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[bioontology-support] 504 Gateway Timeout for NCBITAXON

Ray Fergerson rayferg at
Fri Oct 9 16:42:48 PDT 2015

This appears to be working now. Are you still seeing problems?


From: Richard Worrall [mailto:richard at]
Sent: Friday, October 9, 2015 3:21 AM
To: Ray Fergerson
Cc: support at
Subject: Re: [bioontology-support] 504 Gateway Timeout for NCBITAXON

Hi Ray,

Thanks for looking at this, it was working shortly afterwards but appears to be failing again today. Would you let me know if there is a more preferable way to consume this taxonomy?

Many Thanks,
— Richard

On Friday, 2 October 2015 at 00:21, Ray Fergerson wrote:

Confirmed that this is not working. We will look into it. We have had trouble with NCBITaxon in the past because it has 1M classes and some nodes have tons of subclasses that cause us problems.


From: bioontology-support [mailto:bioontology-support-bounces at] On Behalf Of Richard Worrall
Sent: Thursday, October 1, 2015 4:44 AM
To: support at<mailto:support at>
Subject: [bioontology-support] 504 Gateway Timeout for NCBITAXON

Hi Guys,

I’m working on a project for Nature Publishing where we need to ingest the NCBITAXON ontology from the Bioportal API. I’ve been frequently running into 504 Gateway Timeout nginx errors when attempting to access URLs such as — I just wondered whether this is an issue you’re aware of, or if there is any workaround that you can suggest?



Richard Worrall<>

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