Closed zoeluo15 closed 4 years ago
It's saying the files are not in the expected format in a basic way. Possibly compression? See if you can go through the tutorial successfully and compare the example input file formats with what you've got.
I think I have got the correct format but GLnexus was confused by the file name, I changed sample01.sub1.gvcf to sample01_sub1.gvcf and the problem is gone. Thank you for your help! Zoe
Hello,
I was trying to merge gvcf files using the following command, glnexus_cli --config DeepVariantWGS -a --threads 24 vcfs/*gvcf -m 32 1>vcfs/merged.gvcf 2>err.log
(version: glnexus_v1.2.3)
And here is the error message I got.
Any help would be greatly appreciated!
Zoe