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1 200 aaronmk
SALVIAS,VegBIEN:/taxonoccurrence,Comments
2 570 aaronmk
plot_code,/*_id/locationevent/*_id/location/parent_id/location:[confidentialitystatus=0]/authorlocationcode/_alt/1,"Brad: Same as plotCode, above"
3 525 aaronmk
census_date,/*_id/locationevent/obsstartdate/_date/year,
4 570 aaronmk
subplot,"/*_id/locationevent/{*_id/location:[confidentialitystatus=0]/authorlocationcode/_alt/2,authoreventcode/_alt/2}",
5 476 aaronmk
no_of_individuals,/aggregateoccurrence/count/_alt/1,"Brad: Incorrect for VegX. This is a count of number of indiiduals for an *aggregate* observation. For VegBank, I'm not sure. Not exactly the same as stemCount. An individual tree could have 3 stems but would still only count as 1. We need to check with Bob on this."
6
cover_percent,/aggregateoccurrence/cover,
7 602 aaronmk
intercept_cm,"/aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,userdefinedname=interceptCm]]:[@fkey=tableRecord_ID]/definedvalue","Brad: Incorrect for VegBank This is an aggregate observation. Used in line-intercept methodology only, describes the point along centerline at which an individual intercepts the center line of the plot. Used to determin relative abundance."
8 563 aaronmk
height_m,/aggregateoccurrence/individualplant/overallheight,Brad: Incorrect for VegBank. This is a measurement applied to a single tree. Check with Bob
9
stem_height_m,/aggregateoccurrence/individualplant/overallheight,"Brad: Same as for height, but applies to individuals stems, not trees. Rare."
10 570 aaronmk
stem_tag1,/aggregateoccurrence/individualplant/stem/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."
11
stem_tag2,/aggregateoccurrence/individualplant/stem/authorstemcode,Brad: see above
12
tag2,/aggregateoccurrence/individualplant/stem/authorstemcode/_alt/1,"Brad: See commend for tag1. Your mapping for tag2 looks correct. Probably both values would go here, only nested, with one superceding the other."
13
tag1,/aggregateoccurrence/individualplant/stem/authorstemcode/_alt/2,"Brad: Another type of code, typically a number, used by the original data provider to indicate an individual tree. These are numbers on physical tags attached to the tree. Tag2 Is the same thing, only used if the first tag was lost. Obviously not a good system as it's possible a tree tag could be lost and changed more than once."
14 602 aaronmk
basal_diam,"/aggregateoccurrence/individualplant/stem/definedvalue[*_id/userdefined[tablename=stem,userdefinedname=basalDiameter]]:[@fkey=tableRecord_ID]/definedvalue",
15
stem_canopy_form,"/aggregateoccurrence/individualplant/stem/definedvalue[*_id/userdefined[tablename=stem,userdefinedname=canopyForm]]:[@fkey=tableRecord_ID]/definedvalue",Brad: Should also be userDefined for VegBank.
16
stem_canopy_position,"/aggregateoccurrence/individualplant/stem/definedvalue[*_id/userdefined[tablename=stem,userdefinedname=canopyPosition]]:[@fkey=tableRecord_ID]/definedvalue",Brad: Should also be userDefined for VegBank.
17
ht_first_branch_m,"/aggregateoccurrence/individualplant/stem/definedvalue[*_id/userdefined[tablename=stem,userdefinedname=heightFirstBranchM]]:[@fkey=tableRecord_ID]/definedvalue",Brad: Incorrect for VegBank. This is a measurement applied to a single tree. Check with Bob
18
stem_height_first_branch_m,"/aggregateoccurrence/individualplant/stem/definedvalue[*_id/userdefined[tablename=stem,userdefinedname=heightFirstBranchM]]:[@fkey=tableRecord_ID]/definedvalue","Brad: Should also be userDefined for VegBank. Same as for ht_first_branch_m, but applies to individuals stems, not trees. Rare."
19
stem_liana_infestation,"/aggregateoccurrence/individualplant/stem/definedvalue[*_id/userdefined[tablename=stem,userdefinedname=lianaInfestation]]:[@fkey=tableRecord_ID]/definedvalue",Brad: Should also be userDefined for VegBank.
20 530 aaronmk
stem_dbh,/aggregateoccurrence/individualplant/stem/diameter,
21 490 aaronmk
x_position,/aggregateoccurrence/individualplant/stem/xposition,"Brad: Correct for VegBank. I'm not so sure for VegX. Let's ask Nick about this. These are important, fundamental values of many tree plots, and should be accommodated within VegX."
