/ - Diff - BIEN 3 - NCEAS Projects

     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."
     census_date,eventDate,,"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:
     -----
     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
     census_date,eventDate,,"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:
     -----
     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
     -----"
     subplot,subplot,,
     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
     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."
     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."
     tag1,tag,/_alt/2/_alt/2,"The second tag supercedes the first. The stem tag supercedes the tree tag. 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."
     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."
     x_position,organismX,,"Brad: These are important, fundamental values of many tree plots"
     y_position,organismY,,Brad: See comment above for x_position
     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."
-...
     intercept_cm,intercept_cm,,"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."
     height_m,height,/_alt/2,
     ht_first_branch_m,heightFirstBranch,,
     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."
     stem_tag2,previousTag,/_alt/2,Brad: see above
     stem_tag1,tag,/_alt/1/_alt/2,"The second tag supercedes the first. The stem tag supercedes the tree tag. 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."
     stem_tag2,tag,/_alt/1/_alt/1,The second tag supercedes the first. The stem tag supercedes the tree tag. Brad: see above
     stem_dbh,diameterBreastHeight,,
     basal_diam,basalDiameter,,
     stem_height_m,height,/_alt/1,"Brad: Same as for height, but applies to individuals stems, not trees. Rare."

     subplot,"/location/locationevent/_if[@name=""if subplot""]/cond/_exists/_first/2",
     plot_code,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if event""]/then/parent_id/locationevent/*_id/location/authorlocationcode",
     PLOT_ID,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if event""]/then/parent_id/locationevent/*_id/location/sourceaccessioncode",
     census_date,/location/locationevent/obsenddate/_*/date/_alt/2/_dateRangeEnd/value,"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:
     -----
     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
     census_date,/location/locationevent/obsenddate/_*/date/_alt/2/_dateRangeEnd/value,"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:
     -----
     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
     -----"
     census_date,/location/locationevent/obsstartdate/_*/date/_alt/2/_dateRangeStart/value,"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:
     -----
     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
     census_date,/location/locationevent/obsstartdate/_*/date/_alt/2/_dateRangeStart/value,"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:
     -----
     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
     -----"
     no_of_individuals,/location/locationevent/taxonoccurrence/aggregateoccurrence/count,"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,/location/locationevent/taxonoccurrence/aggregateoccurrence/cover_fraction/_percent_to_fraction/value,
-...
     height_m,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/height_m/_alt/2,
     ht_first_branch_m,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/heightfirstbranch_m,
     stem_height_first_branch_m,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/heightfirstbranch_m,"Brad: Same as for ht_first_branch_m, but applies to individuals stems, not trees. Rare."
     tag1,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/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.; Quotes sort it before tag2"
     stem_tag1,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/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.; Quotes sort it before tag2"
     tag2,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[iscurrent=true]:[../stemtag?[iscurrent/_alt/2=true]/iscurrent/_alt/1=false]/tag/_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."
     stem_tag2,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[iscurrent=true]:[../stemtag?[iscurrent/_alt/2=true]/iscurrent/_alt/1=false]/tag/_alt/2,Brad: see above
     stem_tag2,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/tag/_alt/1/_alt/1",The second tag supercedes the first. The stem tag supercedes the tree tag. Brad: see above; Quotes sort it before tag2
     stem_tag1,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/tag/_alt/1/_alt/2","The second tag supercedes the first. The stem tag supercedes the tree tag. 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.; Quotes sort it before tag2"
     tag2,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/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.; Quotes sort it before tag2"
     tag1,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/tag/_alt/2/_alt/2","The second tag supercedes the first. The stem tag supercedes the tree tag. 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.; Quotes sort it before tag2"
     x_position,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/xposition_m,"Brad: These are important, fundamental values of many tree plots"
     y_position,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/yposition_m,Brad: See comment above for x_position
     individual_code,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1,"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."

                                             </_alt>
                                         </heightfirstbranch_m>
                                         <stemtag>
                                             <iscurrent>
                                                 <_alt>
                                                     <2>true</2>
                                                     <1>false</1>
                                                 </_alt>
                                             </iscurrent>
                                             <tag>
                                                 <_alt>
                                                     <1>$tag1</1>
                                                     <2>$stem_tag1</2>
                                                 </_alt>
                                             </tag>
                                         </stemtag>
                                         <stemtag>
                                             <iscurrent>true</iscurrent>
                                             <tag>
                                                 <_alt>
                                                     <1>$tag2</1>
                                                     <2>$stem_tag2</2>
                                                     <1>
                                                         <_alt>
                                                             <1>$stem_tag2</1>
                                                             <2>$stem_tag1</2>
                                                         </_alt>
                                                     </1>
                                                     <2>
                                                         <_alt>
                                                             <1>$tag2</1>
                                                             <2>$tag1</2>
                                                         </_alt>
                                                     </2>
                                                 </_alt>
                                             </tag>
                                         </stemtag>
-...
             </path>
         </_simplifyPath>
     </VegBIEN>
     Inserted 43 new rows into database
     Inserted 41 new rows into database

