Fargate Serverless Workers for Census Data Enrichment and Tile Generation (#230)

* add basic infrastructure

* add cloudfront distribution

* WIP checkpoint

* add ecs cluster

* add conditions and route53 dns entry to cloudfront

* WIP checkin

* Added a raw execution mode for demo/testing

* Add pre-defined Task for ogr2ogr

* Tweak Task Definition name

* Mostly working except for logging error

* Add additional logging permissions

* Succesfully executed ogr2ogr in fargate.  S3 permissions needs to be addresses

* Add multipart permissions

* Add a few more actions

* Put IAM Policy on the correct resource

* Deploy lambda and update events

* fix iam permissions 🤦🏻‍♂️

* Add reference to Tippecanoe container

* Clean up to only use named actions

* Refactor resources to include support for tippecanoe

* Make a more interesting GDAL command

* Pull all ECS variables into environment file; successful test of running tippecanoe container

* Support pre/post commands

* Refactor codebase and enable linting

* Implement many-to-many enrichment between USDS CSV files and Census zipped shapefiles

* Change the GDAL image to one with the built-in drivers

* Add some additional fixes to support the enrichment use case

* Clean up old hello-world example

* Expand the README to include ways to execute the lambdas

* Validate scheduled lambda execution and then comment out

Co-authored-by: Tim Zwolak <timothypage@gmail.com>
This commit is contained in:
Lucas Scharenbroich 2021-06-30 08:29:01 -05:00 committed by GitHub
commit 38fff9cea8
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module.exports = {
"env": {
"node": true,
"commonjs": true,
"es2020": true
},
"extends": "eslint:recommended",
"parserOptions": {
"ecmaVersion": 11
},
"rules": {
}
};

