Ragnar Groot Koerkamp

Maybe stderr buffer size can be increased more using something like https://stackoverflow.com/a/65035026/2716069. That should reduce flickering for large tables. On my screen the flickering typically happens in the same position...

Oh, we should either test or disable this for windows

I'm leaning towards enabling this by default. Now that it (seems to) work well I don't really see a reason not to. On terminals without overwriting you already needed `--no-bar`...

You can query terminal width and wrap lines manually?

I won't have time to review. Feel free to merge

I have the following seemingly simple usage of `flatten` with an enum in the `Inner` struct. Is this crash also related to this issue? I see most failures with `flatten`...

@zseri Yes, deserializing to `Inner` works fine. Updated the example above. Should I create a separate issue then?

So for context, we're currently also having a related discussion regarding the problem format. Especially to precisely specify which submissions are allowed / not allowed to be in this grey...

I got the impression that the BiWFA code was forked before some features were added to WFA2? I was also missing the `--algorithm` flag. Would be nice to see them...

Is this in the context of global or semi-global alignment (I suppose global given that you're aligning between anchors)? Could you explain the code you added a bit more? It...