[Esip-semanticharmonization] [EXT]Re: [EXTERNAL] SWEET ENVO Cryosphere term mapping

[Kai Blumberg]

Great thanks for picking it up @Mcgibbney, Lewis J (398M)
<lewis.j.mcgibbney at jpl.nasa.gov>!

On Wed, Jun 17, 2020 at 1:16 PM Mcgibbney, Lewis J (172B) <
lewis.j.mcgibbney at jpl.nasa.gov> wrote:

> *External Email*
>
> Hi Kai,
>
>
>
>
>
> *From: *Kai Blumberg <kblumberg at email.arizona.edu>
> *Date: *Wednesday, June 17, 2020 at 12:21 PM
> *To: *"Mcgibbney, Lewis J (172B)" <lewis.j.mcgibbney at jpl.nasa.gov>
> *Cc: *"esip-semanticharmonization at lists.esipfed.org" <
> esip-semanticharmonization at lists.esipfed.org>, Ruth Duerr <
> ruth.duerr3 at gmail.com>, Anne Thessen <annethessen at gmail.com>,
> "Charlesl.lm8ms F. Vardeman II" <charles.vardeman at gmail.com>, Gary
> Berg-Cross <gbergcross at gmail.com>, Pier Buttigieg <pbuttigi at mpi-bremen.de>,
> Mark Schildhauer <schild at nceas.ucsb.edu>
> *Subject: *Re: [EXT]Re: [EXTERNAL] SWEET ENVO Cryosphere term mapping
>
>
>
> Yes I did, SWEET is small enough that I find working with it manually to
> be most efficient, especially for a task like this.
>
>
>
> OK great.
>
>
>
> Unfortunately as far as I can tell, SWEET terms still don’t have
> definitions at least the version shown on bioportal,
>
>
>
> Progress on this issue can be seen at
> https://github.com/ESIPFed/sweet-tools/pull/5
>
> I will go back to complete that item which will hopefully resolve a large
> part of this problem
>
>
>
> and their id’s which should be URLS e.g.,
> http://sweetontology.net/matrWater/Hydrate don’t seem to resolve.
>
>
>
> Thanks for picking this up. I can replicate the behavior. Here is the
> issue… the pyLODE service (
> https://github.com/mmisw/orr-portal/wiki/Using-pyLODE-for-ontology-documentation)
> is servicing Brower-based traffic to SWEET HTTP URIs. For example, see
> http://sweetontology.net/matrWater. For what I can tell right now, the
> problem seems to be servicing embedded/nested content… which is strange.
> Maybe we have some sort of rule which needs to be corrected. I’m going to
> look into it right now.
>
>
>
> There are some automated mappings for example this one made by Chris
> Mungall 5 years ago
> <https://github.com/EnvironmentOntology/envo/blob/master/mappings/sweetrealm-mapping.tsv>.
> Bioportal also has a feature that does automated mappings, see this one
> between SWEET and ENVO
> <https://bioportal.bioontology.org/mappings/show/SWEET?target=http://data.bioontology.org/ontologies/ENVO&height=600&width=800>.
>
>
>
>
> I’ve seen these before and they are useful. I was unable to reproduce them
> myself and spoke to Chris Mungall about this ages ago. We didn’t get any
> further with it at the time.
>
>
>
> Right now, I’m going to work on the COR issues you’ve highlighted. I’m
> tracking it through https://github.com/mmisw/orr-portal/issues/167
>
> I’ll follow-up her once we fix this.
>
>
>
> Lewis
>
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