Hi everyone! I’m running nf-core/variantbenchmarking and hit an error in PREPARE_VCFS_TRUTH:BCFTOOLS_REHEADER_TRUTH (SEQC2): Error: missing FORMAT fields, cowardly refusing to add samples. Failed to read from standard input: unknown file type. My truth VCF high-confidence_sSNV_in_HC_regions_v1.2.1.vcf.gz. Could the pipeline skip reheader, or is there another way to handle this? Also, when I tried running the example test profile (somatic_snv) from GitHub, the pipeline fails during parameter validation because the test input files no longer exist. Thanks for your help!

Hello! This step expects sample format to be there. I recommend you to add it manually :/ you can add a random name and GT 1/1 for example. The second error I am not aware of, I can check it over next week (since I am on travel now) if you can open an issue. Thank you!

Thank you for the quick response, I'll do that :)