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Okay thanks @bshifaw for your help. I think I got it working. I did try the ValidateVariants command, but that threw the identical error. The critical issue seemed to be: htsjdk.tribble.TribbleException: Contig I does not have a length field A…
Hi, I am having what looks like the same problem, so I'm posting here instead of making a new query. Attached is the full log, but in brief, my commands are: gatk FastaAlternateReferenceMaker \ -R c_elegans.PRJNA13758.WS263.genomic.fa \ -O pkc3…
I have the same problem. I saw that tensorflow was not listed as a package in my miniconda so I installed it, v 1.13.1. But when I try again to create the gatk environment, I still get: Collecting package metadata: done Solving environment: fail…
Thank you Sheila!