Adding in a bit more error handling for pipelines and slack reporting where available #541
ialarmedalientests.yml
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Matrix: tests
Annotations
11 errors
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ruff (ANN001):
src/cdm_data_loaders/parsers/gene_association_file.py#L106
src/cdm_data_loaders/parsers/gene_association_file.py:106:21: ANN001 Missing type annotation for function argument `spark`
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ruff (ANN201):
src/cdm_data_loaders/parsers/gene_association_file.py#L106
src/cdm_data_loaders/parsers/gene_association_file.py:106:5: ANN201 Missing return type annotation for public function `load_annotation`
help: Add return type annotation
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ruff (ANN201):
src/cdm_data_loaders/parsers/gene_association_file.py#L95
src/cdm_data_loaders/parsers/gene_association_file.py:95:5: ANN201 Missing return type annotation for public function `get_spark`
help: Add return type annotation
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ruff (F401):
src/cdm_data_loaders/audit/run.py#L8
src/cdm_data_loaders/audit/run.py:8:5: F401 `cdm_data_loaders.audit.schema.AUDIT_SCHEMA` imported but unused
help: Remove unused import: `cdm_data_loaders.audit.schema.AUDIT_SCHEMA`
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ruff (F401):
src/cdm_data_loaders/audit/metrics.py#L8
src/cdm_data_loaders/audit/metrics.py:8:5: F401 `cdm_data_loaders.audit.schema.AUDIT_SCHEMA` imported but unused
help: Remove unused import: `cdm_data_loaders.audit.schema.AUDIT_SCHEMA`
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ruff (F401):
src/cdm_data_loaders/audit/checkpoint.py#L8
src/cdm_data_loaders/audit/checkpoint.py:8:5: F401 `cdm_data_loaders.audit.schema.AUDIT_SCHEMA` imported but unused
help: Remove unused import: `cdm_data_loaders.audit.schema.AUDIT_SCHEMA`
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ruff (BLE001):
scripts/parse_index.py#L33
scripts/parse_index.py:33:12: BLE001 Do not catch blind exception: `Exception`
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ruff (PLR2004):
scripts/parse_index.py#L22
scripts/parse_index.py:22:24: PLR2004 Magic value used in comparison, consider replacing `3` with a constant variable
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ruff (INP001):
scripts/parse_index.py#L1
scripts/parse_index.py:1:1: INP001 File `scripts/parse_index.py` is part of an implicit namespace package. Add an `__init__.py`.
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ruff (I001):
notebooks/pangenome_refseq.py#L14
notebooks/pangenome_refseq.py:14:1: I001 Import block is un-sorted or un-formatted
help: Organize imports
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