viral-ngs/.codecov.yml at main · broadinstitute/viral-ngs · GitHub

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# Codecov configuration
# https://docs.codecov.com/docs/codecov-yaml

coverage:
  status:
    project:
      default:
        informational: true  # Never fails, just shows coverage info
    patch:
      default:
        informational: true  # Never fails, just shows patch coverage

# Flag configuration for multi-component coverage
flags:
  core:
    paths:
      - src/viral_ngs/core/
      - src/viral_ngs/util/
      - src/viral_ngs/*.py
    carryforward: true
  assemble:
    paths:
      - src/viral_ngs/assemble/
      - src/viral_ngs/assembly.py
    carryforward: true
  classify:
    paths:
      - src/viral_ngs/classify/
      - src/viral_ngs/metagenomics.py
      - src/viral_ngs/taxon_filter.py
      - src/viral_ngs/kmer_utils.py
    carryforward: true
  phylo:
    paths:
      - src/viral_ngs/phylo/
      - src/viral_ngs/interhost.py
      - src/viral_ngs/intrahost.py
      - src/viral_ngs/ncbi.py
    carryforward: true

comment:
  layout: "reach,diff,flags,files"
  behavior: default
  require_changes: true  # Only comment if coverage changes