Maybe someone experienced this before (BEDtools v.2.26.0)
Having a folder with a BED file and a number of VCF file, aiming to intersect:
bedtools intersect -c -a tmp.bed -b *.vcf > counted.txt
Error message on macOS 10.12.5:
"Error: Unable to open file RG142.snp.LOH_Ex1KG_sorted.vcf. Exiting."
The same command with the exact same
commands files works perfectly fine on our CentOS HPC cluster.
As I have no idea where to start debugging, suggestions are appreciated.