Revision 1019
Added by Aaron Marcuse-Kubitza almost 13 years ago
| VegBIEN.organisms.csv | ||
|---|---|---|
| 1 | 1 |
SALVIAS,VegBIEN:/taxonoccurrence,Comments |
| 2 |
subplot,/*_id/locationevent/*_id/location/authorlocationcode, |
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| 2 | 3 |
plot_code,/*_id/locationevent/*_id/location/parent_id/location/authorlocationcode,"Brad: Same as plotCode, above" |
| 3 |
subplot,/*_id/locationevent/*_id/location:[*_id/reference/shortname=$/_ignore/inLabel]/authorlocationcode, |
|
| 4 | 4 |
census_date,/*_id/locationevent/obsstartdate/_date/year, |
| 5 |
PLOT_ID,/*_id/locationevent:[*_id/location/*_id/reference/shortname/_alt/2=$/_ignore/inLabel]/authoreventcode,"Brad: Not sure why this is repeated? This field and plotCode, as the same as above." |
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| 6 |
OBSERVATION_ID,/aggregateoccurrence/*_id/plantobservation/authorplantcode,"Brad: Neither is correct; this is just an internal ID for table plotObservations. However, it has the important property of uniquely identifying an ""observation"", which is an individual tree, in the case of an individual observation, or a records of a species with an associated count of individuals or measurement of percent cover, in the case of aggregate observations. Not sure where to store this. Main point is that it is not part of the original data, but an auto_increment added later." |
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| 5 | 7 |
height_m,/aggregateoccurrence/*_id/plantobservation/overallheight,Brad: Incorrect for VegBank. This is a measurement applied to a single tree. Check with Bob |
| 6 | 8 |
stem_height_m,/aggregateoccurrence/*_id/plantobservation/overallheight,"Brad: Same as for height, but applies to individuals stems, not trees. Rare." |
| 7 | 9 |
stem_tag1,/aggregateoccurrence/*_id/plantobservation/stemobservation/authorstemcode,"Brad: Same as tag1 & tag2, but applied to individual stems. I'm still not clear how to distinguish between methods which tag only individuals trees, and those which tag individual stems." |
| ... | ... | |
| 25 | 27 |
habit,"/definedvalue[*_id/userdefined[tablename=taxonoccurrence,userdefinedname=habit]]:[@fkey=tableRecord_ID]/definedvalue","Brad: Incorrect for VegBank, correct for VegX. This is growth form (tree, shrub, herb, etc.). It is an observation of a trait." |
| 26 | 28 |
individual_code,"/definedvalue[*_id/userdefined[tablename=taxonoccurrence,userdefinedname=individualCode]]:[@fkey=tableRecord_ID]/definedvalue","Brad: Code, if any, used by the data provider to indicate an individual tree. Scope is unknown, although typically this value is unique only within plot, or sometimes only within subplot." |
| 27 | 29 |
det_type,"/definedvalue[*_id/userdefined[tablename=taxonoccurrence,userdefinedname=voucherType]]:[@fkey=tableRecord_ID]/definedvalue","Brad: A SALVIAS value referring to the relationship between the voucher specimen and the observation. Affect how the identification of the specimen(latin name) is transferred to the observation. 'direct'=voucher specimen was collected from this same tree; they are one and the same individual. 'indirect'=voucher specimen was collected for a different individual, but the original data provider confirmed that this is the same species. 'default'=basically same as 'indirect'. 'uncollected'=no voucher specimen, data provider asserted that this was the name but was unable to collect. The main different is that with 'direct', 'indirect', and 'default', the scientific name can be updated automatically based on the name attached to the specimen voucher (assuming you have a link to that data, presumably from a herbarium database. Whereas, if det_type='uncollected', the name can never change because there is no specimen." |
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coll_number,/specimenreplicate:[*_id/reference/shortname=$/_ignore/inLabel]/catalognumber_dwc,Brad: Incorrect. Map instead as for voucher_string |
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coll_firstname,/specimenreplicate:[*_id/reference/shortname=$/_ignore/inLabel]/verbatimcollectorname/_name/first,Brad: See comment above |
|
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coll_lastname,/specimenreplicate:[*_id/reference/shortname=$/_ignore/inLabel]/verbatimcollectorname/_name/last,"Brad: Correct for VegBank. This is the collector of a separate specimen which vouchers this tree or species. I worry that vouchers are not properly accommodated in VegX. Again, we need to check with Nick." |
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coll_number,/specimenreplicate:[*_id/reference/shortname/_alt/2=$/_ignore/inLabel]/catalognumber_dwc,Brad: Incorrect. Map instead as for voucher_string
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coll_firstname,/specimenreplicate:[*_id/reference/shortname/_alt/2=$/_ignore/inLabel]/verbatimcollectorname/_name/first,Brad: See comment above
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coll_lastname,/specimenreplicate:[*_id/reference/shortname/_alt/2=$/_ignore/inLabel]/verbatimcollectorname/_name/last,"Brad: Correct for VegBank. This is the collector of a separate specimen which vouchers this tree or species. I worry that vouchers are not properly accommodated in VegX. Again, we need to check with Nick."
