gbanyan
4a80a0398e
- pyproject.toml: installable package with bioinformatics dependencies - Pydantic config schema with validation (ensembl_release >= 100, directory creation) - YAML config loader with override support - Default config with Ensembl 113, gnomAD v4.1 - 5 passing tests for config validation and hashing
26 lines
426 B
YAML
26 lines
426 B
YAML
# Default pipeline configuration
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data_dir: data
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cache_dir: data/cache
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duckdb_path: data/pipeline.duckdb
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versions:
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ensembl_release: 113
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gnomad_version: v4.1
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gtex_version: v8
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hpa_version: "23.0"
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api:
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rate_limit_per_second: 5
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max_retries: 5
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cache_ttl_seconds: 86400
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timeout_seconds: 30
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scoring:
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gnomad: 0.20
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expression: 0.20
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annotation: 0.15
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localization: 0.15
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animal_model: 0.15
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literature: 0.15
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