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change: command line for BALSAMIC to support multiple genome versions #1372

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change: command line for BALSAMIC to support multiple genome versions #1372

wants to merge 7 commits into from

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ivadym
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@ivadym ivadym commented Jan 20, 2022

Description

Changed

  • Command line for BALSAMIC workflow to support different genome versions (hg19, hg38 and canfam3).

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-cg-stage.sh [THIS-BRANCH-NAME]

How to test

  • do ...

Expected test outcome

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

Review

  • code approved by
  • 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
  • Inform to ...

@ivadym ivadym changed the title genome version support by BALSAMIC change: command line for BALSAMIC to support multiple genome versions Jan 20, 2022
@sonarqubecloud
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Kudos, SonarCloud Quality Gate passed!    Quality Gate passed

Bug A 0 Bugs
Vulnerability A 0 Vulnerabilities
Security Hotspot A 0 Security Hotspots
Code Smell A 2 Code Smells

No Coverage information No Coverage information
0.0% 0.0% Duplication

@sonarqubecloud
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sonarqubecloud bot commented Apr 4, 2022

Kudos, SonarCloud Quality Gate passed!    Quality Gate passed

Bug A 0 Bugs
Vulnerability A 0 Vulnerabilities
Security Hotspot A 0 Security Hotspots
Code Smell A 3 Code Smells

No Coverage information No Coverage information
0.0% 0.0% Duplication

@ivadym
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ivadym commented May 9, 2022

Addressed in #1477

@ivadym ivadym closed this May 9, 2022
@Mropat Mropat deleted the add-genome-version-balsamic-workflow branch August 4, 2022 20:04
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@ivadym @Mropat