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| 31 | 33 |
specific_authority,"/taxondetermination[*_id/role/rolecode=computer,*_id/plantconcept/plantstatus/plantlevel=Authority]:[determinationtype=""Computer (automated)"",iscurrent=true]/*_id/plantconcept/*_id/*/plantname",Brad: Incorrect. This is the author of the scientificName. The should be a place for this in the taxonomic name elements of VegB and VegX. Let's discuss. |
| 32 | 34 |
family,"/taxondetermination[*_id/role/rolecode=computer,*_id/plantconcept/plantstatus/plantlevel=Family]:[determinationtype=""Computer (automated)"",iscurrent=true]/*_id/plantconcept/*_id/*/plantname", |
| 33 | 35 |
genus,"/taxondetermination[*_id/role/rolecode=computer,*_id/plantconcept/plantstatus/plantlevel=Genus]:[determinationtype=""Computer (automated)"",iscurrent=true]/*_id/plantconcept/*_id/*/plantname", |
| ... | ... | |
| 37 | 39 |
cf_aff,"/taxondetermination[*_id/role/rolecode=identifier,*_id/plantconcept/plantstatus/plantlevel=Binomial]/{taxonFit,*_id/plantconcept/*_id/*/plantname/_name/middle}","Brad: Not sure where this goes. Indicator of identification uncertainty. 'cf.'=similar to the species listed, 'aff.'=related to the species list, but not the same. You'll need to check with Bob and with Nick where these go in VegX and VegBank."
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| 38 | 40 |
orig_species,"/taxondetermination[*_id/role/rolecode=identifier,*_id/plantconcept/plantstatus/plantlevel=Binomial]:[determinationtype=Author,isoriginal=true,iscurrent=true]/*_id/plantconcept/*_id/*/plantname/_name/last",Brad: OMIT |
| 39 | 41 |
orig_family,"/taxondetermination[*_id/role/rolecode=identifier,*_id/plantconcept/plantstatus/plantlevel=Family]:[determinationtype=Author,isoriginal=true,iscurrent=true]/*_id/plantconcept/*_id/*/plantname",Brad: OMIT |
| 40 |
OBSERVATION_ID,"/{aggregateoccurrence/*_id/plantobservation/authorplantcode,specimenreplicate:[*_id/reference/shortname=$/_ignore/inLabel]/sourceaccessioncode}","Brad: Neither is correct; this is just an internal ID for table plotObservations. However, it has the important property of uniquely identifying an ""observation"", which is an individual tree, in the case of an individual observation, or a records of a species with an associated count of individuals or measurement of percent cover, in the case of aggregate observations. Not sure where to store this. Main point is that it is not part of the original data, but an auto_increment added later."
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PLOT_ID,,"Brad: Not sure why this is repeated? This field and plotCode, as the same as above." |
|
| 42 | 42 |
collector_code,,Brad: OMIT |
| 43 | 43 |
comments,,Brad: OMIT |
| 44 | 44 |
fam_status,,Brad: OMIT. This will be determined later by using TNRS. |
Also available in: Unified diff
VegX-VegBIEN mapping: Include the datasource name (now provided by map in /_ignore/inLabel) in the appropriate places in both VegX and VegBIEN