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**Current Behavior**
Running augur export v2 with recent ncov data can produce a case when an author has more than associated 52 publications. In this case, the index of the author tuple (see tra…
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augur refine -t indian_837_data.nwk -a aligned_indian_837.fasta --metadata metadata_2020-06-16_07-16.tsv --output-tree refine_indian_837_data.nwk --output-node-data branch_lengths_indian_837.json --ro…
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We automatically upload this file on a daily basis for data analysis.
Manual download from GISAID it not a solution!
In a time of crisis, it is irresponsible to add barriers to data access!
P…
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@ewong347 are you still triggering downloads manually? otherwise the `covizu.sh` script should be running the whole analysis to update the JSON files.
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Hi
Sorry to have many questions, but I need to verify all important details.
[Ncov](https://github.com/nextstrain/ncov/blob/master/config/reference.gb) repo is using a difference refernce than `pa…
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Dates imported in the appropriate ISO 8601 standards are being flagged as invalid and sometimes reformatted into an invalid format and/or a different date upon upload.
EXAMPLES:
- **"2020"** (YYYY…
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I recently pulled the latest version of the repo and ran the sequences downloaded from gisaid. I am running into this following error during the iqtree step:
`(nextstrain) [kumara22@vanbah01-1 ncov…
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Here is a long list to be copied into the Resources section:
# Resources
## Infrastructures
COVID-19 HPC Consortium
https://www.xsede.org/covid19-hpc-consortium
The consortium encompasses compu…
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The`clade` column is present in the nextstrain_ncov.tsv file available for download from the nextstrain website, however, it's missing in this info in the metadata.tsv file.
Alternatively, can the …