     stem_dbh,diameterBreastHeight,,
     gentry_dbh,diameterBreastHeightGentry,,
     stem_notes,stemNotes,,
     stem_tag1,tag,,"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."
     stem_tag2,previousTag,,"Brad: See commend for tag1. Your mapping for tag2 looks correct. Probably both values would go here, only nested, with one superceding the other."
     stem_tag1,tag,/_alt/2,"The second tag supercedes the first. 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."
     stem_tag2,tag,/_alt/1,"The second tag supercedes the first. Brad: See commend for tag1. Your mapping for tag2 looks correct. Probably both values would go here, only nested, with one superceding the other."
     stem_height_m,height,,"Brad: Same as for height, but applies to individuals stems, not trees. Rare."
     stem_height_first_branch_m,heightFirstBranch,,"Brad: Same as for ht_first_branch_m, but applies to individuals stems, not trees. Rare."
     stem_canopy_form,canopyForm,,

     stem_height_m,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/height_m,"Brad: Same as for height, but applies to individuals stems, not trees. Rare."
     stem_height_first_branch_m,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/heightfirstbranch_m,"Brad: Same as for ht_first_branch_m, but applies to individuals stems, not trees. Rare."
     stem_id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/sourceaccessioncode,
     stem_tag1,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/tag","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.; Quotes sort it before tag2"
     stem_tag2,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[iscurrent=true]:[../stemtag?[iscurrent/_alt/2=true]/iscurrent/_alt/1=false]/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."
     stem_tag2,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/tag/_alt/1","The second tag supercedes the first. Brad: See commend for tag1. Your mapping for tag2 looks correct. Probably both values would go here, only nested, with one superceding the other.; Quotes sort it before tag2"
     stem_tag1,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/tag/_alt/2","The second tag supercedes the first. 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.; Quotes sort it before tag2"
     PlotObsID,/location/locationevent/taxonoccurrence/sourceaccessioncode/_first/2,
     origrecord_id_stems,,** No join mapping for origrecord_id_stems **
     plotobs_id_index,,** No join mapping for plotobs_id_index **

                                         <heightfirstbranch_m>$stem_height_first_branch_m</heightfirstbranch_m>
                                         <sourceaccessioncode>$stem_id</sourceaccessioncode>
                                         <stemtag>
                                             <iscurrent>
                                             <iscurrent>true</iscurrent>
                                             <tag>
                                                 <_alt>
                                                     <2>true</2>
                                                     <1>false</1>
                                                     <1>$stem_tag2</1>
                                                     <2>$stem_tag1</2>
                                                 </_alt>
                                             </iscurrent>
                                             <tag>$stem_tag1</tag>
                                             </tag>
                                         </stemtag>
                                         <stemtag>
                                             <iscurrent>true</iscurrent>
                                             <tag>$stem_tag2</tag>
                                         </stemtag>
                                     </stemobservation>
                                 </plantobservation>
                             </aggregateoccurrence>

     Line,subplot,,
     Ind,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
     tag1,tag,,"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."
     tag2,previousTag,,"Brad: See commend for tag1. Your mapping for tag2 looks correct. Probably both values would go here, only nested, with one superceding the other."
     tag1,tag,/_alt/2,"The second tag supercedes the first. 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."
     tag2,tag,/_alt/1,"The second tag supercedes the first. Brad: See commend for tag1. Your mapping for tag2 looks correct. Probably both values would go here, only nested, with one superceding the other."
     x_position,organismX,,"Brad: These are important, fundamental values of many tree plots"
     y_position,organismY,,Brad: See comment above for x_position
     dist,dist,,

     temp_dbh,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/diameterbreastheight_m,
     height_m,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/height_m,
     ht_first_branch_m,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/heightfirstbranch_m,
     tag1,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/tag","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.; Quotes sort it before tag2"
     tag2,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[iscurrent=true]:[../stemtag?[iscurrent/_alt/2=true]/iscurrent/_alt/1=false]/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."
     tag2,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/tag/_alt/1","The second tag supercedes the first. Brad: See commend for tag1. Your mapping for tag2 looks correct. Probably both values would go here, only nested, with one superceding the other.; Quotes sort it before tag2"
     tag1,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/stemtag[""""/iscurrent/_alt/2=true]/tag/_alt/2","The second tag supercedes the first. 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.; Quotes sort it before tag2"
     x_position,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/xposition_m,"Brad: These are important, fundamental values of many tree plots"
     y_position,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/yposition_m,Brad: See comment above for x_position
     Ind,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1,"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."

                                         <height_m>$height_m</height_m>
                                         <heightfirstbranch_m>$ht_first_branch_m</heightfirstbranch_m>
                                         <stemtag>
                                             <iscurrent>
                                             <iscurrent>true</iscurrent>
                                             <tag>
                                                 <_alt>
                                                     <2>true</2>
                                                     <1>false</1>
                                                     <1>$tag2</1>
                                                     <2>$tag1</2>
                                                 </_alt>
                                             </iscurrent>
                                             <tag>$tag1</tag>
                                             </tag>
                                         </stemtag>
                                         <stemtag>
                                             <iscurrent>true</iscurrent>
                                             <tag>$tag2</tag>
                                         </stemtag>
                                         <xposition_m>$x_position</xposition_m>
                                         <yposition_m>$y_position</yposition_m>
                                     </stemobservation>

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Revision 4824

Added by Aaron Marcuse-Kubitza about 12 years ago