Running the ETL Pipeline¶
So you want to run the PUDL data processing pipeline? This is the most involved way to get access to PUDL data. It’s only recommended if you want to edit the ETL process or contribute to the code base. Check out the Data Access documentation if you just want to use already processed data.
These instructions assume you have already gone through the Development Setup.
Database initialization¶
Before we run anything, we’ll need to make sure that the schema in the database
actually matches the schema in the code - run alembic upgrade head
to create
the database with the right schema. If you already have a pudl.sqlite
you’ll
need to delete it first.
Database schema migration¶
If you’ve changed the database schema, you’ll need to make a migration for that change and apply that migration to the database to keep the database schema up- to-date:
$ alembic revision --autogenerate -m "Add my cool table"
$ alembic upgrade head
$ git add migrations
$ git commit -m "Migration: added my cool table"
When switching branches, Alembic may refer to a migration version that is not on your current branch. This will manifest as an error like this when running an Alembic command:
FAILED: Can't locate revision identified by '29d443aadf25'
If you encounter that, you will want to check out the git branch that does
include that migration in the migrations
directory. Then you should run
alembic downgrade head-1
to revert the database to the prior version. Then
you can go back to the branch that doesn’t have your migration, and use Alembic
in peace.
If the migrations have diverged for more than one revision, you can specify the specific version you would like to downgrade to with its hash. You may also want to keep a copy of the old SQLite database around, so you can easily switch between branches without having to regenerate data.
More information can be found in the Alembic docs.
Dagster¶
PUDL uses Dagster to orchestrate its data pipelines. Dagster makes it easy to manage data dependences, parallelize processes, cache results and handle IO. If you are planning on contributing to PUDL, it is recommended you read through the Dagster Docs to familiarize yourself with the tool’s main concepts.
There are a handful of Dagster concepts worth understanding prior to interacting with the PUDL data processing pipeline:
Dagster UI: The Dagster UI is used for monitoring and executing ETL runs.
Software Defined Assets (SDAs):
An asset is an object in persistent storage, such as a table, file, or persisted machine learning model. A software-defined asset is a Dagster object that couples an asset to the function and upstream assets that are used to produce its contents.
SDAs or “assets”, are the computation building blocks in a Dagster project. Assets are linked together to form a direct acyclic graph (DAG) which can be executed to persist the data created by the assets. In PUDL, each asset is a dataframe written to SQLite or parquet files. Assets in PUDL can be raw extracted dataframes, partially cleaned tables or fully normalized tables.
SDAs are created by applying the @asset
decorator to a function.
The main PUDL ETL is composed of assets. Assets can be “materialized”, which means running the associated functions and writing the output to disk somewhere. When you are running the main PUDL ETL, you are materializing assets.
Operations (Ops):
Ops are functions that are run in a graph. They are not linked to assets, and are a lower-level building block for orchestrating data processing pipelines.
Due to some limitations of the asset model, we need to use bare ops for the FERC-to-SQLite workflow. When you are running that phase, you are launching a job run.
IO Managers:
IO Managers are user-provided objects that store asset outputs and load them as inputs to downstream assets.
Each asset has an IO Manager that tells
Dagster how to handle the objects returned by the software defined asset’s
underlying function. The IO Managers in PUDL read and write dataframes to and
from sqlite, pickle and parquet files. For example, the
pudl.io_managers.pudl_sqlite_io_manager()
allows assets to read and write
dataframes and execute SQL statements.
Resources:
Resources are objects
that can be shared across multiple software-defined assets.
For example, multiple PUDL assets use the pudl.resources.datastore()
resource to pull data from PUDL’s raw data archives on Zenodo.
Generally, inputs to assets should either be other assets or python objects in Resources.
Jobs:
Jobs
are preconfigured collections of assets, resources and IO Managers.
Jobs are the main unit of execution in Dagster. For example,
the etl_fast
job defined in pudl.etl
executes the
FERC, EIA and EPA CEMS pipelines for the most recent year.
Definitions:
Definitions
are collections of assets, resources, IO managers and jobs that can
be loaded into the dagster UI and executed. Definitions can have multiple
preconfigured jobs. For example, the pudl.ferc_to_sqlite
definition
contains etl_fast
and etl_full
jobs.
There are two main Definitions in the PUDL processing pipeline:
pudl.ferc_to_sqlite.defs()
converts the FERC Form 1, 2, 6, 60 and 714 DBF/XBRL files into SQLite databases so that the data are easier to extract, and so all of the raw FERC data is available in a modern format. You must run a job in this definition before you can execute a job inpudl.etl.defs()
.pudl.etl.defs()
coordinates the “Extract, Transform, Load” process that processes 20+ years worth of data from the FERC Form 1 database, dozens of EIA spreadsheets, and the thousands of CSV files that make up the EPA CEMS hourly emissions data into a clean, well normalized SQLite database (for the FERC and EIA data), and an Apache Parquet dataset that is partitioned by state and year (for the EPA CEMS).
