Restart bs_align

[keckstrom]

I am in the process of running bs_align on several samples, and even after splitting into read subsets it is taking a long time to run (very high coverage sequencing). The HPC at my university has a 1 week walltime, which for most samples is plenty, but a few jobs failed to finish in that time. Is there a way to restart those jobs at the point of failure, or does the entire command need to be run again?

Thanks,
Korin

[guoweilong]

Here are some suggestions for your case.
https://github.com/BSSeeker/BSseeker2#1-performance

Actually, cut the large file into small pieces and mapped them independently will speed up the processing.
Then merge all bam files together.

Best,
Weilong