build!: update cool-seq-tool + ga4gh.vrs versions

[korikuzma]

close #408

Notes:

• Updates cool-seq-tool + ga4gh.vrs versions. This mainly had to do with fixing inter-residue positions. cool-seq-tool previous versions returned 0-based coordinates.
• Temporarily removes gnomad_vcf_to_protein, which will be added back in feat!: add more support for queries in gnomad_vcf_to_protein  #529
• Tests
  * The gnomad_vcf_to_protein tests are failing. They pass in the issue-362-2-alpha branch for Add more support for deletions/insertions gnomad_vcf_to_protein #362 . This branch is essentially done, just needs some code cleanup and will make a PR in the morning.
  • Validator fixtures were updated because a query was incorrectly classified
  • The normalize test was removed because the query actually has a MANE select priority

[korikuzma]

I think I'm waiting for #529 to be approved before I merge this. This is because gnomad_vcf_to_protein work is broken in this, but #529 files it

[korikuzma]

For the sake of transitioning to serverless, I'm just going to comment out the gnomad_vcf_to_protein work and merge this PR.

[korikuzma]

Linting will be resolved in a separate PR

[jsstevenson]

lgtm

[jsstevenson]

Linting will be resolved in a separate PR

enjoy

[korikuzma]

@jsstevenson I already regret assigning the issue to myself