Update Balsamic API (Balsamic v13 release)

[ivadym]

Description

Changes are summarised in: #2447

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_cg -t cg -b remove-concatenation-balsamic -a

How to test

• cg workflow <balsamic/umi/qc> start
• cg workflow <balsamic/umi/qc> store
• cg upload -c

Expected test outcome

• Analysis API can start cases without concatenating the FASTQs
• Cases can be stored
• Cases can be uploaded (clinical delivery, scout, gens, etc.)

More information regarding the system integration tests: Clinical-Genomics/BALSAMIC#1320 (comment)

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 ...

[sonarqubecloud]

Quality Gate passed

The SonarCloud Quality Gate passed, but some issues were introduced.

1 New issue
0 Security Hotspots
No data about Coverage
0.0% Duplication on New Code

See analysis details on SonarCloud

[ivadym]

Deployed: