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chore: remove unused code #63

Merged
merged 15 commits into from
Oct 13, 2023
Merged

chore: remove unused code #63

merged 15 commits into from
Oct 13, 2023

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korikuzma
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Remove unused code. We can add things back in the future if needed

Notes:

  • Removed clinvarparser, variation normalizer rest translator, digest, formats, + ordered enum
  • Removed DEFAULT_TRANSLATE_URI

theferrit32 and others added 14 commits September 17, 2023 10:43
* Update dev installation starting rest server
* Update db name anyvar_db --> anyvar
close #51

If memory serves, this was originally part of AnyVar, and I tore it out in favor of the VICC Variation Translator. This PR adds it back in as the default translator layer.

The only data dependency is a SeqRepo instance -- I think it makes sense to fall back on the VRS-Python create_dataproxy function and use the same URI schema that it prefers, but set it from the SEQREPO_DATAPROXY_URI variable and use REST service on localhost port 5000 by default (rather than erroring if it's unset)
* Removed clinvarparser, variation normalizer rest translator, digest,
  formats, + ordered enum
* Removed DEFAULT_TRANSLATE_URI
@korikuzma korikuzma requested a review from a team as a code owner September 29, 2023 14:39
@korikuzma korikuzma self-assigned this Sep 29, 2023
jsstevenson
jsstevenson previously approved these changes Oct 9, 2023
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@jsstevenson jsstevenson left a comment

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👍

there is... a view of AnyVar where the VICC normalizer is a first-class citizen, so I think we should be sure to maintain the translate interface abstraction (rather than becoming too intertwined with VRS-Python specifically) but I'm happy to not worry too much about the normalizer backend for now

Base automatically changed from issue-52 to main October 12, 2023 17:08
@korikuzma korikuzma dismissed jsstevenson’s stale review October 12, 2023 17:08

The base branch was changed.

@korikuzma korikuzma requested a review from jsstevenson October 12, 2023 17:46
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4 participants