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Published 20 hours ago • verified publisher icon KChen-lab

samtools mpileup

Open joonan30 opened this issue 10 months ago • 8 comments

Hi

Thanks for the tool. It's really nice. One thing I noted is that samtools in your code use old version and mpileup -t and -v is deprecated in the latest version (v 1.18). I am currently using 1.13 binary on my M1 mac, which seems working expectedly but the run with 1.18 is not working.

Are you updating this with bcftools mpileup in future?

[warning] samtools mpileup option `t` is functional, but deprecated. Please switch to using bcftools mpileup in future.
[warning] samtools mpileup option `t` is functional, but deprecated. Please switch to using bcftools mpileup in future.
[warning] samtools mpileup option `v` is functional, but deprecated. Please switch to using bcftools mpileup in future.
[warning] samtools mpileup option `v` is functional, but deprecated. Please switch to using bcftools mpileup in future.
[warning] samtools mpileup option `t` is functional, but deprecated. Please switch to using bcftools mpileup in future.
[warning] samtools mpileup option `v` is functional, but deprecated. Please switch to using bcftools mpileup in future.
[warning] samtools mpileup option `t` is functional, but deprecated. Please switch to using bcftools mpileup in future.
[warning] samtools mpileup option `v` is functional, but deprecated. Please switch to using bcftools mpileup in future.
[warning] samtools mpileup option `t` is functional, but deprecated. Please switch to using bcftools mpileup in future.
[warning] samtools mpileup option `v` is functional, but deprecated. Please switch to using bcftools mpileup in future.

joonan30 avatar Aug 29 '23 22:08 joonan30