PanelPal v3.0.0

Added

New core functions:

• panel_to_genes.py - script for returning a list of genes included on a given panel
• Installation and Documentation:
• readthedocs (https://panel-pal.readthedocs.io/en/latest/)

Database

• Database reconfigured to SQLalchemy object-relational configuration. This is not backwards compatible.

Testing:

• Unit tests for new functions
• Continuous Integration testing with Jenkins.

Changed

• accessories/panel_app_api_functions.py updated to extend time to request timeout to 25s
• accessories/variant_validator_api_functions.py updated to add functionality for creating bed_files directory.
• generate_bed.py - new function added to check if a bed file already exists for given R Code and version.
• main.py - updated to incorporate new functionalities
• settings.py - updated to incorporate logging from database

PanelPal v2.0.0

Added

• New Core Functions:
  • compare_bedfiles
  • gene_to_panels
• New accessory functions:
  • bedfile_functions
• Installation and Documentation
  • New Dockerfile for containerized deployment.
  • Coverage.rc file
  • Attempt at setting up Read the Docs
  • MIT License
• Tests for new functions

Changed

• Replacement of setup.py with pyproject.toml
• Updated get_genes function in panel_app_api_functions.py to filter by gene status.
  • Functionality for this then works in generate_bed and compare_panel_versions
• generate_bed creates a header to the file