Skip to main content

No project description provided

Project description

echofish-aws-raw-to-zarr-lambda

Setting up the Python Environment

MacOS

  1. Install pyenv (https://github.com/pyenv/pyenv#set-up-your-shell-environment-for-pyenv)
    1. brew update
    2. brew install pyenv
    3. In ~/.bashrc add
      1. export PYENV_ROOT="$HOME/.pyenv"
      2. export PATH="$PYENV_ROOT/bin:$PATH"
      3. eval "$(pyenv init -)"
    4. brew install openssl readline sqlite3 xz zlib tcl-tk
  2. Install pyenv-virtualenv (https://github.com/pyenv/pyenv-virtualenv)
    1. brew install pyenv-virtualenv
    2. In ~/.bashrc add
      1. eval "$(pyenv virtualenv-init -)"
  3. Open a new terminal
  4. Install Python version
    1. env PYTHON_CONFIGURE_OPTS="--enable-shared" pyenv install 3.9.16
    2. Optional: set global version of Python env PYTHON_CONFIGURE_OPTS="--enable-shared" pyenv global 3.9.16
  5. Create virtual env
    1. pyenv virtualenv 3.9.16 echofish-aws-raw-to-zarr-lambda
  6. Set local version of python (if not done already)
    1. change directory to root of project
    2. pyenv local echofish-aws-raw-to-zarr-lambda

Other OS

  1. Get a Mac
  2. See Above MacOS

Setting up IntelliJ

  1. Install the IntelliJ Python plugin
  2. Set up pyenv
    1. File -> Project Structure or CMD + ;
    2. SDKs -> + -> Add Python SDK -> Virtual Environment
    3. Select Existing Environment
    4. Choose ~/.pyenv/versions/echofish-aws-raw-to-zarr-lambda/bin/python
  3. Set up Python Facet (not sure if this is required)
    1. File -> Project Structure or CMD + ;
    2. Facets -> + -> Python
    3. Set interpreter

Installing Dependencies

  1. Add dependencies with versions to requirements.txt
  2. pip install --upgrade pip && pip install -r requirements_dev.txt

Maven

This project can use Apache Maven to easily build this project. However, this is not required, but recommended. Maven can be easily installed by downloading it from the Maven site or using sdkman.

Build with Maven

After setting up your pyenv run: mvn clean install

DOTENV

export AWS_DEFAULT_PROFILE=echofish

Functional Testing

To run a functional test, developer will need to save the associated environment variables in .env for the lambda to use. The ACCESS_KEY and SECRET_ACCESS_KEY can be generated in IAM, users, rudy-dev, security credentials, access keys, create access key. Copy other values as needed from deployed CloudFormation Template.

export OUTPUT_BUCKET=rudy-dev-echofish-118234403147-echofish-dev-output
export TABLE_NAME=rudy-dev-echofish-EchoFish-File-Info
export OUTPUT_BUCKET_ACCESS_KEY="XXX"
export OUTPUT_BUCKET_SECRET_ACCESS_KEY="YYY"
export TOPIC_ARN="arn:aws:sns:us-west-2:118234403147:rudy-dev-echofish-processing-finished"

Deploying new CodePipeline via Cloudformation

Build project w 'mvn clean install', navigate to the 'target/codepipeline' directory. You will need to create a private ECR repo in us-east-1 w name of the project for builds to push to. Then:

aws --profile mggdev cloudformation create-stack --stack-name build-echofish-aws-raw-to-zarr-lambda-trunk --template-body file://codepipeline.yaml --capabilities CAPABILITY_IAM CAPABILITY_AUTO_EXPAND

Elastic Container Registry

Note that the main repository is built and curated in the mgg-dev account in us-west-2. The derived docker image is built and pushed to the echofish us-east-1 ECR. That image is then replicated to the echofish us-west-2 account. You will need to go to the echofish ECR -> Repositories -> [repo] -> Permissions and copy the values from an existing project (for both regions).

In the echofish aws account:

IAM -> Roles -> AWSServiceRoleForECRReplication

To Run Tests

python -m pytest

Project details


Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

Built Distribution

File details

Details for the file echofish-aws-raw-to-zarr-lambda-1.0.0.dev20230925214753.tar.gz.

File metadata

File hashes

Hashes for echofish-aws-raw-to-zarr-lambda-1.0.0.dev20230925214753.tar.gz
Algorithm Hash digest
SHA256 8215c76f821addbbff61757cb2d842d84ac5d725237947f2fe8a27b450e17039
MD5 c8422b333e5bf611761156ddf2ab76c8
BLAKE2b-256 8348bf160eca1749ed13df20e8f6307ecf9f2af86ae9b2f4f18d83b6dea75ce7

See more details on using hashes here.

File details

Details for the file echofish_aws_raw_to_zarr_lambda-1.0.0.dev20230925214753-py3-none-any.whl.

File metadata

File hashes

Hashes for echofish_aws_raw_to_zarr_lambda-1.0.0.dev20230925214753-py3-none-any.whl
Algorithm Hash digest
SHA256 dfafba935255b94744175e651ee3026ac241142f24e20905366b24b240dabb79
MD5 122e9bbafe486048557aabbf8e8d18cc
BLAKE2b-256 7a96c02df0062cd6ed53f93479451998118b3b5f0121684f6262ff5ecd9186b0

See more details on using hashes here.

Supported by

AWS AWS Cloud computing and Security Sponsor Datadog Datadog Monitoring Fastly Fastly CDN Google Google Download Analytics Microsoft Microsoft PSF Sponsor Pingdom Pingdom Monitoring Sentry Sentry Error logging StatusPage StatusPage Status page