Revision 3710
Added by Aaron Marcuse-Kubitza over 12 years ago
| inputs/CVS/test/import.organisms.xml.ref | ||
|---|---|---|
| 81 | 81 |
</plantconcept> |
| 82 | 82 |
</plantconcept_id> |
| 83 | 83 |
</taxondetermination> |
| 84 |
<sourceaccessioncode><_alt><3>$currentTaxonName sec Weakley 2006</3></_alt></sourceaccessioncode> |
|
| 84 | 85 |
</taxonoccurrence> |
| 85 | 86 |
</taxonoccurrence_id> |
| 86 | 87 |
<cover>$%cover</cover> |
| inputs/CVS/maps/VegBIEN.organisms.csv | ||
|---|---|---|
| 8 | 8 |
publicLongitude,"/aggregateoccurrence/*_id/taxonoccurrence/*_id/locationevent/*_id/location/{locationdetermination/longitude,centerlongitude}/_alt/2",
|
| 9 | 9 |
obsStartDate,/aggregateoccurrence/*_id/taxonoccurrence/*_id/locationevent/obsstartdate/_*/date, |
| 10 | 10 |
authorObsCode,"/aggregateoccurrence/*_id/taxonoccurrence/*_id/locationevent/{authorlocationcode,*_id/location/sourceaccessioncode/_merge/2/_alt/2}",
|
| 11 |
currentTaxonName sec Weakley 2006,"/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first",
|
|
| 11 |
currentTaxonName sec Weakley 2006,"/aggregateoccurrence/*_id/taxonoccurrence/{taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first,sourceaccessioncode/_alt/3}",
|
|
| 12 | 12 |
%cover,/aggregateoccurrence/cover, |
| 13 | 13 |
confidentialityStatus,,** No input mapping for confidentialityStatus ** |
| inputs/SALVIAS-CSV/test/import.organisms.xml.ref | ||
|---|---|---|
| 177 | 177 |
</verbatimcollectorname> |
| 178 | 178 |
<sourceaccessioncode> |
| 179 | 179 |
<_alt> |
| 180 |
<3><_name><last>$orig_species</last></_name></3> |
|
| 180 | 181 |
<2>$individual_code</2> |
| 181 | 182 |
<1>$OBSERVATION_ID</1> |
| 182 | 183 |
</_alt> |
| inputs/SALVIAS-CSV/maps/VegBIEN.organisms.csv | ||
|---|---|---|
| 11 | 11 |
genus,"/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=computer]:[iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=genus]/plantname", |
| 12 | 12 |
family,"/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=computer]:[iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=family]/plantname", |
| 13 | 13 |
cf_aff,"/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]/{taxonfit/_alt/2,*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/last}","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."
|
| 14 |
orig_species,"/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first/_name/last",Brad: OMIT |
|
| 15 | 14 |
orig_family,"/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=family]/plantname",Brad: OMIT |
| 16 | 15 |
coll_firstname,/aggregateoccurrence/*_id/taxonoccurrence/verbatimcollectorname/_name/first,Brad: See comment above |
| 17 | 16 |
coll_lastname,/aggregateoccurrence/*_id/taxonoccurrence/verbatimcollectorname/_name/last,"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." |
| 17 |
orig_species,"/aggregateoccurrence/*_id/taxonoccurrence/{taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first,sourceaccessioncode/_alt/3}/_name/last",Brad: OMIT
|
|
| 18 | 18 |
no_of_individuals,/aggregateoccurrence/count,"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." |
| 19 | 19 |
cover_percent,/aggregateoccurrence/cover, |
| 20 | 20 |
census_no,"/aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,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." |
| inputs/CTFS/test/import.organisms.xml.ref | ||
|---|---|---|
| 344 | 344 |
</verbatimcollectorname> |
| 345 | 345 |
<sourceaccessioncode> |
| 346 | 346 |
<_alt> |
| 347 |
<3>$/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/tcs:Name</3> |
|
| 347 | 348 |
<2>$/simpleUserdefined[name=authorPlantCode]/value</2> |
| 348 | 349 |
<1>$/@id</1> |
| 349 | 350 |
</_alt> |
| inputs/CTFS/maps/VegBIEN.organisms.csv | ||
|---|---|---|
| 58 | 58 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=ssp])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=subspecies]/plantname", |
| 59 | 59 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/fit",/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]/taxonfit/_alt/1, |
| 60 | 60 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/{fit,tcs:Name/_name/middle}","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]/{taxonfit/_alt/2,*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/last}",
|
| 61 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first", |
|
| 62 | 61 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=auth])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=authority]/plantname", |
| 63 | 62 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank=Species])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=species]/plantname", |
