Daniel Standage

> After checking PyTaxonKit [code](https://github.com/bioforensics/pytaxonkit/blob/master/pytaxonkit.py#L162), I think it does not perform any filtering or skipping. standage, am I right? Thanks for your patience with my delayed response, @shenwei356. You are...

Heh, I should have noticed the warning message in my first command that said the error rate was too high. Running the two commands with the adjusted error rate seems...

Curious. The threading caused a segfault on another Mac machine, but the commands worked just fine on a Fedora Linux machine. I wonder if it's compiler related: clang vs gcc?...

When I compile with clang on Linux, I get the same segfault error. There is probably some undefined/unguaranteed behavior in the code that gcc fixes automatically but clang does not....

Sorry I haven't responded to this earlier. If you wanted to submit a pull request with a correction to the documentation, that should be a fairly easy fix. I'd be...

This has been a pain point for...a while. See https://github.com/dib-lab/khmer/issues/389#issuecomment-63123529. This was planned for khmer (to be renamed as oxli) version 3.0, which unfortunately never really materialized. I don't anticipate...

Also, is there any reason to run extra tests/builds on OS X vs Linux? Since we always seem to be waiting on OS X VMs, perhaps we could move these...

Yeah, I think I was off base with my initial comment about caching. The Miniconda install is a relatively small contributor to the long runtime. I think it's mostly the...

ping @betatim

> What do people think about switching to clang-format My experience with `clang-format`, though limited, has been positive. I have no experience with `astyle`. I'd say if it's an easy...