New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Synth browsing: we need to bounce back to the MRCA of the constituent taxa #85

Open
mtholder opened this Issue May 4, 2016 · 1 comment

Comments

Projects
None yet
1 participant
@mtholder
Member

mtholder commented May 4, 2016

Currently if a higher taxon is monophyletic, we don't present a variable helpful UI. See:

https://tree.opentreeoflife.org/opentree/argus/ottol@34907/Drosophila-genus-in-Holozoa-

We now have (for each synth version) a file like: http://files.opentreeoflife.org/synthesis/opentree5.0/output/labelled_supertree/broken_taxa.json

Which provides among (other things) the MRCA for all of the tips that descend from a non-monophyletic taxon.

We need to:

  1. design some simple API that takes an OTT ID are returns that MRCA, or an error to indicate that the OTT ID does not correspond to a "broken" taxon.
  2. implement that somewhere. Presumably it just reads that JSON file and looks for the ottID in the non_monophyletic_taxa object.
  3. implement some method to tell that web service when there is a new version of synth (and hence a new file to read).
  4. implement the UI side that calls this service whenever the request to tm-lite for the higher level taxon fails.
@mtholder

This comment has been minimized.

Member

mtholder commented May 4, 2016

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment