Version 3.12.0

[fellen31]

Description

Release 3.12.0 according to instructions in #210.

[3.12.0]

Changed

• Changed to use PS-tag instead of intervals to check for variants in phase with genmod models --phased (#197)
• Refactored the implementation of check_compounds() to improve maintainability (#197)
• Removed haploblock interval tree code and the interval_tree dependency in favour of PS-tag phasing check (#197)

Fixed

• Models giving KeyError with --phased when variants lack region annotation (#197)

How to prepare for test

• Ssh to relevant server (depending on type of change)
• Use stage: us
• Paxa the environment: paxa
• Install on stage (example for Hasta):

  bash /home/proj/production/servers/resources/hasta.scilifelab.se/update-tool-stage.sh -e S_[TOOL]-t [TOOL] -b [THIS-BRANCH-NAME] -a

How to test

• Do ...

Expected test outcome

• Check that ...
• Take a screenshot and attach or copy/paste the output.

Review

• Tests executed by
• "Merge and deploy" approved by
  Thanks for filling in who performed the code review and the test!

This version is a

• MAJOR - when you make incompatible API changes
• MINOR - when you add functionality in a backwards compatible manner
• PATCH - when you make backwards compatible bug fixes or documentation/instructions

Implementation Plan

• Document in ...
• Deploy this branch on ...
• Inform to ...