setting up private config for RSV-B

[DOH-DAH0303]

I set up a new config file for a private build - profiles/wadoh/private-config-b.yaml. The private sequences and metadata are masked by .gitignore.

I can do the same for RSV-A if you all would like. We don't have any private RSV-A data yet.

This can be tested with:

nextstrain build . --forceall --configfile profiles/wadoh/configfile_wadoh.yaml

Let me know if you all would like the private data folder for testing purposes.

[DOH-LAF2303]

This is great! For adding private data for RSV A, could that be done by adding it to this config file or are you suggesting there are two separate config files for spiking in data- one for A and one for B. If you have some readily available test data to spike in I'd love to also test it out.

[DOH-DAH0303]

I'll send you the private data. I converted this back to draft because, while it builds, I'm not seeing the private sequences in the .json output. It looks like it isn't making it past augur filter.

[DOH-DAH0303]

Just wanted to add some notes here:

The config file works as-is to incorporate private data, but there must be some dummy columns in the metadata for the private sequences to pass augur filter. The minimum metadata tsv file should include:

accession - The WA ID associated with the sample
strain - Also the WA ID - this replaces accession as the ID in the final .json (last step in workflow)
date - XXXX-XX-XX
division - 'Washington'
country - 'USA'
qc.overallStatus - 'good'
genome_coverage - 1
missing_data -0