22
y_position,/aggregateoccurrence/individualplant/stem/yposition,Brad: See comment above for x_position
23 542 aaronmk
coll_number,/specimen:[*_id/reference]/catalognumber_dwc,Brad: Incorrect. Map instead as for voucher_string
24
coll_firstname,"/specimen:[*_id/reference]/collector_id/party/{givenname/_namePart/first,middlename/_namePart/last}",Brad: See comment above
25
coll_lastname,/specimen:[*_id/reference]/collector_id/party/{surname},"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."
26 602 aaronmk
census_no,"/taxondetermination[role_id/role/rolecode=collector]/definedvalue[*_id/userdefined[tablename=taxondetermination,userdefinedname=censusNo]]:[@fkey=tableRecord_ID]/definedvalue","Brad: Assigned by SALVIAS. 1 for first plot, then 2, 3, etc. I can't recall if we even have repeat censuses in SALVIAS. Probably not."
27
cf_aff,"/taxondetermination[role_id/role/rolecode=collector]/definedvalue[*_id/userdefined[tablename=taxondetermination,userdefinedname=cfAff]]:[@fkey=tableRecord_ID]/definedvalue","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."
28
det_type,"/taxondetermination[role_id/role/rolecode=collector]/definedvalue[*_id/userdefined[tablename=taxondetermination,userdefinedname=determinationType]]:[@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."
29
habit,"/taxondetermination[role_id/role/rolecode=collector]/definedvalue[*_id/userdefined[tablename=taxondetermination,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."
30
individual_code,"/taxondetermination[role_id/role/rolecode=collector]:[determinationtype=Author,currentdetermination=true]/definedvalue[*_id/userdefined[tablename=taxondetermination,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."
31 596 aaronmk
notes,"/taxondetermination[role_id/role/rolecode=collector]:[determinationtype=Author,currentdetermination=true]/notes",
32 600 aaronmk
specific_authority,"/taxondetermination[role_id/role/rolecode=computer,*_id/plantconcept/plantstatus/plantlevel=Authority]:[determinationtype=""Computer (automated)"",currentdetermination=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.
33
family,"/taxondetermination[role_id/role/rolecode=computer,*_id/plantconcept/plantstatus/plantlevel=Family]:[determinationtype=""Computer (automated)"",currentdetermination=true]/*_id/plantconcept/*_id/*/plantname",
34
genus,"/taxondetermination[role_id/role/rolecode=computer,*_id/plantconcept/plantstatus/plantlevel=Genus]:[determinationtype=""Computer (automated)"",currentdetermination=true]/*_id/plantconcept/*_id/*/plantname",
35
specific_epithet,"/taxondetermination[role_id/role/rolecode=computer,*_id/plantconcept/plantstatus/plantlevel=Species]:[determinationtype=""Computer (automated)"",currentdetermination=true]/*_id/plantconcept/*_id/*/plantname",
36
infra_rank_1,"/taxondetermination[role_id/role/rolecode=computer,*_id/plantconcept/plantstatus/plantlevel=Subspecies]/{*_id/*/plantname/_name/first,*_id/plantconcept/_name/first}",
37
infra_ep_1,"/taxondetermination[role_id/role/rolecode=computer,*_id/plantconcept/plantstatus/plantlevel=Subspecies]:[determinationtype=""Computer (automated)"",currentdetermination=true]/*_id/plantconcept/_name/last",
38
orig_family,"/taxondetermination[role_id/role/rolecode=identifier,*_id/plantconcept/plantstatus/plantlevel=Family]:[determinationtype=Author,originaldetermination=true,currentdetermination=true]/*_id/plantconcept/*_id/*/plantname",Brad: OMIT
39
orig_species,"/{taxondetermination[role_id/role/rolecode=collector]:[determinationtype=Author,originaldetermination=true,currentdetermination=true]/*_id/plantconcept/*_id/*/plantname/_alt/2,taxondetermination[role_id/role/rolecode=identifier,*_id/plantconcept/plantstatus/plantlevel=Species]:[determinationtype=Author,originaldetermination=true,currentdetermination=true]/*_id/plantconcept/*_id/*/plantname}",Brad: OMIT
40 586 aaronmk
OBSERVATION_ID,":[aggregateoccurrence/count/_alt/2=1]/{aggregateoccurrence/individualplant/authorplantcode,specimen:[*_id/reference]/sourceaccessioncode,*_id/locationevent/authoreventcode/_alt/2,*_id/locationevent/*_id/location:[confidentialitystatus=0]/authorlocationcode/_alt/3}","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."