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OpenTreeOfLife/germinator
Question on querying taxonomy API (taxon_info) with SILVA ids

Hi, First of all, thanks a lot for this great API! I am using the TNRS and taxonomy APIs to map ott ids to the different tax sources and vice versa. As described in your docs, all main tax sources can ...
  • RiboRings
  • Opened 
    11 days ago
  • #169

OpenTreeOfLife/germinator
Seems to be broken

HEy, I try to run the script but it always gets a 404 warning during the API request. while trycounter 10: try: r = requests.post( http://resolver.globalnames.org/name_resolvers.json ...
  • lnilya
  • 1
  • Opened 
    on Feb 11, 2025
  • #168

OpenTreeOfLife/germinator
Searches on names are not working

I noticed this in rotl, but it s actually in the base API, too. For example, from https://github.com/OpenTreeOfLife/germinator/wiki/Studies-API-v3#find_studies, it says Example command: $ curl -X POST ...
  • bomeara
  • 1
  • Opened 
    on Mar 19, 2023
  • #167

OpenTreeOfLife/germinator
Update shared apache config to match newer deployments and phylesystem-api

Currently testing these changes as a hot-fix on ot50 (devapi). We need identical changes to a number of URL rewrites from (dev)api to (dev)phylesystemapi: # Explicit routing for /cached/* URLs (in ...
  • jimallman
  • Opened 
    on Jul 23, 2022
  • #166

OpenTreeOfLife/germinator
Question: will the synthetic tree be updated again?

First of all, thanks for the tremendous and unprecedented work. I m currently working on yet another visualisation of your tree and was wondering, will there be any updated synthetic tree in the near future? ...
  • cleopatra17
  • 2
  • Opened 
    on May 29, 2021
  • #163

OpenTreeOfLife/germinator
wrong user name for path to taxonomy cgi script on frontend machines

  • mtholder
  • 2
  • Opened 
    on May 28, 2020
  • #161

OpenTreeOfLife/germinator
perhaps store the last version of otc-tol-ws executable

in case we need to roll back and don t want to wait for the recompile
  • mtholder
  • Opened 
    on May 26, 2020
  • #158

OpenTreeOfLife/germinator
perhaps kill pserve before killing otc-tol-ws during deploy

to avoid a pointless building up a huge queue of unforwardable requests
  • mtholder
  • Opened 
    on May 26, 2020
  • #157

OpenTreeOfLife/germinator
update docs on files.opentreeoflife.org

see https://github.com/OpenTreeOfLife/germinator/pull/127/files#diff-d5d9ab61ddc986d00db26098963be662
  • mtholder
  • Opened 
    on May 15, 2020
  • #156

OpenTreeOfLife/germinator
Feedback issues could contain markup for machine readable tests

Just some idle thoughts after pondering @hyanwong s avalanche of feedback issues: I ve been thinking about this kind of thing for a while. If a feedback issue says something is wrong in the tree, it ...
  • jar398
  • 2
  • Opened 
    on Dec 28, 2019
  • #150
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