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Add scout support for tomte#3212

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fevac wants to merge 45 commits intomasterClinical-Genomics/cg:masterfrom add_scout_for_tomteClinical-Genomics/cg:add_scout_for_tomteCopy head branch name to clipboard

+402-20

Commits

Commits on May 8, 2024

• add scout config for tomte

  fevac

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  841f77a

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• add vcf

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• add tomte to upload

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Commits on May 21, 2024

• Merge branch 'master' into add_scout_for_tomte

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• black

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  1f430bc

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• add missing tomte for configbuilder

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• missing casetag

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Commits on May 22, 2024

• add missing tags

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• add pytests

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• Merge branch 'master' into add_scout_for_tomte

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• fix sample tags

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Commits on May 23, 2024

• rename and add analysis_api

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• black

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• Merge branch 'master' into add_scout_for_tomte

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Commits on May 28, 2024

• fix pytest

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• black

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• Merge branch 'master' into add_scout_for_tomte

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Commits on May 29, 2024

• Merge branch 'master' into add_scout_for_tomte

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Commits on May 30, 2024

• reviews

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• reuse existing attributes

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• Merge branch 'master' into add_scout_for_tomte

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Commits on Aug 7, 2024

• Merge branch 'master' into add_scout_for_tomte

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• add outrider and fraser to scout config

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• black

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• update config syntax to include omics_files

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• Merge branch 'master' into add_scout_for_tomte

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• Add info about uploaded files to Scout in the delivery report

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• missing method

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Commits on Aug 8, 2024

• translate to swedish

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• replace strings by constants

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• docstring

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• Merge branch 'master' into add_scout_for_tomte

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• upadate fixture

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Commits on Aug 12, 2024

• missing import

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Commits on Aug 26, 2024

• Merge branch 'master' into add_scout_for_tomte

  jemten

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Commits on Aug 27, 2024

• Merge branch 'master' into add_scout_for_tomte

  dnil

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Commits on Aug 28, 2024

• Merge branch 'master' into add_scout_for_tomte

  rannick

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• Merge branch 'master' into add_scout_for_tomte

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• use rna_genome_build parameter to load the genome ref of the RNA case

  rannick

  committed
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• add None as default for human_genome_build and rna_genome_build

  rannick

  committed
  89da6d9

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• set dna ref as hg19

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Commits on Aug 29, 2024

• test

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• test-reverse

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• Merge branch 'master' into add_scout_for_tomte

  rannick

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• add rna_genome_build parameter again

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  committed
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