Empty vcf file after Error: subscript contains invalid names; result.txt_MEIs.txt shows MEI calls

[vinzenzmay]

Hi, I try running scramble on some eome giab NA12878 sample data. It interrupts with the following message:

Sample had 22 MEI(s)
Done analyzing MEIs
Loading required package: GenomicRanges
Error: subscript contains invalid names
Execution halted

The output file result.txt_MEIs.txt shows these 22 MEIs, but the according vcf file result.txt.vcf shows only the header.

If I understand this correctly, it failed within an R script. The installed version of R in the used environment is 4.1.3; GenomicRanges used in the R environment is version 1.46.1.

What further information can I provide to enable you to propose a solution?

Thank you in advance both for helping and for having developed this amazing tool,
Vinzenz

[vinzenzmay]

This here seems to be the solution:
#14