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A number of anthropogenic and other terms for our GenEpiO #460
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Sure, but note that an Agronomy Ontology has spun off from ENVO currently run by @celineaubert. Many of these terms could go there. @celineaubert, below I've listed the terms that I think could fit in AgrO - if any of these are out of scope, let me know and I'll add them to ENVO. I'm placing all animal-related terms in ENVO to prevent mission creep for AgrO. When a broader Agricultural Ontology emerges, we can transfer them.
Yes, you could either create new issues for each term or link to a Google Spreadsheet with your proposed definitions. Be careful though, some of the labels you use suggest categorisations not supported by ENVO. For example, ENVO's drainage canal is not limited to agricultural systems. The same is true for drainage ditch Also, it's generally considered problematic to have labels like "animal - housing - built - closed", as these are trying to do the job of the hierarchy and other axioms. Potential AgrO terms@Public-Health-Bioinformatics please provide definitions for these too These below could also go in ENVO, but I believe they're relevant to agronomic fertilisers. Note the discussion on manure: #348 ENVO termsWe have dairy, litter, vehicle, Additionally, would human house do the job for residential building? Or is this a union of things like apartment buildings etc? Other termsI'm not sure what you mean with |
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The question of how to divide terms between AgrO and ENVO is difficult. We want to avoid complex mutual imports. But I think all the decisions above make sense. One possibility is that AgrO tends towards agronomic processes, instruments, variables and qualities. |
Public-Health-Bioinformatics
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Jan 20, 2017
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Ok, thanks for grilling these terms. I'll prepare a spreadsheet and elucidate on some of them. You are right, there are a few conjunctive terms, like "animal - fluid, carcass" which we should keep as separate descriptors. We have a few veterinary epidemiologist/genomics experts working with us now on the sampling metadata, helping define precise environmental descriptors for sample/swab work. |
Public-Health-Bioinformatics
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Jan 21, 2017
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I just realized the animal food items best fit in FoodOn (doh!). |
celineaubert
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Jan 24, 2017
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Some classes are already in AgrO: |
Public-Health-Bioinformatics
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Jan 25, 2017
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Ok, thanks, and glad to see crop etc. there. So Agro is now the home for manures and composts?! Makes sense. The google docs sheet I'm doing with Gregory Harhay of entries we need for agriculture sector buildings has a focus on identifying places that samples are taken from. I'll send it to you and Pier once its finished. Thanks! |
Public-Health-Bioinformatics
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Jan 28, 2017
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About FoodOn, I realize now agricultural animal feed items should originate from AGRO?! I just checked what FoodOn has for "animal feed" ... |
Wouldn't all food stay in FOODON? It's tricky, but I think FOODON's focus on food composition and nutrition is more valuable here. AGRO can import them. |
marieALaporte
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Mar 9, 2017
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Céline left one month ago and I am just taking over Agro now, trying to catch up on things. |
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@marieALaporte I'll be back from conferencing tomorrow. We could Skype anytime that day. Call if you see me online. |
Public-Health-Bioinformatics
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Mar 9, 2017
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Ok. If you all have agreement on that. Happy to incorporate all animal foods. In other news a FoodOn/GenEpiO contributor Gregory Harhay is working on: https://docs.google.com/spreadsheets/d/13d-FcjcvsY-vsJI9A7ueAB29L5EKTv4Kzhu3ULMDR3g/edit#gid=0 to provide adequate definitions. This is our preliminary guess about which of these terms should end up in AGRO vs ENVO. We'll let you know when it is finished. |
pbuttigieg
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Mar 23, 2017
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pbuttigieg |
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pbuttigieg
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pbuttigieg |
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In editor's versionDouble check theseENVO's Clarification neededIs this not the same as This isn't really a building, more of a gathering. Would need a def here. Are we talking about a swimming pool? punt to other ontologiesI suggest you punt this to PCO (@ramonawalls). We can re-import this into ENVO and describe the environment determined by a gathering (of humans?) if needed. FOODON should contain this. TODO: |
ramonawalls
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Mar 23, 2017
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@Public-Health-Bioinformatics, please file a term request issue for http://purl.obolibrary.org/obo/ #edit social gathering in the PCO tracker (https://github.com/PopulationAndCommunityOntology/pco/issues). There are a several new terms in PCO, so I'd like to add social gathering as well before doing a release. |
Public-Health-Bioinformatics
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Mar 24, 2017
