[Biopython] Milestones for Biopython 1.78 - black style & no alphabets

[Peter Cock]

Hello all,

Last week at the BCC2020 CoFest thanks to multiple new contributors
we finished applying the black Python coding style to the remaining test
cases in Biopython. We now use this style for all our code.

Also, this has more impact for end users, we have now REMOVED the
Bio.Alphabet module.

In many cases, the alphabet can simply be ignored and removed from scripts.
In a few cases, you may need to specify the "molecule_type" as an annotation
on a SeqRecord for your script to work correctly. We are collating examples
on
https://github.com/biopython/biopython/issues/3156 (content likely to be
moved
to a more permanent location later).

You can read about or hear me talking briefly about this in the 5 minute
"Biopython Project Update 2020" talk given at BCC2020:

https://f1000research.com/slides/9-790

https://bcc2020.sched.com/event/coLV/biopython-project-update-2020

Kind regards,

Peter
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