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/**
* Load an ECS Task Definition template and apply variable substitution
*/
async function createECSTaskDefinition(options, templateName, taskVars) {
const { fs, path } = options.deps;
const { util } = options.deps.local;
// Load the task template
const templatePath = path.join(__dirname, 'taskDefinitions', `${templateName}.json`);
const rawTaskTemplate = await fs.promises.readFile(templatePath, 'utf8');
// Perform variable substitution
const taskTemplate = util.applyVariableSubstitution(options, taskVars, rawTaskTemplate);
// Parse into a JSON object and return
return JSON.parse(taskTemplate);
}
/**
* Takes the event parameters and performs some variable substitution for the
* SQL query based on the actual S3 items being processed.
*/
function createECSTaskVariablesFromS3Record(options, record) {
const { event } = options;
const { REGION } = options.env;
const { util } = options.deps;
// Create substituion variables from the S3 record
const vars = util.createSubstitutionVariablesFromS3Record(options, record, 's3');
// Apply them to the SQL clause
const sql = util.applyVariableSubstitution(options, vars, event.sql);
// Return the modified event record
return {
...event,
REGION,
sql
};
}
/**
* Small utility function to look at a bash command line element and decide if it needs to
* be quoted and/or any characters escaped.
*
* Currently, it just takes are of double-quotes and does not do full nested escapes.
*/
function quoteAndEscape(s) {
// Escape any single quote chars using ASCII codes
// @see https://stackoverflow.com/a/42341860/332406
//
// Throw an exception if there are double-quotes in the command itself, soo much nested
// escaping for now....
if (s.includes('"')) {
throw new Error(`Double-quotes are not allowed in the container arguments`);
}
// If there are any space in the string, wrap it in escaped double-quotes
if (s.includes(' ')) {
return `"${s}"`;
}
return s;
}
/**
* Take an array of commands and modify it with a list of pre- and post-
* command to run in the image. This is primarily used to move files in
* and out of the container ephemeral storage.
*/
function wrapContainerCommand(options, pre, command, post) {
// We will run all of the commands as a chained bash command, so merge everything
// together using '&&' chaining.
//
// We expect the pre/post arrays to be full commands, while the command array is a list
// on individual pieces of a single command.
if (!pre && !post) {
return command;
}
const allCommands = [];
// Pre-commands come first
allCommands.push(...(pre || []));
// Turn the primary array of command line arguments into a single command line string. Be sure to
// quote/escape elements with spaces and double-quotes
allCommands.push(command.map(c => quoteAndEscape(c)).join(' '));
// And add in the post-commands last
allCommands.push(...(post || []));
// Return a new array of commands with everything chained using '&&' so that execution will terminate
// as soon as any command in the chain fails.
return ['/bin/sh', '-c', allCommands.join(' && ')];
}
/**
* Returns the appropriate ECS Task Definition name based on the current action
*/
function getTaskDefinitionName(options, event) {
const { GDAL_TASK_DEFINITION, TIPPECANOE_TASK_DEFINITION } = options.env;
const { action } = event;
switch (action) {
case 'gdal':
case 'ogr2ogr':
case 'enrichment':
return GDAL_TASK_DEFINITION;
case 'tippecanoe':
return TIPPECANOE_TASK_DEFINITION;
}
throw new Error(`No Fargate Task Definition defined for ${action}`);
}
/**
* Returns the appropriate ECS Container Definition name based on the current action
*/
function getFargateContainerDefinitionName(options, event) {
const { GDAL_CONTAINER_DEFINITION, TIPPECANOE_CONTAINER_DEFINITION } = options.env;
const { action } = event;
switch (action) {
case 'gdal':
case 'ogr2ogr':
case 'enrichment':
return GDAL_CONTAINER_DEFINITION;
case 'tippecanoe':
return TIPPECANOE_CONTAINER_DEFINITION
}
throw new Error(`No Fargate Container Definition Name defined for ${action}`);
}
/**
* Executes a (known) container in Fargate with the provided command line parameters.
*/
async function executeRawCommand(options, event) {
const { ecs, logger } = options.deps;
const { env } = options;
const { ECS_CLUSTER, VPC_SUBNET_ID } = env;
// If there are pre- or post- commands defined, wrap up the primary command
const containerCommand = wrapContainerCommand(options, event.pre, event.command, event.post);
// Get the name of the container that we are using
const containerDefinitionName = getFargateContainerDefinitionName(options, event);
// Create the full Task parameter object and execute
const params = {
taskDefinition: getTaskDefinitionName(options, event),
cluster: ECS_CLUSTER,
launchType: 'FARGATE',
count: 1,
networkConfiguration: { // Must be specified for tasks with `awsvpc` networking and awsvpc networking is required for FARGATE launch types
awsvpcConfiguration: {
subnets: [
VPC_SUBNET_ID
],
assignPublicIp: 'DISABLED',
securityGroups: []
}
},
overrides: {
containerOverrides: [
{
name: containerDefinitionName,
command: containerCommand
}
]
}
};
logger.info(`Executing ECS Task...`, JSON.stringify(params, null, 2));
return await ecs.runTask(params).promise();
}
module.exports = {
createECSTaskDefinition,
createECSTaskVariablesFromS3Record,
executeRawCommand,
getFargateContainerDefinitionName,
getTaskDefinitionName,
wrapContainerCommand
};

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{
"action": "enrichment",
"sourceBucketName": "j40-sit-justice40-data-harvester-data",
"sourceBucketPrefix": "usds/custom.csv",
"age": 86400,
"censusBucketName": "j40-sit-justice40-data-harvester-data",
"censusBucketPrefix": "census/tabblock2010_01_pophu.zip",
"pre": [
"wget https://j40-sit-justice40-data-harvester-data.s3.amazonaws.com/usds/${source.Key} -O /tmp/custom.csv"
],
"command": [
"--debug", "ON",
"-f", "GeoJSON",
"-sql", "SELECT * FROM ${census.Key:base} LEFT JOIN '/tmp/custom.csv'.custom ON ${census.Key:base}.BLOCKID10 = custom.BLOCKID10",
"/vsis3/j40-sit-justice40-data-harvester-data/joined/${source.Key:base}-${census.Key:base}.json",
"/vsizip//vsicurl/https://j40-sit-justice40-data-harvester-data.s3.amazonaws.com/census/${census.Key}"
]
}

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{
"action": "gdal",
"command": [
"ogrinfo",
"-al",
"-so",
"-ro",
"/vsizip//vsicurl/https://j40-sit-justice40-data-harvester-data.s3.amazonaws.com/census/tabblock2010_01_pophu.zip"
]
}

