = "2.0.12"
description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet."
category = "main"
optional = false
@ -163,7 +163,7 @@ unicode_backport = ["unicodedata2"]
[[package]]
name = "click"
version = "8.0.3"
version = "8.0.4"
description = "Composable command line interface toolkit"
category = "main"
optional = false
@ -311,7 +311,7 @@ python-versions = ">=3.6"
[[package]]
name = "filelock"
version = "3.4.2"
version = "3.6.0"
description = "A platform independent file lock."
category = "dev"
optional = false
@ -323,7 +323,7 @@ testing = ["covdefaults (>=1.2.0)", "coverage (>=4)", "pytest (>=4)", "pytest-co
[[package]]
name = "fiona"
version = "1.8.20"
version = "1.8.21"
description = "Fiona reads and writes spatial data files"
category = "main"
optional = false
@ -339,7 +339,7 @@ munch = "*"
six = ">=1.7"
[package.extras]
all = ["pytest (>=3)", "boto3 (>=1.2.4)", "pytest-cov", "shapely", "mock"]
all = ["boto3 (>=1.2.4)", "pytest-cov", "shapely", "pytest (>=3)", "mock"]
calc = ["shapely"]
s3 = ["boto3 (>=1.2.4)"]
test = ["pytest (>=3)", "pytest-cov", "boto3 (>=1.2.4)", "mock"]
@ -438,7 +438,7 @@ toml = {version = ">=0.10.2", markers = "python_version > \"3.6\""}
[[package]]
name = "ipykernel"
version = "6.8.0"
version = "6.9.1"
description = "IPython Kernel for Jupyter"
category = "main"
optional = false
@ -459,7 +459,7 @@ test = ["pytest (!=5.3.4)", "pytest-cov", "flaky", "ipyparallel"]
[[package]]
name = "ipython"
version = "7.31.1"
version = "7.32.0"
description = "IPython: Productive Interactive Computing"
category = "main"
optional = false
@ -684,7 +684,7 @@ test = ["nbformat", "nose", "pip", "requests", "mock"]
[[package]]
name = "jupyter-core"
version = "4.9.1"
version = "4.9.2"
description = "Jupyter core package. A base package on which Jupyter projects rely."
category = "main"
optional = false
@ -786,7 +786,7 @@ toml = "*"
[[package]]
name = "lxml"
version = "4.7.1"
version = "4.8.0"
description = "Powerful and Pythonic XML processing library combining libxml2/libxslt with the ElementTree API."
category = "main"
optional = false
@ -800,11 +800,11 @@ source = ["Cython (>=0.29.7)"]
[[package]]
name = "markupsafe"
version = "2.0.1"
version = "2.1.0"
description = "Safely add untrusted strings to HTML/XML markup."
category = "main"
optional = false
python-versions = ">=3.6"
python-versions = ">=3.7"
[[package]]
name = "matplotlib"
@ -892,9 +892,20 @@ category = "dev"
optional = false
python-versions = "*"
[[package]]
name = "nb-black"
version = "1.0.7"
description = "A simple extension for Jupyter Notebook and Jupyter Lab to beautify Python code automatically using Black."
category = "dev"
optional = false
python-versions = "*"
[package.dependencies]
ipython = "*"
[[package]]
name = "nbclient"
version = "0.5.10"
version = "0.5.11"
description = "A client library for executing notebooks. Formerly nbconvert's ExecutePreprocessor."
