pyUSIrest 0.2.1

Python USI submission REST API contain all methods to interact with EMBL-EBI Unified Submissions Interface

Python USI submission REST API

Python USI submission REST API contain all methods to interact with EMBL-EBI Unified Submissions Interface

• Free software: GNU General Public License v3

• Documentation: https://pyusirest.readthedocs.io.

Features

• Deal with EBI AAP (Authentication, Authorisation and Profile) service, generating tokens and dealing with User and Groups

• Interact with EBI USI (Unified Submission Interface) in order to submit data to biosample as described by this guide. In details:

  • Getting USI API root

  • Selecting a Team

  • Creating a Submission

  • Adding items to Submission

  • Checking Biosample Validation

  • Finalising a Submission

Credits

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

History

0.2.1-dev

TODO

Features

• test for an empty submission (no samples)

• updated root.json, userSubmission.json test data

• submissionStatus is no longer an attribute, when feching submission by name is present when getting user submissions

• follow submissionStatus link (if necessary)

• update submission status after create a new submission

• update submission status after get_submission_by_name

• update submission status after reload a just finalized submission

• Domain.users returns User objects in a list

• improved Submission.get_samples method

0.2.0 (2018-10-23)

Features

• Fetch submission by name

• changed library name to pyUSIrest

• published to pypi

• Finalize submission with PUT

0.1.0 (2018-10-17)

Features

• submit into biosample with python methods