beacon-python v1.5.0-rc1

• Bug fix as gunicorn version 20+ in alpine does not work

beacon-python v1.5.0-rc0

• Added unit testing for python 3.7;
• More unit tests;
• Updated GA4GH /service-info endpoint;
• Updated permissions module to handle new GA4GH Passports;
• Other small bug fixes, refactorings and improvements.

beacon-python v1.4.0-rc1

• Deprecated dataset permissions following the ELIXIR Permissions API 1.2 format due to end-of-support from ELIXIR AAI's side;
• Added a new module to parse dataset permissions following the ELIXIR Permissions API 2.0 format (based on GA4GH RI claims);
• Updated GA4GH endpoint /service-info according to updated specification;
• Validation of aud audience key in JWT access tokens.

beacon-python v1.3.0-rc0

• Security screening and assurance of code;
• Sample allele requests in / info endpoint can now be loaded from a .json file;
• Fixes to bugs related to mateName and BND queries;
• Added /service-info endpoint for GA4GH compliancy;
• Updated documentation;
• Increased unit test coverage;
• More integration test scenarios;
• Performance improvements;
• Other small bug fixes.

beacon-python v1.2.0-rc0

• support for handover mechanism;
• support for BND breakend mate fusions;
• beacon_init supports BND SVTYPE;
• improved unit tests coverage now at 90% ...much QA 🎉 ;
• updated documentation;
• other fixes 🔨 🐛.

beacon-python v1.1.0-rc1

• beacon_init optimisation (for loading VCF files into database);
• Handle protected resource accessing properly HTTP Exceptions (401, 403);
• Automatically build and push an image of dataloader to Dockerhub;
• JSON Schema fixes (for more precise validation of requests and responses);
• Increased test coverage;
• Enriched documentation;
• Other small bug fixes.

beacon-python v1.1.0-rc0

• Allow usage of hg assemblies in the request schema;
• Implemented customisable permissions modules for CONTROLLED datasets:
  • Module for processing ELIXIR AAI tokens with REMS permissions included by default;
  • Documentation of access resolution for CONTROLLED and REGISTERED Beacon datasets;
• Performance and optimisation for beacon_init;
• Integration tests for permissions handling;
• Other small bug fixes.

beacon-python v1.0.0-rc1

• Memory optimisation of beacon_init using async generator;
• Wildcard differentiation in datasetAlleleResponses;
• CORS enabled for all domains;
• Support for all variant types listed in Beacon Specification 1.0.1;
• Configurable Beacon info and OAuth with configuration file;
• Placeholder for handling permissions for CONTROLLED datasets;
• Faster C-based event loop using uvloop;
• JWK server response and info endpoint response caching;
• Integration tests;
• Dataloader container for setting up a 1000 genome database;
• General optimisation for database operations;
• General OAuth2 support;
• Production server with gunicorn;
• Basic sample filtering on beacon_init;
• Other minor bugfixes and improvements.

beacon-python v1.0.0-rc0

Included in the current version:

• following Beacon API 1.0.0+ specification + some small improvements;
• VCF parser for loading data into database based on https://academic.oup.com/bioinformatics/article/33/12/1867/2971439 ;
• support for N wildcard search;
• support SNP, MNP and INDEL (for now);
• validation of ELIXIR and display of bona_fide_status for researcher ;
• improvements in data correctness;
• improvements in performance and code base.