diff --git a/cg/constants/nf_analysis.py b/cg/constants/nf_analysis.py index 8b3f0f266e..14e0807a95 100644 --- a/cg/constants/nf_analysis.py +++ b/cg/constants/nf_analysis.py @@ -28,9 +28,7 @@ class NfTowerStatus(StrEnum): "Contamination Status": {"norm": "eq", "threshold": "NO"}, "adapter_cutting_adapter_trimmed_reads": {"norm": "lt", "threshold": None}, "PCT_PF_UQ_READS_ALIGNED": {"norm": "gt", "threshold": 0.95}, - "MEDIAN_TARGET_COVERAGE": {"norm": "gt", "threshold": 25}, "PCT_TARGET_BASES_10X": {"norm": "gt", "threshold": 0.95}, - "PCT_EXC_ADAPTER": {"norm": "lt", "threshold": 0.0005}, "AT_DROPOUT": {"norm": "lt", "threshold": 10}, "GC_DROPOUT": {"norm": "lt", "threshold": 10}, RAREDISEASE_PREDICTED_SEX_METRIC: {"norm": "eq", "threshold": None}, @@ -44,7 +42,6 @@ class NfTowerStatus(StrEnum): "PCT_PF_UQ_READS_ALIGNED": {"norm": "gt", "threshold": 0.95}, "MEDIAN_TARGET_COVERAGE": {"norm": "gt", "threshold": 25}, "PCT_TARGET_BASES_10X": {"norm": "gt", "threshold": 0.95}, - "PCT_EXC_ADAPTER": {"norm": "lt", "threshold": 0.0005}, "AT_DROPOUT": {"norm": "lt", "threshold": 5}, "GC_DROPOUT": {"norm": "lt", "threshold": 5}, RAREDISEASE_PREDICTED_SEX_METRIC: {"norm": "eq", "threshold": None}, diff --git a/tests/fixtures/analysis/raredisease/raredisease_case_enough_reads_metrics_deliverables.yaml b/tests/fixtures/analysis/raredisease/raredisease_case_enough_reads_metrics_deliverables.yaml index 5f0942550c..b74b12a220 100644 --- a/tests/fixtures/analysis/raredisease/raredisease_case_enough_reads_metrics_deliverables.yaml +++ b/tests/fixtures/analysis/raredisease/raredisease_case_enough_reads_metrics_deliverables.yaml @@ -321,9 +321,7 @@ metrics: name: PCT_EXC_DUPE step: multiqc value: 0.047463 -- condition: - norm: lt - threshold: 0.0005 +- condition: null header: null id: ADM1 input: multiqc_data.json @@ -1617,9 +1615,7 @@ metrics: name: PCT_EXC_DUPE step: multiqc value: 0.047463 -- condition: - norm: lt - threshold: 0.0005 +- condition: null header: null id: ADM2 input: multiqc_data.json