| 64 | 63 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank=Genus])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=genus]/plantname", |
| ... | ... | |
| 69 | 68 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=reg])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,family,order,class,subkingdom,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=kingdom]/plantname", |
| 70 | 69 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/partyWithRole/*ID->/parties/party/individualName/givenName",/aggregateoccurrence/*_id/taxonoccurrence/verbatimcollectorname/_name/first, |
| 71 | 70 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/partyWithRole/*ID->/parties/party/individualName/surName",/aggregateoccurrence/*_id/taxonoccurrence/verbatimcollectorname/_name/last, |
| 71 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/{taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first,sourceaccessioncode/_alt/3}",
|
|
| 72 | 72 |
/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/aggregateOrganismObservation[*ID]/*/aggregateValue/value,/aggregateoccurrence/count, |
| 73 | 73 |
/volumeCanopy/*ID->/*s/attribute/ordinal/coverPercent,/aggregateoccurrence/cover, |
| 74 | 74 |
/*ID->/*s/plotObservation/simpleUserdefined[name=CensusNumber]/value,"/aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,userdefinedname=censusNo]]:[@fkey=tablerecord_id]/definedvalue", |
| inputs/SALVIAS/test/import.organisms.xml.ref | ||
|---|---|---|
| 181 | 181 |
</verbatimcollectorname> |
| 182 | 182 |
<sourceaccessioncode> |
| 183 | 183 |
<_alt> |
| 184 |
<3> |
|
| 185 |
<_name> |
|
| 186 |
<first>$OrigGenus</first> |
|
| 187 |
<last>$OrigSpecies</last> |
|
| 188 |
</_name> |
|
| 189 |
</3> |
|
| 184 | 190 |
<2>$Ind</2> |
| 185 | 191 |
<1>$PlotObsID</1> |
| 186 | 192 |
</_alt> |
| inputs/SALVIAS/maps/VegBIEN.organisms.csv | ||
|---|---|---|
| 10 | 10 |
Genus,"/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=computer]:[iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=genus]/plantname", |
| 11 | 11 |
Family,"/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=computer]:[iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=family]/plantname", |
| 12 | 12 |
cfaff,"/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]/{taxonfit/_alt/2,*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/last}","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."
|
| 13 |
OrigGenus,"/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first/_name/first", |
|
| 14 |
OrigSpecies,"/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first/_name/last",Brad: OMIT |
|
| 15 | 13 |
OrigFamily,"/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=family]/plantname",Brad: OMIT |
| 16 | 14 |
coll_firstname,/aggregateoccurrence/*_id/taxonoccurrence/verbatimcollectorname/_name/first,Brad: See comment above |
| 17 | 15 |
coll_lastname,/aggregateoccurrence/*_id/taxonoccurrence/verbatimcollectorname/_name/last,"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." |
| 16 |
OrigGenus,"/aggregateoccurrence/*_id/taxonoccurrence/{taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first,sourceaccessioncode/_alt/3}/_name/first",
|
|
| 17 |
OrigSpecies,"/aggregateoccurrence/*_id/taxonoccurrence/{taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first,sourceaccessioncode/_alt/3}/_name/last",Brad: OMIT
|
|
| 18 | 18 |
NoInd,/aggregateoccurrence/count,"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." |
| 19 | 19 |
cover_percent,/aggregateoccurrence/cover, |
| 20 | 20 |
census_no,"/aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,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." |
| mappings/VegX-VegBIEN.organisms.csv | ||
|---|---|---|
| 58 | 58 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=ssp])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=subspecies]/plantname", |
| 59 | 59 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/fit",/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]/taxonfit/_alt/1, |
| 60 | 60 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/{fit,tcs:Name/_name/middle}","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]/{taxonfit/_alt/2,*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/last}",
|
| 61 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first", |
|
| 62 | 61 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=auth])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=authority]/plantname", |
