fix var names

Clinical-Genomics · Aug 28, 2024 · 54ae5c5 · 54ae5c5
1 parent 8a2fb22
commit 54ae5c5
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Showing 2 changed files with 8 additions and 3 deletions.
diff --git a/cg/constants/scout.py b/cg/constants/scout.py
@@ -103,7 +103,7 @@ class ScoutUploadKey(StrEnum):
 
 RAREDISEASE_SAMPLE_TAGS = dict(
     bam_file={"bam"},
-    alignment_file={"cram"},
+    # alignment_file={"cram"},
     vcf2cytosure={"vcf2cytosure"},
     mt_bam={"bam-mt"},
     chromograph_autozyg={"chromograph", "autozyg"},

diff --git a/cg/models/scout/scout_load_config.py b/cg/models/scout/scout_load_config.py
@@ -69,8 +69,13 @@ class ScoutMipIndividual(ScoutIndividual):
 
 class ScoutRarediseaseIndividual(ScoutIndividual):
     mt_bam: str | None = None
-    chromograph_images: ChromographImages = ChromographImages()
-    reviewer: Reviewer = Reviewer()
+    bam_file: str | None = None
+    chromograph_autozyg: str | None = None
+    chromograph_coverage: str | None = None
+    chromograph_regions: ChromographImages = ChromographImages()
+    chromograph_sites: ChromographImages = ChromographImages()
+    reviewer_alignment: Reviewer = Reviewer()
+    reviewer_alignment_index: Reviewer = Reviewer()
     rhocall_bed: str | None = None
     rhocall_wig: str | None = None
     tiddit_coverage_wig: str | None = None