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Ok, I'll have a close look at this tomorrow. One thing to verify is that our updated wish list is at https://docs.google.com/spreadsheets/d/13d-FcjcvsY-vsJI9A7ueAB29L5EKTv4Kzhu3ULMDR3g/edit#gid=0 , Also I have to discuss with him how long the definitions need to be (as they appear in the google spreadsheet). About animal – feed, on that spreadsheet we're actually asking for a new item "silage' under it, not "animal – feed" any more. In case I didn't mention it before, Gregory is an Animal Veterinarian and so is listing off all the sites that samples are extracted from. About: waste water – industrial. Hmm. The term was obtained from a sample sheet that had no further explanation. It made me think of the distinction between agricultural waste water and manufacturing effluent/tailing pond water. But we could try to do without the distinction and just revisit if someone requests it? Ciao, Damion |
Makes sense, I suppose this can be imported into FOODON for the food uses of silage. We do have these terms: I notice quite a few carcass terms. We have some in ENVO, which makes sense, however, the treatment of carcasses for consumption etc should probably be expanded on in FOODON. In editors' version@Public-Health-Bioinformatics thank you for requesting "hot tub". This is a great day. Also added: Needs clarificationI assume we're dealing with the constructed kind? I found a pretty good definition from The Great Soviet Encyclopedia:
Water Intake Works. (n.d.) The Great Soviet Encyclopedia, 3rd Edition. (1970-1979). Retrieved March 27 2017 from http://encyclopedia2.thefreedictionary.com/Water+Intake+Works |
pbuttigieg
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Mar 27, 2017
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pbuttigieg |
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@Public-Health-Bioinformatics many of the requested terms have been released today. |
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@Public-Health-Bioinformatics any input on the clarification request above? |
Public-Health-Bioinformatics
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Apr 26, 2017
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First, thanks for the Mar 27 terms! About water intake, great definition, yes, that's the one. Trust the soviet socialist republics to get it right! |
Public-Health-Bioinformatics
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Apr 26, 2017
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I will add all carcass terms to FoodOn now since Gregor seems to have finished supplying definitions there. |
Public-Health-Bioinformatics
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Apr 26, 2017
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What do you think about "kiosk" and "food truck". Are these kinds of thing still within ENVO purview? Also, building parts like sink, shower and bathtub, are they good for ENVO? |
Public-Health-Bioinformatics
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Apr 26, 2017
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About: building - agricultural fair ... right; that should be "building - agricultural fairground", encompassing all the temporary animal housing and husbandry facilities etc. (Adapted from Wikipedia definition https://en.wikipedia.org/wiki/Agricultural_show ): "An agricultural fairground is the permanent site for agricultural shows in which the equipment, animals, sports and recreation associated with agriculture and animal husbandry are presented." residential building ... yes, this is a union of things like apartment buildings, private home, hotel etc. pool ... yes, this should be "swimming pool (public or private)" . Wikipedia: A swimming pool, swimming bath, wading pool, or paddling pool is a structure designed to hold water to enable swimming or other leisure activities I have stocked the ENVO section of our term sheet with mainly wikipedia definitions: https://docs.google.com/spreadsheets/d/13d-FcjcvsY-vsJI9A7ueAB29L5EKTv4Kzhu3ULMDR3g/edit#gid=0 Thanks for reviewing this. |
Thanks for the requests! I'll move on the USSR term and def.
Great, but please be sure that these are carcasses intended for human consumption. Whalefalls or deer rotting in a forest are more ENVO domain for now I think (even though they are food) as we can axiomatise them for effectively.
For the moment, yes, as we don't have ontologies that deal with such things in the OBO sphere yet. We'll incubate this branch as we did the food branch. Please create a new issue for those requests and add some proposed defs.
Hmm, still trick as this is a site which occasionally has the rest of the party around. I'll see what I can do, but you want to capture the active fairground rather than the allocated space, right?
We have residential building, but we exclude hotels and other places intended for short term stays. I can create a union class if needed, but note that hotels are not usually considered residences in national statistics.
Looks good, will add. |
Public-Health-Bioinformatics
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Apr 27, 2017
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About agricultural fairground - our intention is to describe the place where a specimen was extracted. (How recently activity was there would have to be a second dimension of description I think.) For "residential building", glad to see it there. I think then we'd need another category to cover hotel (& motel, bed&breakfast etc.), for specimen site, and it looks like https://en.wikipedia.org/wiki/Hotel could cover this. I'm recalling Legionnaire's outbreak (https://en.wikipedia.org/wiki/1976_Philadelphia_Legionnaires%27_disease_outbreak) I will put above distilled, outstanding items into new issues list. Thx. |
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This is pretty much done right @Public-Health-Bioinformatics? Xref #505 Sent from my Samsung SM-G950F using FastHub |
Public-Health-Bioinformatics
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Jun 27, 2017
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seems like it is; I've just left a few comments under AgrO issues board. So this could be closed. |
Public-Health-Bioinformatics commentedJan 20, 2017
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At moment GenEpiO has some terms that would best be moved into ENVO. Below is a list of terms we're currently using, along with commented out items which we'd created placeholders for and which we thought you'd like moved over to ENVO to get ENVO id's ?. I presume we need to provide a definition for each of these? How should we do the submissions?