fix test

Clinical-Genomics · Jan 24, 2025 · 019738b · 019738b
1 parent 05bea20
commit 019738b
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Showing 3 changed files with 6 additions and 14 deletions.
diff --git a/cg/models/nallo/nallo.py b/cg/models/nallo/nallo.py
@@ -7,6 +7,12 @@
 from cg.models.nf_analysis import WorkflowParameters
 
 
+class NalloQCMetrics(BaseModel):
+    """Nallo QC metrics"""
+
+    median_coverage: float | None
+
+
 class NalloSampleSheetEntry(BaseModel):
     """Nallo sample model is used when building the sample sheet."""
 

diff --git a/tests/conftest.py b/tests/conftest.py
@@ -2567,7 +2567,6 @@ def nallo_context(
     case_id_not_enough_reads: str,
     sample_id_not_enough_reads: str,
     total_sequenced_reads_not_pass: int,
-    mocker: MockFixture,
 ) -> CGConfig:
     """context to use in cli"""
     cg_context.housekeeper_api_ = nf_analysis_housekeeper

diff --git a/tests/fixtures/analysis/nallo/multiqc_data.json b/tests/fixtures/analysis/nallo/multiqc_data.json
@@ -3,19 +3,6 @@
     "report_general_stats_data": [
         {
             "ADM1": {
-                "mean_coverage": 32.18,
-                "min_coverage": 0.0,
-                "max_coverage": 63906.0,
-                "coverage_bases": 99366056494,
-                "length": 3088286377,
-                "1_x_pc": 94.0,
-                "5_x_pc": 94.0,
-                "10_x_pc": 93.0,
-                "30_x_pc": 65.0,
-                "50_x_pc": 2.0,
-                "median_coverage": 13
-            },
-            "ADM2": {
                 "mean_coverage": 32.18,
                 "min_coverage": 0.0,
                 "max_coverage": 63906.0,