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{
"action": "ogr2ogr",
"command": [
"--debug", "ON",
"-f",
"GeoJSON",
"/vsis3/j40-sit-justice40-data-harvester-data/sources/tabblock2010_01_pophu.json",
"/vsizip//vsicurl/https://j40-sit-justice40-data-harvester-data.s3.amazonaws.com/census/tabblock2010_01_pophu.zip"
]
}

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{
"action": "tippecanoe",
"pre": [
"curl https://gp-sit-tileservice-tile-cache.s3.amazonaws.com/usds/usa.csv -o /tmp/usa.csv",
"curl https://gp-sit-tileservice-tile-cache.s3.amazonaws.com/usds/tristate.mbtiles -o /tmp/tristate.mbtiles"
],
"post": [
"aws s3 cp /tmp/tl_2010_bg_with_data.mbtiles s3://j40-sit-justice40-data-harvester-data/output/tl_2010_bg_with_data.mbtiles",
"tile-join --force -pk -pC -n tl_2010_bg -e /tmp/tiles /tmp/tl_2010_bg_with_data.mbtiles",
"aws s3 sync /tmp/tiles s3://j40-sit-justice40-data-harvester-data/output/tiles"
],
"command": [
"tile-join",
"--force",
"-pk",
"-n",
"tl_2010_bg",
"-o",
"/tmp/tl_2010_bg_with_data.mbtiles",
"-c",
"/tmp/usa.csv",
"/tmp/tristate.mbtiles"
]
}

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/**
* Create an appropriate GDAL path to an S3 object
*
function buildDestinationVSIS3Path(_options, name) {
return `/vsis3/${bucket}/${key}`;
}
*/
module.exports = {
// buildDestinationVSIS3Path
}

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// Standard modules
const fs = require('fs');
const path = require('path');
const { DateTime } = require('luxon');
const logger = console;
// AWS APIs
const AWS = require('aws-sdk');
// Local modules
const util = require('./util');
const gdal = require('./gdal');
const s3 = require('./s3');
const ecs = require('./ecs');
async function handler(event) {
// Build the options for the lambda
const options = initialize(event);
// Determine what action to take
switch (event.action) {
// Execute a raw command against the gdal container
case 'gdal':
return await ecs.executeRawCommand(options, event);
// Assume that we're running ogr2ogr
case 'ogr2ogr':
return await ecs.executeRawCommand(options, {
...event,
command: ['ogr2ogr', ...event.command]
});
case 'tippecanoe':
return await ecs.executeRawCommand(options, event);
// Combine USDS data with external data sources
case 'enrichment':
return await enrichDataWithUSDSAttributes(options, event);
default:
logger.warn(`Unknown action ${event.action}. Exiting`);
break;
}
}
async function enrichDataWithUSDSAttributes(options, event) {
const { logger } = options.deps;
const { util, ecs, s3 } = options.deps.local;
// Use the event.age to calculate the custoff for any input files
const cutoff = util.getTimestampCutoff(options);
logger.info(`Cutoff time of ${cutoff}`);
// Scan the source S3 bucket for items that need to be processed
const { sourceBucketName, sourceBucketPrefix } = event;
const sourceS3Records = await s3.fetchUpdatedS3Objects(options, sourceBucketName, sourceBucketPrefix, cutoff);
// If there are no input record, exit early
if (sourceS3Records.length === 0) {
logger.info(`There are no objects in s3://${sourceBucketName}/${sourceBucketPrefix} that have been modified after the cutoff date`);
return;
}
// Scan for the census records
const { censusBucketName, censusBucketPrefix } = event;
const censusS3Records = await s3.fetchS3Objects(options, censusBucketName, censusBucketPrefix);
// If there are no census datasets, exit early
if (censusS3Records.length === 0) {
logger.info(`There are no objects in s3://${censusBucketName}/${censusBucketPrefix}`);
return;
}
// Create a set of substitution variables for each S3 record that will be applied to the
// action template
const censusVariables = censusS3Records.map(r => util.createSubstitutionVariablesFromS3Record(options, r, 'census'));
const sourceVariables = sourceS3Records.map(r => util.createSubstitutionVariablesFromS3Record(options, r, 'source'));
// Kick off an ECS task for each (source, census) pair.
for ( const census of censusVariables ) {
for ( const source of sourceVariables) {
// Merge the variables together
const vars = { ...census, ...source };
// Let the logs know what's happening
logger.info(`Enriching ${vars['census.Key']} with ${vars['source.Key']}...`);
// Apply the substitutions to the pre, post, and command arrays
const pre = util.applyVariableSubstitutionToArray(options, vars, event.pre);
const post = util.applyVariableSubstitutionToArray(options, vars, event.post);
const command = util.applyVariableSubstitutionToArray(options, vars, event.command);
await ecs.executeRawCommand(options, {
...event,
pre,
command: ['ogr2ogr', ...command],
post
});
}
}
}
/**
* Wrap all dependencies in an object in order to inject as appropriate.
*/
function initialize(event) {
logger.debug('event:', JSON.stringify(event, null, 2));
return {
deps: {
DateTime,
fs,
logger,
path,
s3: new AWS.S3(),
ecs: new AWS.ECS(),
local: {
ecs,
gdal,
s3,
util
}
},
env: process.env,
event
};
}
module.exports = {
handler
};