| 63 | 62 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=sp])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=species]/plantname", |
| 64 | 63 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=gen])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=genus]/plantname", |
| ... | ... | |
| 69 | 68 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=reg])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,family,order,class,subkingdom,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=kingdom]/plantname", |
| 70 | 69 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/partyWithRole/*ID->/parties/party/individualName/givenName",/aggregateoccurrence/*_id/taxonoccurrence/verbatimcollectorname/_name/first, |
| 71 | 70 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/partyWithRole/*ID->/parties/party/individualName/surName",/aggregateoccurrence/*_id/taxonoccurrence/verbatimcollectorname/_name/last, |
| 71 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/tcs:Name","/aggregateoccurrence/*_id/taxonoccurrence/{taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first,sourceaccessioncode/_alt/3}",
|
|
| 72 | 72 |
/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/aggregateOrganismObservation[*ID]/*/aggregateValue/value,/aggregateoccurrence/count, |
| 73 | 73 |
/volumeCanopy/*ID->/*s/attribute/ordinal/coverPercent,/aggregateoccurrence/cover, |
| 74 | 74 |
/simpleUserdefined[name=censusNo]/value,"/aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,userdefinedname=censusNo]]:[@fkey=tablerecord_id]/definedvalue", |
| mappings/for_review/VegX-VegBIEN.organisms.csv | ||
|---|---|---|
| 58 | 58 |
//*s/taxonConcept[tcs:@code=ssp]/tcs:Name,"//taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=subspecies]/plantname", |
| 59 | 59 |
//*s/taxonConcept[tcs:@code=binom]/fit,//taxonoccurrence/taxondetermination[role=identifier]/taxonfit/_alt/1, |
| 60 | 60 |
"//*s/taxonConcept[tcs:@code=binom]/{fit,tcs:Name/_name/middle}","//taxonoccurrence/taxondetermination[role=identifier]/{taxonfit/_alt/2,*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/last}",
|
| 61 |
//*s/taxonConcept[tcs:@code=binom]/tcs:Name,"//taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first", |
|
| 62 | 61 |
//*s/taxonConcept[tcs:@code=auth]/tcs:Name,"//taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=authority]/plantname", |
| 63 | 62 |
//*s/taxonConcept[tcs:@code=sp]/tcs:Name,"//taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=species]/plantname", |
| 64 | 63 |
//*s/taxonConcept[tcs:@code=gen]/tcs:Name,"//taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=genus]/plantname", |
| ... | ... | |
| 69 | 68 |
//*s/taxonConcept[tcs:@code=reg]/tcs:Name,"//taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=kingdom]/plantname", |
| 70 | 69 |
//individualName/givenName,//taxonoccurrence/verbatimcollectorname/_name/first, |
| 71 | 70 |
//individualName/surName,//taxonoccurrence/verbatimcollectorname/_name/last, |
| 71 |
//*s/taxonConcept[tcs:@code=binom]/tcs:Name,"/aggregateoccurrence/*_id/taxonoccurrence/{taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first,sourceaccessioncode/_alt/3}",
|
|
| 72 | 72 |
//*s/aggregateOrganismObservation/*/aggregateValue/value,//aggregateoccurrence/count, |
| 73 | 73 |
//ordinal/coverPercent,//aggregateoccurrence/cover, |
| 74 | 74 |
/simpleUserdefined[name=censusNo]/value,"//aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,userdefinedname=censusNo]]/definedvalue", |
| mappings/for_review/VegX-VegBIEN.stems.csv | ||
|---|---|---|
| 58 | 58 |
//*s/taxonConcept[tcs:@code=ssp]/tcs:Name,"//taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=subspecies]/plantname", |
| 59 | 59 |
//*s/taxonConcept[tcs:@code=binom]/fit,//taxonoccurrence/taxondetermination[role=identifier]/taxonfit/_alt/1, |
| 60 | 60 |
"//*s/taxonConcept[tcs:@code=binom]/{fit,tcs:Name/_name/middle}","//taxonoccurrence/taxondetermination[role=identifier]/{taxonfit/_alt/2,*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/last}",
|
| 61 |
//*s/taxonConcept[tcs:@code=binom]/tcs:Name,"//taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first", |
|
| 62 | 61 |
//*s/taxonConcept[tcs:@code=auth]/tcs:Name,"//taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=authority]/plantname", |
| 63 | 62 |
//*s/taxonConcept[tcs:@code=sp]/tcs:Name,"//taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=species]/plantname", |
| 64 | 63 |
//*s/taxonConcept[tcs:@code=gen]/tcs:Name,"//taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=genus]/plantname", |
| ... | ... | |
| 69 | 68 |
