Revision 6556
Added by Aaron Marcuse-Kubitza almost 12 years ago
| inputs/NVS/StemObservation/map.csv | ||
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NVS,VegCore,Filter,Comments |
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| 2 |
Project Abbreviation,projectName,, |
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Plot,locationName,, |
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Sub Plot,subplot,, |
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Method Name,*Method Name,, |
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Identifier,*Identifier,, |
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Species Code,*Species Code,, |
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Species Name,specificEpithet,, |
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Verbatim Code,*Verbatim Code,, |
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Taxon Bio Status,*Taxon Bio Status,, |
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Taxon Palatibility,*Taxon Palatibility,, |
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Taxon Growth Form,growthForm,, |
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Association No,*Association No,, |
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Association,*Association,, |
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Alive State,*Alive State,, |
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Linear Dimension,*Linear Dimension,, |
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LD Units,*LD Units,, |
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Lean Angle,*Lean Angle,, |
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Diameter,diameterBreastHeight_cm,,Units is always cm |
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Units,*Units,, |
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Position,*Position,, |
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Height,height_m,,Height Units is always m |
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Height Units,*Height Units,, |
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Item Obs Note,*Item Obs Note,, |
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Item Obs ID,*Item Obs ID,, |
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Item ID,*Item ID,, |
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Parent Plot Obs ID,*Parent Plot Obs ID,, |
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Sample Method ID,*Sample Method ID,, |
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| inputs/NVS/StemObservation/VegBIEN.csv | ||
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| 1 |
NVS,VegBIEN:/_setDefault:[source_id/source/shortname/_env:[name=source]]/path/_simplifyPath:[next=parent_id]/path,Comments |
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Sub Plot,"/location/_if[@name=""if subplot""]/cond/_exists", |
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Plot,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/1", |
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Plot,"/location/_if[@name=""if subplot""]/then/parent_id/location/authorlocationcode", |
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Sub Plot,/location/authorlocationcode, |
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Project Abbreviation,/location/locationevent/*_id/project/projectname, |
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Sub Plot,"/location/locationevent/_if[@name=""if subplot""]/cond/_exists", |
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Sub Plot,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if has event""]/then/parent_id/locationevent/*_id/location/authorlocationcode/_if[@name=""if subplot""]/cond/_first/2", |
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Plot,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if has event""]/then/parent_id/locationevent/*_id/location/authorlocationcode/_if[@name=""if subplot""]/then", |
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Sub Plot,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if has event""]/then/parent_id/locationevent/*_id/location/sourceaccessioncode/_if[@name=""if subplot""]/cond/_first/2", |
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Diameter,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/diameterbreastheight_m/_cm_to_m/value,Units is always cm |
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| 12 |
Height,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/height_m,Height Units is always m |
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Plot,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists", |
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Taxon Growth Form,/location/locationevent/taxonoccurrence/growthform, |
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Species Name,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/_if[@name=""if has verbatim name""]/else/matched_label_id/taxonlabel:[source_id/source/shortname=TNRS]/taxonomicname/_join_words/2/_alt/2/_join_words/1/_alt/2/_join_words/3/_join_words/1", |
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Species Name,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=species]/taxonepithet", |
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Species Name,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_join_words/2/_alt/2/_join_words/1/_alt/2/_join_words/3/_join_words/1, |
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Species Name,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/specific_epithet, |
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Sub Plot,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists", |
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Plot,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/2", |
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Sub Plot,/location/sourceaccessioncode/_join/2, |
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Alive State,,** No join mapping for *Alive State ** |
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| 23 |
Association,,** No join mapping for *Association ** |
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Association No,,** No join mapping for *Association No ** |
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Height Units,,** No join mapping for *Height Units ** |
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| 26 |
Identifier,,** No join mapping for *Identifier ** |
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Item ID,,** No join mapping for *Item ID ** |
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| 28 |
Item Obs ID,,** No join mapping for *Item Obs ID ** |
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Item Obs Note,,** No join mapping for *Item Obs Note ** |
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LD Units,,** No join mapping for *LD Units ** |
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| 31 |
Lean Angle,,** No join mapping for *Lean Angle ** |
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Linear Dimension,,** No join mapping for *Linear Dimension ** |
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Method Name,,** No join mapping for *Method Name ** |
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Parent Plot Obs ID,,** No join mapping for *Parent Plot Obs ID ** |
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Position,,** No join mapping for *Position ** |
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Sample Method ID,,** No join mapping for *Sample Method ID ** |
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Species Code,,** No join mapping for *Species Code ** |
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Taxon Bio Status,,** No join mapping for *Taxon Bio Status ** |
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Taxon Palatibility,,** No join mapping for *Taxon Palatibility ** |
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Units,,** No join mapping for *Units ** |
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Verbatim Code,,** No join mapping for *Verbatim Code ** |
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| inputs/NVS/StemObservation/test.xml.ref | ||
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| 1 |
Put template: |
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<VegBIEN> |
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<_setDefault id="-1"> |