- Both definitions have two preconfigured jobs:
etl_fast
processes one year of dataetl_full
processes all years of data
Running the ETL via the Dagster UI¶
Dagster needs a directory to store run logs and some interim assets. We don’t
distribute these outputs, so we want to store them separately from
PUDL_OUTPUT
. Create a new directory outside of the pudl respository
directory called dagster_home/
. Then set the DAGSTER_HOME
environment
variable to the path of the new directory:
$ echo "export DAGSTER_HOME=/path/to/dagster_home" >> ~/.zshrc # zsh
$ echo "export DAGSTER_HOME=/path/to/dagster_home" >> ~/.bashrc # bash
$ set -Ux DAGSTER_HOME /path/to/dagster_home # fish
Add DAGSTER_HOME
to the currecnt session with
$ export DAGSTER_HOME=/path/to/dagster_home
Once DAGSTER_HOME
is set, launch the dagster UI by running:
$ dagster-webserver -m pudl.etl -m pudl.ferc_to_sqlite
To avoid typing out the dagster-webserver
command each time you want to launch
the UI, you can create an alias for the command in your shell:
$ echo "alias launch_dagster='dagster-webserver -m pudl.etl -m pudl.ferc_to_sqlite'" >> ~/.zshrc # zsh
$ echo "alias launch_dagster='dagster-webserver -m pudl.etl -m pudl.ferc_to_sqlite'" >> ~/.bashrc # bash
$ alias launch_dagster="dagster-webserver -m pudl.etl -m pudl.ferc_to_sqlite" # fish
Note
If DAGSTER_HOME
is not set, you will still be able to execute jobs but
dagster logs and outputs of assets that use the default fs_io_manager
will be saved to a temporary directory that is deleted when the dagster-webserver
process exits.
This will launch the dagster UI at http://localhost:3000/. You should see a window that looks like this:
Click the hamburger button in the upper left to view the definitions, assets and jobs.
Cloning the FERC databases¶
To run the data pipelines, you’ll first need to create the raw FERC databases by
clicking on one of the pudl.ferc_to_sqlite
jobs. Then select “Launchpad”
where you can adjust the years to extract for each dataset. Then click
“Launch Run” in the lower right hand corner of the window. The UI will
take you to a new window that provides information about the status of
the job. The bottom part of the window contains dagster logs. You can
view logs from the pudl
package in the CLI window the dagster-webserver
process
is running in.
You can adjust the years to process for each dataset using the Launchpad tab:
resources:
ferc_to_sqlite_settings:
config:
ferc1_dbf_to_sqlite_settings:
years:
- 2020
- 2019
- 2018
ferc1_xbrl_to_sqlite_settings:
years:
- 2021
ferc2_xbrl_to_sqlite_settings:
years:
- 2021
ferc60_xbrl_to_sqlite_settings:
years:
- 2021
ferc6_xbrl_to_sqlite_settings:
years:
- 2021
ferc714_xbrl_to_sqlite_settings:
years:
- 2021
Running the PUDL ETL¶
Once the raw FERC databases are created by a pudl.ferc_to_sqlite
job,
you can execute the main PUDL ETL.
Note
Make sure you’ve extracted the raw FERC years you are planning to process
with the main PUDL ETL. Jobs in the pudl.etl
definition will fail if
the raw FERC databases are missing requested years. For example, if you want
to process all years available in the pudl.etl
definition make sure
you’ve extracted all years of the raw FERC data.
Select one of the pudl.etl
jobs.
This will bring you to a window that displays all of the asset dependencies
in the pudl.etl
definition. Subsets of the pudl.etl
asset graph
are organized by asset groups. These groups are helfpul for visualizing and
executing subsets of the asset graph.
To execute the job, select etl_fast
or etl_full
and click “Materialize all”.
You can congifure which years to process by shift+clicking “Materialize all”.
Read the Configuring resources section to learn more.
To view the status of the run, click the date next to “Latest run:”.
You can also re-execute specific assets by selecting one or multiple assets in the “Overview” tab and clicking “Materialize selected”. This is helpful if you are updating the logic of a specific asset and don’t want to rerun the entire ETL.
Note
Dagster does not allow you to select asset groups for a specific job. For example, if
you click on the raw_eia860
asset group in the Dagster UI click “Materialize All”,
the default configuration values will be used so all available years of the data will
be extracted.
To process a subset of years for a specific asset group, select the asset group,
shift+click “Materialize all” and configure the dataset_settings
resource with the
desired years.
Note
Dagster will throw an DagsterInvalidSubsetError
if you try to
re-execute a subset of assets produced by a single function. This can
be resolved by re-materializing the asset group of the desired asset.
Read the Developing with Dagster documentation page to learn more about working with dagster.