//*s/taxonConcept[tcs:@code=reg]/tcs:Name,"//taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=kingdom]/plantname", |
| 70 | 69 |
//individualName/givenName,//taxonoccurrence/verbatimcollectorname/_name/first, |
| 71 | 70 |
//individualName/surName,//taxonoccurrence/verbatimcollectorname/_name/last, |
| 71 |
//*s/taxonConcept[tcs:@code=binom]/tcs:Name,"/*_id/plantobservation/aggregateoccurrence/*_id/taxonoccurrence/{taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath/path/_forEach:[do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first,sourceaccessioncode/_alt/3}",
|
|
| 72 | 72 |
//*s/aggregateOrganismObservation/*/aggregateValue/value,//aggregateoccurrence/count, |
| 73 | 73 |
//ordinal/coverPercent,//aggregateoccurrence/cover, |
| 74 | 74 |
//individualOrganismObservation/simpleUserdefined[name=censusNo]/value,"//aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,userdefinedname=censusNo]]/definedvalue", |
| mappings/VegX-VegBIEN.stems.csv | ||
|---|---|---|
| 58 | 58 |
"/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=ssp])/tcs:Name","/*_id/plantobservation/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=subspecies]/plantname", |
| 59 | 59 |
"/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/fit",/*_id/plantobservation/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]/taxonfit/_alt/1, |
| 60 | 60 |
"/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/{fit,tcs:Name/_name/middle}","/*_id/plantobservation/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]/{taxonfit/_alt/2,*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/last}",
|
| 61 |
"/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/tcs:Name","/*_id/plantobservation/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first", |
|
| 62 | 61 |
"/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=auth])/tcs:Name","/*_id/plantobservation/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=authority]/plantname", |
| 63 | 62 |
"/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=sp])/tcs:Name","/*_id/plantobservation/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=species]/plantname", |
| 64 | 63 |
"/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=gen])/tcs:Name","/*_id/plantobservation/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=genus]/plantname", |
| ... | ... | |
| 69 | 68 |
"/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=reg])/tcs:Name","/*_id/plantobservation/aggregateoccurrence/*_id/taxonoccurrence/taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[binomial,authority,subspecies,species,genus,family,order,class,subkingdom,],do=""plantname[rank=_val]/parent_id""]/plantname[rank=kingdom]/plantname", |
| 70 | 69 |
"/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/partyWithRole/*ID->/parties/party/individualName/givenName",/*_id/plantobservation/aggregateoccurrence/*_id/taxonoccurrence/verbatimcollectorname/_name/first, |
| 71 | 70 |
"/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/partyWithRole/*ID->/parties/party/individualName/surName",/*_id/plantobservation/aggregateoccurrence/*_id/taxonoccurrence/verbatimcollectorname/_name/last, |
| 71 |
"/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,!partyWithRole]/*s/taxonRelationshipAssertion(/assertion/*ID->/*s/taxonConcept[tcs:Rank/@code=binom])/tcs:Name","/*_id/plantobservation/aggregateoccurrence/*_id/taxonoccurrence/{taxondetermination[role=identifier]:[isoriginal=true,iscurrent=true]/*_id/plantconcept/plantname_id/_simplifyPath:[next=""parent_id/plantname"",require=plantname]/path/_forEach:[in:[],do=""plantname[rank=_val]/parent_id""]/plantname[rank=binomial]/plantname/_name/first,sourceaccessioncode/_alt/3}",
|
|
| 72 | 72 |
/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/aggregateOrganismObservation[*ID]/*/aggregateValue/value,/*_id/plantobservation/aggregateoccurrence/count, |
| 73 | 73 |
/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/volumeCanopy/*ID->/*s/attribute/ordinal/coverPercent,/*_id/plantobservation/aggregateoccurrence/cover, |
| 74 | 74 |
/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/simpleUserdefined[name=censusNo]/value,"/*_id/plantobservation/aggregateoccurrence/definedvalue[*_id/userdefined[tablename=aggregateoccurrence,userdefinedname=censusNo]]:[@fkey=tablerecord_id]/definedvalue", |
Also available in: Unified diff
mappings/VegX-VegBIEN.stems.csv: binomial (full) plantname: Also mapped to an alternative for taxonoccurrence.sourceaccessioncode, for aggregate plots data that distinguishes taxonoccurrences only by plantname (such as CVS)