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Utilities for the MetaSUB Consortium

Project description

MetaSUB Utilities

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Utilities for the MetaSUB Consortium

  • Free software: MIT license

Features

A collection of utilites to manage the MetaSUB project.

Most of the tools in this package involve uploading or downloading data.

pip install metasub_utils

Downloading Data From Wasabi

To download data or assemblies from wasabi you will need API credentials. Please contact David Danko (dcd3001@med.cornell.edu) to acquire these keys.

Wasabi is a clone of amazon S3. To use Wasabi you will need to install the AWS-CLI

Once you have installed the aws command line tool you need to configure an account.

$ aws configure --profile wasabi
AWS Access Key ID [None]: `your access key`
AWS Secret Access Key [None]: `your secret key`
Default region name [None]:
Default output format [None]:

Once your account is configured you can use this utility package to download files. The following commands will be most useful.

$ metasub wasabi download-contigs --help
$ metasub wasabi download-unassembled-data --help

Note that all download commands dryrun by default. You will need to add the –wetrun flag to actually download data.

Credits

This package was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.

History

0.1.0 (2018-07-30)

  • First release on PyPI.

Project details


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