chore(deps): allow xopen major version 2

[corneliusroemer]

There were no breaking changes of relevance to us, so we can allow xopen v2.

One small change: PipedCompressionReader/Writer was renamed to _pipedCompressionProgram.

If we want to support both v1 and v2, we have to do a bit of an ugly try/except import workaround. Probably worth keeping that for a few months because some programs people might want to use with augur potentially only support v1 at this point.

Once we merge and release this, we can install latest augur via conda-forge/bioconda natively on osx-arm64.

See xopen changelog: https://github.com/pycompression/xopen/blob/main/README.rst#v200-2024-03-26

Description of proposed changes

Related issue(s)

Checklist

• Automated checks pass
• Check if you need to add a changelog message
• Check if you need to add tests
• Check if you need to update docs

[codecov]

Codecov Report

Attention: Patch coverage is 66.66667% with 2 lines in your changes missing coverage. Please review.

Project coverage is 69.89%. Comparing base (81badd2) to head (9064b55).
Report is 176 commits behind head on master.

Files with missing lines	Patch %	Lines
augur/io/file.py	66.66%	2 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##           master    #1532      +/-   ##
==========================================
- Coverage   69.90%   69.89%   -0.01%     
==========================================
  Files          75       75              
  Lines        7882     7887       +5     
  Branches     1933     1933              
==========================================
+ Hits         5510     5513       +3     
- Misses       2086     2088       +2     
  Partials      286      286              

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[victorlin]

Looks good, just one more small thing

[corneliusroemer]

I removed the whitespace ;)

Would it be possible to release as 25.1.0? I know it's a bit silly given you released just recently - but it would mean we'd have full osx-arm64 conda support which would be rad :D

[victorlin]

@corneliusroemer for sure! Let me take a look at #1534 and I can release both at the same time.