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1 4088 aaronmk
SALVIAS-CSV,Veg+,Comments
2 3925 aaronmk
basal_diam,basalDiameter,
3 4179 aaronmk
stem_canopy_form,canopyForm,
4
stem_canopy_position,canopyPosition,
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coll_number,catalogNumber/_alt/1,Brad: Map instead as for voucher_string
6 3925 aaronmk
voucher_string,catalogNumber/_alt/2,"Brad: OMIT. This is the verbatim text, which includes both collectors name and collection number. I would use coll_number, below."
7
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."
8
cover_percent,coverPercent,
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stem_dbh,diameterBreastHeight,
10 4197 aaronmk
family,family,
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genus,genus,
12 4179 aaronmk
habit,habit,"Brad: This is growth form (tree, shrub, herb, etc.). It is an observation of a trait."
13 4069 aaronmk
stem_height_m,height/_alt/1,"Brad: Same as for height, but applies to individuals stems, not trees. Rare."
14 4179 aaronmk
height_m,height/_alt/2,
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ht_first_branch_m,heightFirstBranch,
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stem_height_first_branch_m,heightFirstBranch,"Brad: Same as for ht_first_branch_m, but applies to individuals stems, not trees. Rare."
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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."
18 4074 aaronmk
OBSERVATION_ID,individualID,"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."
19 4197 aaronmk
infra_ep_1,infraspecificEpithet,
20 4179 aaronmk
stem_liana_infestation,lianaInfestation,
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PLOT_ID,parentLocationID,
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plot_code,parentPlotName,
23 4176 aaronmk
census_date,plotEventStartDate,"This is for the subplot, not the organism, as all organisms in a subplot have the same value for it. The following query returns no rows:
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-----
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SELECT ""PLOT_ID"", subplot, count(DISTINCT census_date) AS census_date_count
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FROM ""SALVIAS-CSV"".organisms
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WHERE subplot IS NOT NULL AND census_date IS NOT NULL
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GROUP BY ""PLOT_ID"", subplot
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HAVING count(DISTINCT census_date) > 1
30 4014 aaronmk
-----"
31 3925 aaronmk
subplot,plotName,
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tag2,previousTag/_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."
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stem_tag2,previousTag/_alt/2,Brad: see above
34 3952 aaronmk
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."
35 3925 aaronmk
coll_firstname,recordedBy.givenName,Brad: See comment above
36 4179 aaronmk
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."
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x_position,relativePlotX,"Brad: These are important, fundamental values of many tree plots"
38 3925 aaronmk
y_position,relativePlotY,Brad: See comment above for x_position
39 4197 aaronmk
specific_authority,scientificNameAuthorship,Brad: This is the author of the scientificName.
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specific_epithet,specificEpithet,
41 3925 aaronmk
notes,stemNotes,
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tag1,tag/_alt/1,"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."
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stem_tag1,tag/_alt/2,"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."
44 4197 aaronmk
infra_rank_1,taxonRank,
45 4195 aaronmk
orig_family,verbatimFamily,Brad: OMIT
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cf_aff,verbatimIdentificationQualifier,"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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orig_species,verbatimSpecificEpithet,Brad: OMIT
48 4179 aaronmk
intercept_cm,volumeCanopy,"Brad: 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."
49 3925 aaronmk
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."