On 11 Mar 2015, at 14:24, Bob Harris <rshar...@bx.psu.edu> wrote:
> That's one seriously broken grammar that considers "1750M" to mean 1750000
> but thinks "1.75G" means 1.
You are not wrong. Coincidentally we've been working on improving ways to
specify numbers in htslib for a while, and can probably take advantage of that
here. Or just change this to -m FLOAT[SUFFIX], as people typing "G" here are
often expecting it to be a real number not just an integer, as we've seen.
So one way or another this'll be fixed in samtools 1.3. However that won't
help the original poster if their collaborators continue to recommend an
ancient unsupported version of samtools for sorting!
John
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