Merge pull request #451 from EBIvariation/tcezard-patch-1

EVA-3087 - Allow contig name to be invalid in the release QC
EBIvariation · Jun 5, 2024 · cc2168f · cc2168f
2 parents 8cd87c7 + fc2dbc5
commit cc2168f
Showing 1 changed file with 2 additions and 1 deletion.
diff --git a/eva-accession-release-automation/run_release_in_embassy/analyze_vcf_validation_results.py b/eva-accession-release-automation/run_release_in_embassy/analyze_vcf_validation_results.py
@@ -32,7 +32,8 @@ def analyze_vcf_validation_files(vcf_validation_report_files):
                                                      "do not share the first nucleotide",
                                                      "the input file is not valid",
                                                      "the input file is valid",
-                                                     "not listed in a valid meta-data ALT entry"]
+                                                     "not listed in a valid meta-data ALT entry",
+                                                     "Chromosome is not a string without colons or whitespaces"]
     vcf_validation_error_grep_command_chain = " | ".join(['grep -v "{0}"'.format(error_class) for error_class in
                                                           vcf_validation_report_error_classes_to_ignore])
     for vcf_validation_report_file in vcf_validation_report_files: