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brentp / bwa-meth

fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome
https://arxiv.org/abs/1401.1129
MIT License
139 stars 53 forks source link

'samtools sort' memory limit #14

Closed superbobry closed 9 years ago

superbobry commented 9 years ago

It's currently not possible to configure the memory limit for samtools sort. Can you please add a command line option?

brentp commented 9 years ago

I'm hesitant to add more command-line options, what do you think about using a sane default, like 2G ?

superbobry commented 9 years ago

2G or 4G is fine, yup.