category = "main"
optional = false
@ -908,11 +919,11 @@ traitlets = ">=4.2"
[package.extras]
sphinx = ["Sphinx (>=1.7)", "sphinx-book-theme", "mock", "moto", "myst-parser"]
test = ["ipython", "ipykernel", "ipywidgets (<8.0.0)", "pytest (>=4.1)", "pytest-cov (>=2.6.1)", "check-manifest", "flake8", "mypy", "xmltodict", "black", "pip (>=18.1)", "wheel (>=0.31.0)", "setuptools (>=38.6.0)", "twine (>=1.11.0)"]
test = ["ipython (<8.0.0)", "ipykernel", "ipywidgets (<8.0.0)", "pytest (>=4.1)", "pytest-asyncio", "pytest-cov (>=2.6.1)", "check-manifest", "flake8", "mypy", "xmltodict", "black", "pip (>=18.1)", "wheel (>=0.31.0)", "setuptools (>=38.6.0)", "twine (>=1.11.0)"]
[[package]]
name = "nbconvert"
version = "6.4.1"
version = "6.4.2"
description = "Converting Jupyter Notebooks"
category = "main"
optional = false
@ -934,11 +945,11 @@ testpath = "*"
traitlets = ">=5.0"
[package.extras]
all = ["pytest", "pytest-cov", "pytest-dependency", "ipykernel", "ipywidgets (>=7)", "pyppeteer (==0.2.6)", "tornado (>=4.0)", "sphinx (>=1.5.1)", "sphinx-rtd-theme", "nbsphinx (>=0.2.12)", "ipython"]
all = ["pytest", "pytest-cov", "pytest-dependency", "ipykernel", "ipywidgets (>=7)", "pyppeteer (>=1,<1.1)", "tornado (>=4.0)", "sphinx (>=1.5.1)", "sphinx-rtd-theme", "nbsphinx (>=0.2.12)", "ipython"]
docs = ["sphinx (>=1.5.1)", "sphinx-rtd-theme", "nbsphinx (>=0.2.12)", "ipython"]
serve = ["tornado (>=4.0)"]
test = ["pytest", "pytest-cov", "pytest-dependency", "ipykernel", "ipywidgets (>=7)", "pyppeteer (==0.2.6)"]
webpdf = ["pyppeteer (==0.2.6)"]
test = ["pytest", "pytest-cov", "pytest-dependency", "ipykernel", "ipywidgets (>=7)", "pyppeteer (>=1,<1.1)"]
webpdf = ["pyppeteer (>=1,<1.1)"]
[[package]]
name = "nbformat"
@ -998,7 +1009,7 @@ test = ["pytest", "coverage", "requests", "nbval", "selenium", "pytest-cov", "re
[[package]]
name = "numpy"
version = "1.22.1"
version = "1.22.2"
description = "NumPy is the fundamental package for array computing with Python."
category = "main"
optional = false
@ -1028,7 +1039,7 @@ pyparsing = ">=2.0.2,<3.0.5 || >3.0.5"
[[package]]
name = "pandas"
version = "1.4.0"
version = "1.4.1"
description = "Powerful data structures for data analysis, time series, and statistics"
category = "main"
optional = false
@ -1049,7 +1060,7 @@ test = ["hypothesis (>=5.5.3)", "pytest (>=6.0)", "pytest-xdist (>=1.31)"]
[[package]]
name = "pandas-vet"
version = "0.2.2"
version = "0.2.3"
description = "A flake8 plugin to lint pandas in an opinionated way"
category = "dev"
optional = false
@ -1108,7 +1119,7 @@ python-versions = "*"
[[package]]
name = "pillow"
version = "9.0.0"
version = "9.0.1"
description = "Python Imaging Library (Fork)"
category = "main"
optional = false
@ -1116,7 +1127,7 @@ python-versions = ">=3.7"
[[package]]
name = "platformdirs"
version = "2.4.1"
version = "2.5.1"
description = "A small Python module for determining appropriate platform-specific dirs, e.g. a \"user data dir\"."
category = "main"
optional = false
@ -1151,7 +1162,7 @@ twisted = ["twisted"]
[[package]]
name = "prompt-toolkit"
version = "3.0.26"
version = "3.0.28"
description = "Library for building powerful interactive command lines in Python"
category = "main"
optional = false
@ -1327,7 +1338,7 @@ python-versions = "*"
[[package]]
name = "pywinpty"
version = "2.0.1"
version = "2.0.2"
description = "Pseudo terminal support for Windows from Python."
