feat: switch to nextclade3, by downloading "latest" binary

[corneliusroemer]

Modernize nextclade rule, removing unnecessary args (e.g. --genes) and make it v3 compliant

Necessary to use latest SARS-CoV-2 dataset to get latest lineages

Summary of changes:

• Download latest binary rather than fixed version of nextclade
• Remove --genes filter - it served no purpose/wasn't necessary
• Migrate translations template to v3 (gene -> cds)
• Don't error if nextclade input sequences empty, necessary because of https://github.com/nextstrain/nextclade/issues/1422

Tested with debug profile, but it's a bit tricky in practice, so will do another test run.

Also:

• https://us-east-1.console.aws.amazon.com/batch/home?region=us-east-1#jobs/ec2/detail/66f7a896-65ad-42d7-991a-bc7afa52b1fd
• https://us-east-1.console.aws.amazon.com/batch/home?region=us-east-1#jobs/ec2/detail/cef2bd89-47cf-44a6-be18-f9a17dbe7378

[corneliusroemer]

I'll add new touchfiles so we do a full rerun - it's important we check the live output - it should be ok but just in case.

Ran:

aws s3 cp - s3://nextstrain-ncov-private/nextclade.tsv.zst.renew < /dev/null
aws s3 cp - s3://nextstrain-data/files/ncov/open/nextclade.tsv.zst.renew < /dev/null