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"dev": true
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}

View file

@ -0,0 +1,18 @@
{
"name": "detect-changes-for-worker",
"version": "0.0.1",
"description": "",
"scripts": {
"test:gdal": "cat ./events/gdal.json | docker run --rm -v ${PWD}:/var/task --env-file ./test.env -i -e DOCKER_LAMBDA_USE_STDIN=1 lambci/lambda:nodejs12.x index.handler",
"test:tippecanoe": "cat ./events/tippecanoe.json | docker run --rm -v ${PWD}:/var/task --env-file ./test.env -i -e DOCKER_LAMBDA_USE_STDIN=1 lambci/lambda:nodejs12.x index.handler",
"test:enrichment": "cat ./events/enrichment.json | docker run --rm -v ${PWD}:/var/task --env-file ./test.env -i -e DOCKER_LAMBDA_USE_STDIN=1 lambci/lambda:nodejs12.x index.handler"
},
"author": "Xentity",
"license": "ISC",
"dependencies": {
"luxon": "^1.27.0"
},
"devDependencies": {
"eslint": "^7.29.0"
}
}

View file

@ -0,0 +1,72 @@
/**
* Helper function to determine if we should interpret an S3 object as
* a "simple" file or a folder.
*/
function isSimpleObject(c, prefix) {
// If the object ends with a separator charater, interpret that as a folder
if (c.Key.endsWith('/')) {
return false;
}
// If the object is more deeply nested than the prefix, then ignore, e.g.
// prefix = /foo/bar = two separators
// c.Key = /foo/bar/baz = three separators [skip]
// c.Key = /foo/bar.txt = two separators [pass]
// This doesn't give the *exact* count, but all we really care about is that
// the value is the same for the prefix and the S3 Key.
const separatorCount = c.Key.split('/').length;
const prefixSeparatorCount = prefix.split('/').length;
return separatorCount === prefixSeparatorCount;
}
/**
* Return all of the simple S3 objects from a prefix that have a LastModified
* date after a cutoff date.
*
* This returns objects that have recently changed for re-processing.
*/
function fetchUpdatedS3Objects (options, bucket, prefix, cutoff) {
// Define a filter function that only looks at object on a single level of the
// bucket and removes any objects with a LastModified timestamp prior to the cutoff
const threshold = cutoff.toMillis();
const filterFunc = (c) => isSimpleObject(c, prefix) && (threshold < c.LastModified.getTime());
return fetchS3Objects(options, bucket, prefix, filterFunc);
}
/**
* Basic utility function to return S3 object from a bucket that match a given prefix. An
* optional filtering function can be passed in.
*/
async function fetchS3Objects (options, bucket, prefix, filterFunc = () => true) {
const { s3 } = options.deps;
const objects = [];
// Limit the results to items in this bucket with a specific prefix
const params = {
Bucket: bucket,
Prefix: prefix
};
do {
// Get all of the initial objects
const response = await s3.listObjectsV2(params).promise();
// Optionally, filter out objects
const contents = response.Contents.filter(filterFunc);
objects.push(...contents);
params.ContinuationToken = response.IsTruncated
? response.NextContinuationToken
: null;
} while (params.ContinuationToken);
return objects;
}
module.exports = {
isSimpleObject,
fetchS3Objects,
fetchUpdatedS3Objects
};

