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feat: add Ensembl-VEP and VCF2MAF for cBio workflows #31

Merged
merged 14 commits into from
Mar 1, 2024
Merged

feat: add Ensembl-VEP and VCF2MAF for cBio workflows #31

merged 14 commits into from
Mar 1, 2024

Commits on Jan 25, 2023

  1. start work on cbioportal script support in Dockerfile

    @davidlougheed
    davidlougheed committed Jan 25, 2023
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  2. add missing dockerfile deps for ensembl-vep

    @davidlougheed
    davidlougheed committed Jan 25, 2023
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  3. chore: update minor deps

    @davidlougheed
    davidlougheed committed Jan 25, 2023
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Commits on Feb 9, 2023

  1. chore: more work on cbioportal-supporting dockerfile

    @davidlougheed
    davidlougheed committed Feb 9, 2023
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Commits on Feb 13, 2023

  1. Merge remote-tracking branch 'origin/master' into cbioportal 

    # Conflicts:
#	Dockerfile
#	poetry.lock
    @davidlougheed
    davidlougheed committed Feb 13, 2023
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Commits on Feb 14, 2023

  1. chore: specify wdl + version when running cromwell cli

    @davidlougheed
    davidlougheed committed Feb 14, 2023
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  2. chore: bump version to 0.8.3

    @davidlougheed
    davidlougheed committed Feb 14, 2023
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  3. revert

    @davidlougheed
    davidlougheed committed Feb 14, 2023
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  4. chore: update lock dependencies

    @davidlougheed
    davidlougheed committed Feb 14, 2023
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Commits on Jan 23, 2024

  1. Merge remote-tracking branch 'origin/master' into cbioportal 

    # Conflicts:
#	.idea/bento_wes.iml
#	.idea/misc.xml
#	Dockerfile
#	poetry.lock
#	pyproject.toml
    @davidlougheed
    davidlougheed committed Jan 23, 2024
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  2. chore: separate build stage for ensembl-vep

    @davidlougheed
    davidlougheed committed Jan 23, 2024
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Commits on Feb 26, 2024

  1. Merge remote-tracking branch 'origin/master' into cbioportal 

    # Conflicts:
#	Dockerfile
    @davidlougheed
    davidlougheed committed Feb 26, 2024
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  2. set up vep from prebuilt docker image

    @davidlougheed
    davidlougheed committed Feb 26, 2024
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  3. chore(vep): faster build getting lwp from libwww-perl

    @davidlougheed
    davidlougheed committed Feb 26, 2024
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