category = "main"
optional = false
@ -1423,11 +1434,15 @@ requests = "*"
[[package]]
name = "semantic-version"
version = "2.8.5"
version = "2.9.0"
description = "A library implementing the 'SemVer' scheme."
category = "dev"
optional = false
python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
python-versions = ">=2.7"
[package.extras]
dev = ["Django (>=1.11)", "nose2", "tox", "check-manifest", "coverage", "flake8", "wheel", "zest.releaser", "readme-renderer (<25.0)", "colorama (<=0.4.1)"]
doc = ["sphinx", "sphinx-rtd-theme"]
[[package]]
name = "send2trash"
@ -1460,7 +1475,7 @@ toml = ["setuptools (>=42)"]
[[package]]
name = "shapely"
version = "1.8.0"
version = "1.8.1.post1"
description = "Geometric objects, predicates, and operations"
category = "main"
optional = false
@ -1497,14 +1512,14 @@ test = ["pytest"]
[[package]]
name = "testpath"
version = "0.5.0"
version = "0.6.0"
description = "Test utilities for code working with files and commands"
category = "main"
optional = false
python-versions = ">= 3.5"
[package.extras]
test = ["pytest", "pathlib2"]
test = ["pytest"]
[[package]]
name = "toml"
@ -1597,7 +1612,7 @@ test = ["pytest"]
[[package]]
name = "types-requests"
version = "2.27.8"
version = "2.27.11"
description = "Typing stubs for requests"
category = "main"
optional = false
@ -1608,7 +1623,7 @@ types-urllib3 = "<1.27"
[[package]]
name = "types-urllib3"
version = "1.26.9"
version = "1.26.10"
description = "Typing stubs for urllib3"
category = "main"
optional = false
@ -1616,7 +1631,7 @@ python-versions = "*"
[[package]]
name = "typing-extensions"
version = "4.0.1"
version = "4.1.1"
description = "Backported and Experimental Type Hints for Python 3.6+"
category = "main"
optional = false
@ -1648,7 +1663,7 @@ jellyfish = "0.6.1"
[[package]]
name = "virtualenv"
version = "20.13.0"
version = "20.13.2"
description = "Virtual Python Environment builder"
category = "dev"
optional = false
@ -1721,8 +1736,8 @@ testing = ["pytest (>=6)", "pytest-checkdocs (>=2.4)", "pytest-flake8", "pytest-
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lock-version = "1.1"
python-versions = "^3.8.1"
content-hash = "19f46ad08fe8d656ec3efb77bf07b783fa556862cda052838dfdef8e164c731b"
python-versions = "^3.8"
content-hash = "2f4eed83e5b153dafda74e7fd54b718ede6f4e960fb523c2d733643be76762a4"
[metadata.files]
appnope = [
@ -1840,12 +1855,12 @@ cffi = [
{file = "cffi-1.15.0.tar.gz", hash = "sha256:920f0d66a896c2d99f0adbb391f990a84091179542c205fa53ce5787aff87954"},
]
charset-normalizer = [
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click-plugins = [
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@ -1919,19 +1934,21 @@ et-xmlfile = [
{file = "et_xmlfile-1.1.0.tar.gz", hash = "sha256:8eb9e2bc2f8c97e37a2dc85a09ecdcdec9d8a396530a6d5a33b30b9a92da0c5c"},
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View file

@ -15,7 +15,7 @@ jupyter-contrib-nbextensions = "^0.5.1"
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numpy = "^1.22.1"
pandas = "^1.2.5"
pillow = "9.0.0"
pillow = "9.0.1"
python = "^3.8"
pypandoc = "^1.6.3"
requests = "^2.25.1"
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pytest-mock = "^3.6.1"
tox-poetry = "^0.4.1"
pandas-vet = "^0.2.2"
nb-black = "^1.0.7"
[build-system]
build-backend = "poetry.core.masonry.api"