empty output file

[alexyfyf]

Hi team,

I tried BS-Snper on my RRBS data.
The methylation calling and intermediate files were generated, but the final output is empty, however.
I followed exactly your example code, and the bam file is from bismark.
Could you help how to debug this?
Thank you!

[laurahspencer]

We have the exact same issue! @alexyfyf did you identify a cause of your empty output files? Better yet, a solution?

[alexyfyf]

We have the exact same issue! @alexyfyf did you identify a cause of your empty output files? Better yet, a solution?

Sorry I gave up and have got a way to make it work.

[DCGreen-Mitra]

@alexyfyf We are having the same issue. How did you manage to solve this in the end?

[alexyfyf]

@alexyfyf We are having the same issue. How did you manage to solve this in the end?

Sorry, I gave up and have not got a way to make it work.