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use cancer type in CIViC results #28

Merged
merged 16 commits into from
Jun 23, 2024
Merged

use cancer type in CIViC results #28

merged 16 commits into from
Jun 23, 2024

Commits on May 3, 2024

  1. use cancer type in civic (exact match only) 

    Fixes qbic-pipelines#27
    @HomoPolyethylen
    HomoPolyethylen committed May 3, 2024
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Commits on May 6, 2024

  1. use ontology to include all higher-level terms in evidences

    @HomoPolyethylen
    HomoPolyethylen committed May 6, 2024
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  2. lint black

    @HomoPolyethylen
    HomoPolyethylen committed May 6, 2024
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  3. moved code to improve readability

    @HomoPolyethylen
    HomoPolyethylen committed May 6, 2024
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  4. updated usage for civic doid

    @HomoPolyethylen
    HomoPolyethylen committed May 6, 2024
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  5. refactored

    @HomoPolyethylen
    HomoPolyethylen committed May 6, 2024
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  6. minor readability improvement

    @HomoPolyethylen
    HomoPolyethylen committed May 6, 2024
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Commits on May 7, 2024

  1. lint isort

    @HomoPolyethylen
    HomoPolyethylen committed May 7, 2024
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  2. fix python3.8 assertion fail

    @HomoPolyethylen
    HomoPolyethylen committed May 7, 2024
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  3. minor cleanup

    @HomoPolyethylen
    HomoPolyethylen committed May 7, 2024
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  4. renamed disease ontology class

    @HomoPolyethylen
    HomoPolyethylen committed May 7, 2024
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Commits on May 9, 2024

  1. refactored

    @HomoPolyethylen
    HomoPolyethylen committed May 9, 2024
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Commits on Jun 20, 2024

  1. use same flags for cancer type as in cgi despite different ontologies

    @HomoPolyethylen
    HomoPolyethylen committed Jun 20, 2024
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  2. refactored

    @HomoPolyethylen
    HomoPolyethylen committed Jun 20, 2024
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Commits on Jun 23, 2024

  1. pin numpy version to fix pandas bug in tests

    @HomoPolyethylen
    HomoPolyethylen committed Jun 23, 2024
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  2. 2nd try to fix pandas bug

    @HomoPolyethylen
    HomoPolyethylen committed Jun 23, 2024
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