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DEV - Switch reference genome to hg38 for raredisease#4871

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diitaz93 wants to merge 8 commits intomasterfrom
dev-rd-hg38
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DEV - Switch reference genome to hg38 for raredisease#4871
diitaz93 wants to merge 8 commits intomasterfrom
dev-rd-hg38

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@diitaz93 diitaz93 commented Feb 4, 2026

Description

Added

Changed

Fixed

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 [THIS-BRANCH-NAME] -a

How to test

  • Do ...

Expected test outcome

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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

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Old codes find the light, Newer maps trace hidden flaws, Healing starts with data. No newline at end of file
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👀

islean and others added 7 commits February 4, 2026 13:14
Co-authored-by: Daniel Nilsson <daniel.k.nilsson@gmail.com>
change raredisease genome version for bed version fetch to hg38

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Co-authored-by: kedhammar <alfred.kedhammar@scilifelab.se>
Use Scout38 in the ConfiguratorFactory for the creation of managed_variants and gene_panel files for raredisease

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Co-authored-by: Rasmus Burge <80392398+RasmusBurge-CG@users.noreply.github.com>
Co-authored-by: Sebastian Diaz <juan.sebastian.diaz.boada@scilifelab.se>
Co-authored-by: kedhammar <alfred.kedhammar@scilifelab.se>
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5 participants