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@ -0,0 +1,25 @@
{
"containerDefinitions": [
{
"name": "ECSUSDSJustice40Worker",
"image": "osgeo/gdal:alpine-small-latest",
"cpu": 1024,
"environment": [
{
"name": "AWS_REGION",
"value": "${REGION}"
}
],
"command": [
"ogr2ogr",
"-f", "GeoJSON",
"-sql", "${sql}",
"${output}",
"${input}"
],
"memory": 1024,
"essential": true
}
],
"family": ""
}

View file

@ -0,0 +1,21 @@
{
"containerDefinitions": [
{
"name": "ECSUSDSJustice40Worker",
"image": "osgeo/gdal:alpine-small-latest",
"cpu": 1024,
"environment": [
{
"name": "AWS_REGION",
"value": "${REGION}"
}
],
"command": [
"ogr2ogr"
],
"memory": 1024,
"essential": true
}
],
"family": ""
}

View file

@ -0,0 +1,19 @@
REGION=us-east-1
STAGE=sit
# ESC Cluster name that will from the containers
ECS_CLUSTER=j40-sit-justice40-data-harvester-ECSCluster-ktXGGU9zjwkb
# VPC Private Subnet that has a NAT GAteway
VPC_SUBNET_ID=subnet-07e68cb57322f7b1f
# Names of the container and task names.
GDAL_TASK_DEFINITION=sit-justice40-data-harvester-gdal
GDAL_CONTAINER_DEFINITION=sit-justice40-data-harvester-osgeo-gdal
TIPPECANOE_TASK_DEFINITION=sit-justice40-data-harvester-tippecanoe
TIPPECANOE_CONTAINER_DEFINITION=sit-justice40-data-harvester-mgiddens-tippecanoe
# AWS Credentials
AWS_ACCESS_KEY_ID=
AWS_SECRET_ACCESS_KEY=
AWS_DEFAULT_REGION=us-east-1

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@ -0,0 +1,70 @@
/**
* Create a luxon object representing a cutoff based on the `age`
* passed in from the event.
*
* A null or zero value for age returns the current time.
*/
function getTimestampCutoff(options) {
const { event } = options;
const { DateTime } = options.deps;
if (!event.age) {
return DateTime.fromMillis(0);
}
return DateTime.now().minus({ seconds: event.age });
}
/**
* Create a set of substitution variables from an S3 record
*/
function createSubstitutionVariablesFromS3Record(options, record, prefix) {
const { path } = options.deps;
const fullKey = record.Key;
const baseKey = path.basename(fullKey);
const baseKeyExt = path.extname(baseKey);
const baseKeyNoExt = path.basename(baseKey, baseKeyExt);
// Define all of the valid substitution variables
const vars = {};
vars[`${prefix}.Key:full`] = fullKey;
vars[`${prefix}.Key`] = baseKey;
vars[`${prefix}.Key:base`] = baseKeyNoExt;
vars[`${prefix}.Key:ext`] = baseKeyExt;
return vars;
}
/**
* Given a collection of key/value input variables, replace
* occurences of ${key} in the input with the corresponding
* values
*/
function applyVariableSubstitution(options, vars, input) {
let result = input;
for (const [key, value] of Object.entries(vars)) {
const token = '${' + key + '}';
// Use the split-join-method because the tokens have special characters which
// confuses the Regular Expression constructor
// @see https://stackoverflow.com/a/17606289/332406
result = result.split(token).join(value);
}
return result;
}
/**
* Generaliztion of the previsou function.
*/
function applyVariableSubstitutionToArray(options, vars, inputs) {
return (inputs || []).map(input => applyVariableSubstitution(options, vars, input));
}
module.exports = {
applyVariableSubstitution,
applyVariableSubstitutionToArray,
createSubstitutionVariablesFromS3Record,
getTimestampCutoff
};