Revision 3229
Added by Aaron Marcuse-Kubitza over 12 years ago
| inputs/SALVIAS-CSV/test/VegBIEN.organisms.xml.ref | ||
|---|---|---|
| 1 | 1 |
<?xml version="1.0" ?> |
| 2 | 2 |
<VegBIEN> |
| 3 | 3 |
<plantobservation id="0"> |
| 4 |
<sourceaccessioncode>607771</sourceaccessioncode> |
|
| 4 | 5 |
<aggregateoccurrence> |
| 5 | 6 |
<taxonoccurrence_id> |
| 6 | 7 |
<taxonoccurrence> |
| ... | ... | |
| 8 | 9 |
<specimenreplicate_id> |
| 9 | 10 |
<specimenreplicate> |
| 10 | 11 |
<datasource_id><party><organizationname>SALVIAS-CSV</organizationname></party></datasource_id> |
| 12 |
<sourceaccessioncode>607771</sourceaccessioncode> |
|
| 11 | 13 |
<catalognumber_dwc>14598</catalognumber_dwc> |
| 12 |
<sourceaccessioncode>607771</sourceaccessioncode> |
|
| 13 | 14 |
</specimenreplicate> |
| 14 | 15 |
</specimenreplicate_id> |
| 15 | 16 |
</voucher> |
| ... | ... | |
| 112 | 113 |
<tag>8</tag> |
| 113 | 114 |
</stemtag> |
| 114 | 115 |
</stemobservation> |
| 115 |
<sourceaccessioncode>607771</sourceaccessioncode> |
|
| 116 | 116 |
</plantobservation> |
| 117 | 117 |
<plantobservation id="1"> |
| 118 |
<sourceaccessioncode>607722</sourceaccessioncode> |
|
| 118 | 119 |
<aggregateoccurrence> |
| 119 | 120 |
<taxonoccurrence_id> |
| 120 | 121 |
<taxonoccurrence> |
| ... | ... | |
| 122 | 123 |
<specimenreplicate_id> |
| 123 | 124 |
<specimenreplicate> |
| 124 | 125 |
<datasource_id><party><organizationname>SALVIAS-CSV</organizationname></party></datasource_id> |
| 126 |
<sourceaccessioncode>607722</sourceaccessioncode> |
|
| 125 | 127 |
<catalognumber_dwc>14669</catalognumber_dwc> |
| 126 |
<sourceaccessioncode>607722</sourceaccessioncode> |
|
| 127 | 128 |
</specimenreplicate> |
| 128 | 129 |
</specimenreplicate_id> |
| 129 | 130 |
</voucher> |
| ... | ... | |
| 226 | 227 |
<tag>91</tag> |
| 227 | 228 |
</stemtag> |
| 228 | 229 |
</stemobservation> |
| 229 |
<sourceaccessioncode>607722</sourceaccessioncode> |
|
| 230 | 230 |
</plantobservation> |
| 231 | 231 |
</VegBIEN> |
| inputs/SALVIAS-CSV/maps/VegBIEN.organisms.csv | ||
|---|---|---|
| 1 | 1 |
SALVIAS-CSV,VegBIEN:/plantobservation,Comments |
| 2 |
OBSERVATION_ID,"/""""/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/sourceaccessioncode}","Brad: Neither is correct; this is just an internal ID for table plotObservations. However, it has the important property of uniquely identifying an ""observation"", which is an individual tree, in the case of an individual observation, or a records of a species with an associated count of individuals or measurement of percent cover, in the case of aggregate observations. Not sure where to store this. Main point is that it is not part of the original data, but an auto_increment added later.; Quotes sort it with other _ifs"
|
|
| 2 | 3 |
coll_number,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/catalognumber_dwc/_alt/1",Brad: Incorrect. Map instead as for voucher_string
|
| 3 | 4 |
voucher_string,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/catalognumber_dwc/_alt/2","Brad: OMIT. This is the verbatim text, which includes both collectors name and collection number. I would use coll_number, below."