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<source_id><source><shortname>NVS</shortname></source></source_id> |
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<path> |
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<_simplifyPath> |
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<next>parent_id</next> |
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<path> |
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<location> |
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<parent_id><location><authorlocationcode>$Plot</authorlocationcode></location></parent_id> |
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<authorlocationcode>$Sub Plot</authorlocationcode> |
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<locationevent> |
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<project_id><project><projectname>$Project Abbreviation</projectname></project></project_id> |
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<taxonoccurrence> |
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<aggregateoccurrence> |
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<plantobservation> |
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<stemobservation> |
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<diameterbreastheight_m><_cm_to_m><value>$Diameter</value></_cm_to_m></diameterbreastheight_m> |
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<height_m>$Height</height_m> |
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</stemobservation> |
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</plantobservation> |
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</aggregateoccurrence> |
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<growthform>$Taxon Growth Form</growthform> |
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<taxondetermination> |
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<taxonverbatim_id> |
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<taxonverbatim> |
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<taxonlabel_id> |
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<taxonlabel> |
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<matched_label_id> |
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<taxonlabel> |
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<source_id><source><shortname>TNRS</shortname></source></source_id> |
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<taxonomicname>$Species Name</taxonomicname> |
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</taxonlabel> |
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</matched_label_id> |
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<parent_id> |
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<taxonlabel> |
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<parent_id> |
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<taxonlabel> |
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<rank>cultivar</rank> |
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<parent_id> |
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<taxonlabel> |
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<rank>forma</rank> |
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<parent_id> |
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<taxonlabel> |
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<rank>variety</rank> |
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<parent_id> |
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<taxonlabel> |
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<rank>subspecies</rank> |
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<parent_id> |
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<taxonlabel> |
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<rank>species</rank> |
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<taxonepithet>$Species Name</taxonepithet> |
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</taxonlabel> |
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</parent_id> |
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</taxonlabel> |
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</parent_id> |
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</taxonlabel> |
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</parent_id> |
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</taxonlabel> |
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</parent_id> |
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</taxonlabel> |
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</parent_id> |
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</taxonlabel> |
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</parent_id> |
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<taxonomicname>$Species Name</taxonomicname> |
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</taxonlabel> |
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</taxonlabel_id> |
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<specific_epithet>$Species Name</specific_epithet> |
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</taxonverbatim> |
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</taxonverbatim_id> |
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</taxondetermination> |
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</taxonoccurrence> |
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</locationevent> |
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<sourceaccessioncode> |
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<_join> |
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<1>$Plot</1> |
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<2>$Sub Plot</2> |
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</_join> |
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</sourceaccessioncode> |
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</location> |
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</path> |
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</_simplifyPath> |
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</path> |
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</_setDefault> |
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</VegBIEN> |
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Inserted 20 new rows into database |
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| inputs/NVS/StemObservation/new_terms.csv | ||
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| 1 |
Project Abbreviation,projectName,, |
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| 2 |
Plot,locationName,, |
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| 3 |
Taxon Growth Form,growthForm,, |
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Diameter,diameterBreastHeight_cm,,Units is always cm |
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| inputs/NVS/StemObservation/unmapped_terms.csv | ||
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| 1 |
*Method Name |
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*Identifier |
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*Species Code |
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*Verbatim Code |
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*Taxon Bio Status |
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*Taxon Palatibility |
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*Association No |
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*Association |
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*Alive State |
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*Linear Dimension |
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*LD Units |
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*Lean Angle |
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| 13 |
*Units |
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*Position |
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*Height Units |
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*Item Obs Note |
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*Item Obs ID |
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*Item ID |
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*Parent Plot Obs ID |
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| 20 |
*Sample Method ID |
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Also available in: Unified diff
Added inputs/NVS/StemObservation/