SALVIAS-CSV,VegCore,Filter,Comments

PLOT_ID,locationID,,

plot_code,plotName,,

census_no,censusNumber,,"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."

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SELECT ""PLOT_ID"", subplot, count(DISTINCT census_date) AS census_date_count

FROM ""SALVIAS-CSV"".organisms

WHERE subplot IS NOT NULL AND census_date IS NOT NULL

GROUP BY ""PLOT_ID"", subplot

HAVING count(DISTINCT census_date) > 1

individual_code,recordNumber,,"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."

ind_id,ind_id,,Brad: OMIT

tag2,tag,/_alt/2/_alt/1,"The second tag supercedes the first. The stem tag supercedes the tree tag. Brad: See commend for tag1. Your mapping for tag2 looks correct. Probably both values would go here, only nested, with one superceding the other."

y_position,organismY,,Brad: See comment above for x_position

coll_number,catalogNumber,/_alt/1,Brad: Map instead as for voucher_string

coll_lastname,recordedBy.surName,,"Brad: 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."

coll_firstname,recordedBy.givenName,,Brad: See comment above

det_type,voucherType,,"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."

fam_status,fam_status,,Brad: OMIT. This will be determined later by using TNRS.

gen_status,gen_status,,Brad: OMIT. This will be determined later by using TNRS.

species_status,species_status,,"Brad: OMIT. Except, note that if species_status=3, this indicate that name is a morphospecies and not a standard latin name. Not exactly sure how to use this in BIEN, but could be useful during the name-scrubbing process with TNRS."

family,family,,

genus,genus,,

specific_epithet,specificEpithet,,

specific_authority,scientificNameAuthorship,,Brad: This is the author of the scientificName.

infra_rank_1,taxonRank,,

infra_ep_1,infraspecificEpithet,,

cf_aff,identificationQualifier,,"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."

comments,comments,,Brad: OMIT

habit,verbatimGrowthForm,,"Brad: This is growth form (tree, shrub, herb, etc.). It is an observation of a trait."

no_of_individuals,individualCount,,"Brad: 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."

cover_percent,coverPercent,,

stem_tag2,tag,/_alt/1/_alt/1,The second tag supercedes the first. The stem tag supercedes the tree tag. Brad: see above

stem_canopy_form,canopyForm,,

stem_canopy_position,canopyPosition,,

stem_liana_infestation,lianaInfestation,,

notes,stemNotes,,

orig_family,verbatimFamily,,Brad: OMIT

orig_species,verbatimSpecificEpithet,,Brad: OMIT