Plugin error from rescript: 504 Server Error: Gateway Timeout for url: https://eutils.ncbi.nlm.nih.gov/entrez/eutils/epost.fcgi
Any ideas on how to troubleshoot? Initially, I tried running with default parameters:
qiime rescript get-ncbi-data \ --p-query '(cytochrome c oxidase subunit 1[Title] OR cytochrome c oxidase subunit I[Title] OR cytochrome oxidase subunit 1[Ti it I[Title] OR COX1[Title] OR CO1[Title] OR COI[Title]) AND "BARCODE"[KYWD])' \ --o-sequences ncbi_boldonly_alltaxa_seqs.qza \ --o-taxonomy ncbi_boldonly_alltaxa_taxa.qza
I thought that maybe I needed to adjust the
--p-entrez-delay parameter to a larger integer value, so I reran the code with
--p-entrez-delay 0.9 and got the exact same error.
I’m curious - what was the largest number of sequences you queried with this new function? It looks like this timeout process happens within about 2.5 hours of the job launching (that is, it doesn’t happen right off the bat). Any concern that this isn’t so much a timeout generated because of the ‘number of sequences per unit time’ (a rate problem) instead of the sheer ‘length of time any number of requests are being asked for’ (a time length problem)?