Running the ETL with CLI Commands¶
You can also execute the ETL jobs using CLI commands. These are thin wrappers around Dagster’s job execution API.
Note
We recommend using the Dagster UI to execute the ETL as it provides additional functionality for re-execution and viewing asset dependences.
There are two main CLI commands for executing the PUDL processing pipeline:
ferc_to_sqlite
executes thepudl.ferc_to_sqlite
dagster graph. You must run this script before you can runpudl_etl
.pudl_etl
executes thepudl.etl
asset graph.
We also have targets set up in the Makefile
for running these scripts:
$ make ferc
$ make pudl
Settings Files¶
These CLI commands use YAML settings files in place of command line arguments. This avoids undue complexity and preserves a record of how the script was run. The YAML file dictates which years or states get run through the the processing pipeline. There are two standard settings files that we use to run the integration tests and the nightly builds included in the repository:
src/pudl/package_data/settings/etl_fast.yml
processes 1-2 years of data.src/pudl/package_data/settings/etl_full.yml
processes all available data.
Warning
In previous versions of PUDL, you could specify which datasources to process using the settings file. With the migration to dagster, all datasources are processed no matter what datasources are included in the settings file. If you want to process a single datasource, materialize the appropriate assets in the dagster UI. (see Running the ETL via the Dagster UI).
Each file contains instructions for how to process the data under “full” or “fast” conditions respectively. You can copy, rename, and modify these files to suit your needs. The layout of these files is depicted below:
# FERC1 to SQLite settings
ferc_to_sqlite_settings:
├── ferc1_dbf_to_sqlite_settings
| └── years
├── ferc1_xbrl_to_sqlite_settings
| └── years
└── ferc2_xbrl_to_sqlite_settings
└── years
# PUDL ETL settings
name : unique name identifying the etl outputs
title : short human readable title for the etl outputs
description : a longer description of the etl outputs
datasets:
├── dataset name
│ └── dataset etl parameter (e.g. years) : editable list of years
└── dataset name
└── dataset etl parameter (e.g. years) : editable list of years
Both scripts enable you to choose which years you want to include:
Parameter |
Description |
---|---|
|
A list of years to be included in the FERC Form 1 Raw DB or the PUDL DB. You should only use a continuous range of years. Check the Data Sources pages for the earliest available years. |
The pudl_etl
script CEMS data allows you to select years and states.
Parameter |
Description |
---|---|
|
A list of the years you’d like to process CEMS data for. You should only use a continuous range of years. Check the EPA Hourly Continuous Emission Monitoring System (CEMS) page for the earliest available years. |
|
A list of the state codes you’d like to process CEMS data for. You can specify
|
See also
For an exhaustive listing of the available parameters, see the etl_full.yml
file.
There are a few notable dependencies to be wary of when fiddling with these settings:
The
ferc_to_sqlite
job must be executed prior to runningpudl_etl
job.EPA CEMS cannot be loaded without EIA data unless you have existing PUDL database.
Now that your settings are configured, you’re ready to run the scripts.
The Fast ETL¶
Running the Fast ETL processes one year of data for each dataset. This is what we do in our software integration tests. Depending on your computer, it should take around 15 minutes total.
$ ferc_to_sqlite settings/etl_fast.yml
$ pudl_etl settings/etl_fast.yml
The Full ETL¶
The Full ETL settings includes all all available data that PUDL can process. All the years, all the states, and all the tables, including the ~1 billion record EPA CEMS dataset. Assuming you already have the data downloaded, on a computer with at least 16 GB of RAM, and a solid-state disk, the Full ETL including EPA CEMS should take around 2 hours.
$ ferc_to_sqlite src/pudl/package_data/settings/etl_full.yml
$ pudl_etl src/pudl/package_data/settings/etl_full.yml
Custom ETL¶
You’ve changed the settings and renamed the file to CUSTOM_ETL.yml
$ ferc_to_sqlite the/path/to/your/custom_etl.yml
$ pudl_etl the/path/to/your/custom_etl.yml
Additional Notes¶
The commands above should result in a bunch of Python logging
output describing
what the script is doing, and file outputs the directory you specified via the
$PUDL_OUTPUT
environment variable. When the ETL is complete, you should see new
files at e.g. $PUDL_OUTPUT/ferc1_dbf.sqlite
, $PUDL_OUTPUT/pudl.sqlite
and
$PUDL_OUTPUT/core_epacems__hourly_emissions.parquet
.
All of the PUDL scripts also have help messages if you want additional information (run
script_name --help
).
Foreign Keys¶
The order assets are loaded into pudl.sqlite
is non deterministic because the
assets are executed in parallel so foreign key constraints can not be evaluated in
real time. However, foreign key constraints can be evaluated after all of the data
has been loaded into the database. To check the constraints, run:
$ pudl_check_fks