CLI, environment

catalog

usage: quilt3 catalog [-h] [--detailed_help] [navigation_target]

Run Quilt catalog locally

positional arguments:
  navigation_target  Which page in the local catalog to open. Leave blank to
                     go to the catalog landing page, pass in an s3 url (e.g.
                     's3://bucket/myfile.txt') to go to file viewer, or pass
                     in a package name in the form 'BUCKET:USER/PKG' to go to
                     the package viewer.

optional arguments:
  -h, --help         show this help message and exit
  --detailed_help    Display detailed information about this command and then
                     exit

Run the Quilt catalog on your machine (requires Docker). Running quilt3 catalog launches a webserver on your local machine using Docker and a Python microservice that supplies temporary AWS credentials to the catalog. Temporary credentials are derived from your default AWS credentials (or active AWS_PROFILE) using boto3.sts.get_session_token. For more details about configuring and using AWS credentials in boto3, see the AWS documentation: https://boto3.amazonaws.com/v1/documentation/api/latest/guide/configuration.html

Previewing files in S3

The Quilt catalog allows users to preview files in S3 without downloading. It relies on a API Gateway and AWS Lambda to generate certain previews in the cloud. The catalog launched by quilt3 catalog sends preview requests to https://open.quiltdata.com. Preview requests contain short-lived signed URLs generated using your AWS credentials. Data is encrypted in transit and no data is retained by Quilt. Nevertheless, it is recommended that you use quilt3 catalog only for public data. We strongly encourage users with sensitive data in S3 to run a private Quilt deployment. Visit https://quiltdata.com for more information.

install

usage: quilt3 install [-h] [--registry REGISTRY] [--top-hash TOP_HASH]
                      [--dest DEST] [--dest-registry DEST_REGISTRY]
                      [--path PATH]
                      name

Install a package

positional arguments:
  name                  Name of package, in the USER/PKG[/PATH] format
                        ([/PATH] is deprecated, use --path parameter instead)

optional arguments:
  -h, --help            show this help message and exit
  --registry REGISTRY   Registry where package is located, usually s3://MY-
                        BUCKET. Defaults to the default remote registry.
  --top-hash TOP_HASH   Hash of package to install. Defaults to latest.
  --dest DEST           Local path to download files to.
  --dest-registry DEST_REGISTRY
                        Registry to install package to. Defaults to local
                        registry.
  --path PATH           If specified, downloads only PATH or its children.

verify

usage: quilt3 verify [-h] --registry REGISTRY --top-hash TOP_HASH --dir DIR
                     [--extra-files-ok]
                     name

Verify that package contents matches a given directory

positional arguments:
  name                 Name of package, in the USER/PKG format

optional arguments:
  -h, --help           show this help message and exit
  --registry REGISTRY  Registry where package is located, usually s3://MY-
                       BUCKET
  --top-hash TOP_HASH  Hash of package to verify
  --dir DIR            Directory to verify
  --extra-files-ok     Whether extra files in the directory should cause a
                       failure

login

usage: quilt3 login [-h]

Log in to configured Quilt server

optional arguments:
  -h, --help  show this help message and exit

logout

usage: quilt3 logout [-h]

Log out of current Quilt server

optional arguments:
  -h, --help  show this help message and exit

config

usage: quilt3 config [-h] [--set KEY=VALUE [KEY=VALUE ...]] [catalog_url]

Configure Quilt

positional arguments:
  catalog_url           URL of catalog to config with, or empty string to
                        reset the config

optional arguments:
  -h, --help            show this help message and exit
  --set KEY=VALUE [KEY=VALUE ...]
                        Set a number of key-value pairs for config_values(do
                        not put spaces before or after the = sign). If a value
                        contains spaces, you should define it with double
                        quotes: foo="this is a sentence". Note that values are
                        always treated as strings.

disable-telemetry

usage: quilt3 disable-telemetry [-h]

Disable anonymous usage metrics

optional arguments:
  -h, --help  show this help message and exit

list-packages

usage: quilt3 list-packages [-h] registry

List all packages in a registry

positional arguments:
  registry    Registry for packages, e.g. s3://quilt-example

optional arguments:
  -h, --help  show this help message and exit

push

usage: quilt3 push --dir DIR [-h] [--registry REGISTRY] [--dest DEST]
                   [--message MESSAGE] [--meta META] [--workflow WORKFLOW]
                   name

Pushes the new package to the remote registry

positional arguments:
  name                 Name of package, in the USER/PKG format

required arguments:
  --dir DIR            Directory to add to the new package

optional arguments:
  -h, --help           show this help message and exit
  --registry REGISTRY  Registry where to create the new package. Defaults to
                       the default remote registry.
  --dest DEST          Where to copy the objects in the package
  --message MESSAGE    The commit message for the new package
  --meta META          Sets package-level metadata. Format: A json string with
                       keys in double quotes '{"key": "value"}'
  --workflow WORKFLOW  Workflow ID or empty string to skip workflow
                       validation. If not specified, the default workflow will
                       be used.

config-default-remote-registry

usage: quilt3 config-default-remote-registry [-h] default_remote_registry

Configure default remote registry for Quilt

positional arguments:
  default_remote_registry
                        The default remote registry to use, e.g. s3://quilt-ml

optional arguments:
  -h, --help            show this help message and exit

Environment variables

QUILT_DISABLE_USAGE_METRICS

Disable anonymous usage collection. Defaults to False

$ export QUILT_DISABLE_USAGE_METRICS=true

QUILT_MINIMIZE_STDOUT

Turn off TQDM progress bars for log files. Defaults to False

$ export QUILT_MINIMIZE_STDOUT=true

QUILT_DISABLE_CACHE

Turn off cache. Defaults to False.

$ export QUILT_DISABLE_CACHE=true

QUILT_TRANSFER_MAX_CONCURRENCY

Number of threads for file transfers. Defaults to 10.

This variable could be tried for improving file transfer rate. The optimal value depends on network bandwidth, CPU performance, file sizes, etc.

$ export QUILT_TRANSFER_MAX_CONCURRENCY=20

QUILT_MANIFEST_MAX_RECORD_SIZE

Maximum size of a record in package manifest. Setting this variable is strongly discouraged. Defaults to 1_000_000.

XDG_*

Quilt uses appdirs for Python to determine where to write data. You can therefore override the following path constants with environment variables using the XDG standard (see appdirs docs).

For instance, AWS Lambda requires the user to use tmp/* as the scratch directory. You can override quilt3.util.CACHE_PATH, so that quilt3 install will succeed in Lambda, by setting the XDG_CACHE_HOME environment variable.

Constants (see util.py for more)

• APP_NAME

• APP_AUTHOR

• BASE_DIR - Base directory of the application

• BASE_PATH - Base pathlib path for the application directory

• CACHE_PATH - Pathlib path for the user cache directory

• TEMPFILE_DIR_PATH - Base pathlib path for the application tempfiles

• CONFIG_PATH - Base pathlib path for the application configuration file

• OPEN_DATA_URL - Application data url

• PACKAGE_NAME_FORMAT - Regex for legal package names