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Upload via accession number about fauna HOT 4 CLOSED

trvrb avatar trvrb commented on June 2, 2024
Upload via accession number

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Comments (4)

chacalle avatar chacalle commented on June 2, 2024

Now can upload with --ftype fasta, --ftype genbank, or --ftype accession. --ftype genbank uploads from genbank file, can have multiple genbank entries in file. --ftype accession uploads from file with one accession number defined on each line. Also can give comma separated list of accessions --accessions KU729218,KU853013 to upload via entrez. I think these new upload methods work with all the accessions currently in the Zika table.

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chacalle avatar chacalle commented on June 2, 2024

Need method to parse country from genbank entry defined like KU853012 which has country defined as Italy: Padua.

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trvrb avatar trvrb commented on June 2, 2024

This is fantastic. Thanks Charlton.

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chacalle avatar chacalle commented on June 2, 2024

Seems to be working for now. Will probably need updating for genbank entries that aren't formatted as expected.

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