Work done to support the human mitochondrial codon table in main, but missing from latest release 0.5.8.post1

[bsgiles73]

Describe the bug The latest build of bioutils does not include the recent work done to add the Human Mitochondrial translation table.

https://github.com/biocommons/bioutils/blob/main/src/bioutils/sequences.py#L605-L610

To Reproduce Steps to reproduce the behavior:

1. Install latest version of bioutils
2. Run translate_cds method with vertebrate_mitochondrial translation table option.

   (.venv) sgiles-MD6M:bioutils shane.giles$ pip freeze | grep bioutils
   bioutils==0.5.8.post1
   >>> from bioutils.sequences import translate_cds, TranslationTable
   >>> translate_cds("ATACGA", translation_table=TranslationTable.standard)
   'IR'
   >>> translate_cds("ATACGA", translation_table=TranslationTable.vertebrate_mitochondrial)
   Traceback (most recent call last):
   File "<stdin>", line 1, in <module>
   File "/Users/shane.giles/.pyenv/versions/3.11.4/lib/python3.11/enum.py", line 783, in __getattr__
   raise AttributeError(name) from None
   AttributeError: vertebrate_mitochondrial

Expected behavior Code does not throw exception using latest version, but uses the human mitochondrial translation table to generate the following.

>>> translate_cds("ATACGA", translation_table=TranslationTable.vertebrate_mitochondrial)
'MR'

[andreasprlic]

I think this makes sense: We merged the MR that adds mitochondrial support in https://github.com/biocommons/bioutils/commit/ab6a9e4bb204c6858f5e91e0a619fc085f5f9e94 which was in Jan 2024, but the 0.5.8 release was in July 2023. Solution should be to create a new release. I'll see if I can do that.

[andreasprlic]

I tried to create a new release, but it failed with the following. Looks like we need to update our release CI.

Checking dist/bioutils-0.6.0-py3-none-any.whl: PASSED
Uploading distributions to https://upload.pypi.org/legacy/
Uploading bioutils-0.6.0-py3-none-any.whl
WARNING  Error during upload. Retry with the --verbose option for more details. 
ERROR    HTTPError: 403 Forbidden from https://upload.pypi.org/legacy/          
         Invalid or non-existent authentication information. See                
         https://pypi.org/help/#invalid-auth for more information.   

[andreasprlic]

discussion for how to fix CI/CD on #68

[andreasprlic]

I rolled back the unfinished 0.6.0 release so we can restart it once #68 has been updated.

[andreasprlic]

bioutils 0.6.0 has been released. I consider this issue resolved.