linting

mskcc · Feb 12, 2025 · 5eaa601 · 5eaa601
1 parent f0c66c4
commit 5eaa601
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Showing 2 changed files with 12 additions and 4 deletions.
diff --git a/runner/operator/access/v2_1_0/cnv/__init__.py b/runner/operator/access/v2_1_0/cnv/__init__.py
@@ -46,8 +46,10 @@ def get_sample_inputs(self):
         for run in runs:
             bams.append(find_request_bams(run))
 
-        # TUMOR Unfiltered 
-        unfiltered_tumor_bams = [b["fgbio_collapsed_bam"] for b in bams if is_tumor_bam(b["fgbio_collapsed_bam"].file_name)]
+        # TUMOR Unfiltered
+        unfiltered_tumor_bams = [
+            b["fgbio_collapsed_bam"] for b in bams if is_tumor_bam(b["fgbio_collapsed_bam"].file_name)
+        ]
 
         sample_ids = []
         tumor_bams = []

diff --git a/runner/operator/access/v2_1_0/msi/__init__.py b/runner/operator/access/v2_1_0/msi/__init__.py
@@ -12,7 +12,13 @@
 from runner.operator.operator import Operator
 from runner.run.objects.run_creator_object import RunCreator
 from runner.models import Port, RunStatus
-from runner.operator.access import get_request_id, get_request_id_runs, create_cwl_file_object, find_request_bams, is_tumor_bam
+from runner.operator.access import (
+    get_request_id,
+    get_request_id_runs,
+    create_cwl_file_object,
+    find_request_bams,
+    is_tumor_bam,
+)
 
 
 logger = logging.getLogger(__name__)
@@ -56,7 +62,7 @@ def get_sample_inputs(self):
         for run in runs:
             bams.append(find_request_bams(run))
 
-        # TUMOR Uncollapsed 
+        # TUMOR Uncollapsed
         standard_tumor_bams = [b["uncollapsed_bam"] for b in bams if is_tumor_bam(b["fgbio_collapsed_bam"].file_name)]
 
         # Dictionary that associates tumor bam with standard bam with tumor_sample_id