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ropensci / bold

Interface to the Bold Systems barcode webservice
https://docs.ropensci.org/bold
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Unable to download data set for Chironomidae #82

Open tadeu95 opened 2 years ago

tadeu95 commented 2 years ago

Hello, so I have tried to download the data set for Chironomidae using the bold R function "bold_seqspec" and I have received this message:

Warning: Error in bold_seqspec: BOLD servers returned an error - we're not sure what happened try a smaller query - or open an issue and we'll try to help

It's weird because in the past I have downloaded larger groups than Chironomidae several times without a problem.

Thank you in advance for the answers!

salix-d commented 2 years ago

Tested and I do get the same error. It gives this message when the server return a 'Fatal error'. Tested with just curl_download and get "Send failure: Connection was reset" after downloading 92505167 bytes. (I though I could get partial data, but it seems to delete the temp file... In any case, it's definitively on the BOLD server.

Sometimes there's a mismatch between the data they say they have and the data they have, but I checked and all the children species are there and I was able to get data for their genera by splitting requests.

I'm currently working on making parsing bigger query easier. You can use taxize::bold_children() to get the genera and split the queries.