format

file_system/helper/access_helper.py

@@ -88,7 +88,7 @@ def construct_csv(self):
         ).all()
         fastqs = files.filter(metadata__igoRequestId__in=self.request_ids)
         fastq_metadata = [fastq.metadata for fastq in fastqs]
-        fastq_metadata = sorted(fastq_metadata, key=lambda d: d['cmoSampleName'])
+        fastq_metadata = sorted(fastq_metadata, key=lambda d: d["cmoSampleName"])
         cmoPatientId = set([fastq["cmoPatientId"] for fastq in fastq_metadata])
         # get DMP BAM file group
         dmp_bams = FileRepository.filter(file_group=settings.DMP_BAM_FILE_GROUP)

runner/tests/operator/access/manifest/test_access_manifest_operator.py

@@ -30,7 +30,8 @@ class TestAcessManifestOperator(TestCase):
     # test db
     fixtures = [os.path.join(ROOT_DIR, f) for f in COMMON_FIXTURES]
     header_control = "igoRequestId,primaryId,cmoPatientId,cmoSampleName,dmpPatientId,dmpImpactSamples,dmpAccessSamples,baitSet,libraryVolume,investigatorSampleId,preservation,species,libraryConcentrationNgul,tissueLocation,sampleClass,sex,cfDNA2dBarcode,sampleOrigin,tubeId,tumorOrNormal,captureConcentrationNm,oncotreeCode,dnaInputNg,collectionYear,captureInputNg"
-    id_control = 'C-ALLANT-N001-d01'
+    id_control = "C-ALLANT-N001-d01"
+
     def test_access_manifest_operator(self):
         """
         Test access manifest operator
@@ -57,6 +58,6 @@ def test_access_manifest_operator(self):
             with open(manifest_path, mode="r", newline="", encoding="utf-8") as file:
                 content = file.read()
             header = content.split("\r\n")[0]
-            id = content.split("\r\n")[1].split(',')[3]
+            id = content.split("\r\n")[1].split(",")[3]
             self.assertEqual(header, self.header_control)
             self.assertEqual(id, self.id_control)