One way to deal with this is to make it clear in the documentation that Individual is short for "IndividualOrganism".
When this individual is broken up into different parts like "tissue specimen" this can be handled through subproperties of "hasPart", "isPartOf"
On Wed, Nov 3, 2010 at 12:38 PM, John Wieczorek tuco@berkeley.edu wrote:
This is what happened to Organism, from the thread Re: [tdwg-content] Treatise on Occurrence, tokens, and basisOfRecord [SEC=UNCLASSIFIED].
John said:
"I like Organism, but I don't like the inconsistency it would make with individualID and individualCount on the one hand, or extra work to change these to organismID and organismCount on the other. Individual doesn't carry these extra burdens, and could be added without breaking any existing applications."
Rich said "OK" so it must be OK. ;-)
On Wed, Nov 3, 2010 at 10:03 AM, Blum, Stan SBlum@calacademy.org wrote:
All:
What happened to changing the term to organism? I think the word
organism, at least strictly speaking, is closer to our intention than individual.
Compare the definitions you get from:
http://www.google.com/search?hl=en&q=define:+individual&btnG=Search
And
http://www.google.com/search?hl=en&q=define:+organism&btnG=Search
-Stan
On 11/3/10 9:02 AM, "John Wieczorek" tuco@berkeley.edu wrote:
I have no further objection if the wording is changed as you propose
here. If no one else has any objections, this one seems ready to be prepared for the TAG following the voting mechanism proposed at TDWG this year. I'll take the responsibility to see that through as soon as I can.
On Wed, Nov 3, 2010 at 7:24 AM, Steve Baskauf <
steve.baskauf@vanderbilt.edu> wrote:
John, I'm not sure that I agree with your analysis that the definition prevents
the possibility of making an Identification at a rank less specific than a species. My revised definition says that the Individual should only include groups of organisms that are reliably known to be of a single species - it doesn't say that we need to know what that species is (i.e. an identification to genus or family can be made with the hope that someone down the line would be able to refine the identification to species). Clarification on this point could be added to the comment or the Google Code page, but I don't think there is a problem with the definition per se. However, if there is a consensus that the definition is too restrictive, I would not object to changing the wording of the definition from "species (or lower taxonomic rank if it exists)" to "taxon" if there were clarification added to the comments or Google Code page that Individual was not intended to include aggregations of multiple species.
I agree that there is a need for a term that represents "collections",
"bags", "aggregations", or whatever you want to call an aggregation that includes multiple species. But I have never intended that Individual should be that term. If we expand Individual to include aggregates, then it becomes unusable for its original intended purpose. I would prefer for someone to propose a different term for aggregates of individuals instead of adding that function to Individual. Then define the relationship of this new thing to Individual as a one:many relationship (one aggregation:many Individuals).
Steve
John Wieczorek wrote:
Most of you probably do not receive postings from the Google Code site
for Darwin Core. Steve B. updated the proposal for the new term Individual, and then commentary ensued on the Issue tracker. Since there remains an unresolved issue, I'm bringing the discussion back here by adding the commentary stream below. The unresolved issue is Steve's amendment is the restriction in the definition to "a single species (or lower taxonomic rank if it exists)."
Rich argues that we should not obviate the capability of applying an
Identification to an aggregate (e.g., fossil), where the aggregate consists of multiple taxa.
Steve argues that Identifications should be applied only to aggregates of
a single taxon.
Steve, aside from the aggregate issue (which should be solved
satisfactorily), your suggestion is too restrictive, because it would obviate the possibility of making an Identification (even for a single organism) to any rank less specific than a species. That is a loss of capability, and therefore unreasonable.
Comment 7 <
http://code.google.com/p/darwincore/issues/detail?id=69&colspec=ID%20Typ... by baskaufs http://code.google.com/u/baskaufs/ , Today (8 hours ago)
As a result of the discussion that has taken place on the tdwg-content
email list during 2010 October and November, I am updating the term recommendation for Individual as follows:
Definition: The category of information pertaining to an individual
organism or
a group of individual organisms that can reliably be known to represent a
single species (or lower taxonomic rank if it exists).
Comment: Instances of this class can serve the purpose of connecting one
or more instances of the Darwin Core class Occurrence to one or more instances of the Darwin Core class Identification.
Refines: N/A
Please note that as a precautionary measure, I have removed the statement
that Individual refines http://purl.org/dc/dcmitype/PhysicalObject because the definition of PhysicalObject specifically mentions that the object is inanimate. I am not currently aware of any well-known term that defines living things.
Steve Baskauf
Delete comment <
http://code.google.com/p/darwincore/issues/detail?id=69&colspec=ID%20Typ...
Comment 8 <
http://code.google.com/p/darwincore/issues/detail?id=69&colspec=ID%20Typ... by deepreef@hawaii.rr.com < http://code.google.com/u/deepreef@hawaii.rr.com/%3E , Today (8 hours ago)
I think the definition should be "...represent a single taxon". We
shouldn't restrict it to members of the same species (or lower), because then we technically can't include things that may represent more than one species, yet would best be treated within the scope of an Individual.
Also, I'm slightly partial to the term "Organism" for this class, rather
than "Individual", because it's more clearly tied to the biology domain, and less likely to collide with the word "Individual" in other domains. I know such collision is not a technical problem, but it might lead to some confusion.
Delete comment <
http://code.google.com/p/darwincore/issues/detail?id=69&colspec=ID%20Typ...
Comment 9 <
http://code.google.com/p/darwincore/issues/detail?id=69&colspec=ID%20Typ... by baskaufs http://code.google.com/u/baskaufs/ , Today (8 hours ago)
Well, the reason that I defined it to be members of the same species is
to ensure that the term Individual can serve the primary function that I perceived was needed: to make the connection from occurrences to identifications. When I said one or more identifications, I meant one or more opinions about what that single species (or lower) was, not that there could be multiple identifications of several different species that happened to be in the same "bag" such as the contents of a pitfall trap containing multiple species, an image that contained several species, or a specimen that contained parasites of a different species. I think that there is a need for a term for this other kind of thing, (a heterogeneous "lot", "batch", or something), but I think that including this in definition of Individual defeats the purpose for which I proposed it. If there were several different species in the "Individual", then
one would have to specify which identification went with which biological
individual within the "lot", which would result in actually breaking down the "lot" into single species "Individuals" anyway.
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