clean up

Author: mathiasbio

cg_hermes/config/balsamic.py

@@ -537,7 +537,7 @@
     # CNV report
     frozenset(RAW_TAGS["report.pdf"]): {
         "tags": ["cnv-report"],
-        "is_mandatory": False,
+        "is_mandatory": True,
         "used_by": ["deliver", "scout"],
     },
     frozenset(RAW_TAGS["report.html"]): {
@@ -635,7 +635,6 @@
     frozenset(RAW_TAGS["tnscope.clinical.scored.vcf.gz"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["tnscope.clinical.scored.vcf.gz.tbi"]): {"is_mandatory": True},
     # CNVs (WGS)
-    frozenset(RAW_TAGS["report.pdf"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["tumor.vcf2cytosure.cgh"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["cnvpytor.circular.png"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["cnvpytor.scatter.png"]): {"is_mandatory": True},
@@ -667,7 +666,6 @@
     frozenset(RAW_TAGS["tnscope.clinical.scored.vcf.gz"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["tnscope.clinical.scored.vcf.gz.tbi"]): {"is_mandatory": True},
     # CNVs (WGS)
-    frozenset(RAW_TAGS["report.pdf"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["ascat.copynumber.txt.gz"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["tumor.vcf2cytosure.cgh"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["normal.vcf2cytosure.cgh"]): {"is_mandatory": True},
@@ -698,7 +696,6 @@
     frozenset(RAW_TAGS["merged.clinical.scored.vcf.gz"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["merged.clinical.scored.vcf.gz.tbi"]): {"is_mandatory": True},
     # CNVs (PANEL)
-    frozenset(RAW_TAGS["report.pdf"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["report.html"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["tumor.merged.cns"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["tumor.merged.cnr"]): {"is_mandatory": True},
@@ -732,7 +729,6 @@
     frozenset(RAW_TAGS["merged.clinical.scored.vcf.gz"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["merged.clinical.scored.vcf.gz.tbi"]): {"is_mandatory": True},
     # CNVs (PANEL)
-    frozenset(RAW_TAGS["report.pdf"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["report.html"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["tumor.merged.cns"]): {"is_mandatory": True},
     frozenset(RAW_TAGS["tumor.merged.cnr"]): {"is_mandatory": True},