|
| 4 | 5 |
census_date,/aggregateoccurrence/*_id/taxonoccurrence/*_id/locationevent/obsstartdate/_date/year, |
| ... | ... | |
| 31 | 32 |
x_position,/stemobservation/xposition,"Brad: Correct for VegBank. I'm not so sure for VegX. Let's ask Nick about this. These are important, fundamental values of many tree plots, and should be accommodated within VegX." |
| 32 | 33 |
y_position,/stemobservation/yposition,Brad: See comment above for x_position |
| 33 | 34 |
det_type,/{.}/_ignore/voucherType,"Brad: A SALVIAS value referring to the relationship between the voucher specimen and the observation. Affect how the identification of the specimen(latin name) is transferred to the observation. 'direct'=voucher specimen was collected from this same tree; they are one and the same individual. 'indirect'=voucher specimen was collected for a different individual, but the original data provider confirmed that this is the same species. 'default'=basically same as 'indirect'. 'uncollected'=no voucher specimen, data provider asserted that this was the name but was unable to collect. The main different is that with 'direct', 'indirect', and 'default', the scientific name can be updated automatically based on the name attached to the specimen voucher (assuming you have a link to that data, presumably from a herbarium database. Whereas, if det_type='uncollected', the name can never change because there is no specimen.; ""{"" sorts it after what uses it, so the _ignore is executed after the _refs"
|
| 34 |
OBSERVATION_ID,"/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/sourceaccessioncode}","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."
|
|
| 35 | 35 |
basal_diam,,** No join mapping for /diameterBaseDistance[baseDistance/value=0]/diameter ** |
| 36 | 36 |
collector_code,,Brad: OMIT |
| 37 | 37 |
comments,,Brad: OMIT |
| inputs/CTFS/maps/VegBIEN.organisms.csv | ||
|---|---|---|
| 1 | 1 |
CTFS[VegX]:/*s/individualOrganismObservation,VegBIEN:/plantobservation,Comments |
| 2 |
:[*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept/partyWithRole/*ID->/parties/party/organizationName=$/_ignore/inLabel]/simpleUserdefined[name=sourceAccessionCode]/value,"/""""/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/sourceaccessioncode}",Quotes sort it with other _ifs
|
|
| 2 | 3 |
/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept:[partyWithRole/*ID->/parties/party/organizationName=$/_ignore/inLabel]/voucher,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/catalognumber_dwc",
|
| 3 | 4 |
/simpleUserdefined[name=collectionDate]/value,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/collectiondate",
|
| 4 | 5 |
/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept/partyWithRole/*ID->/parties/party/organizationName,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/datasource_id/party/organizationname/_alt/1",
|
| ... | ... | |
| 84 | 85 |
/relativePlotPosition/relativeX,/stemobservation/xposition, |
| 85 | 86 |
/relativePlotPosition/relativeY,/stemobservation/yposition, |
| 86 | 87 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/groupType",/{.}/_ignore/voucherType,"""{"" sorts it after what uses it, so the _ignore is executed after the _refs"
|
| 87 |
:[*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept/partyWithRole/*ID->/parties/party/organizationName=$/_ignore/inLabel]/simpleUserdefined[name=sourceAccessionCode]/value,"/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/sourceaccessioncode}",
|
|
| 88 | 88 |
/*ID->/*s/plotObservation/*UniqueIdentifierID->/*s/plot/*/relatedPlot[plotRelationship=Quadrat]/relatedPlotID,,** No input mapping for /*ID->/*s/plotObservation/*UniqueIdentifierID->/*s/plot/*/relatedPlot[plotRelationship=Quadrat]/relatedPlotID ** |
| inputs/SALVIAS/test/VegBIEN.organisms.xml.ref | ||
|---|---|---|
| 1 | 1 |
<?xml version="1.0" ?> |
| 2 | 2 |
<VegBIEN> |
| 3 | 3 |
<plantobservation id="0"> |
| 4 |
<sourceaccessioncode>1</sourceaccessioncode> |
|
| 4 | 5 |
<specimenreplicate> |
| 5 | 6 |
<datasource_id><party><organizationname>SALVIAS</organizationname></party></datasource_id> |
| 7 |
<sourceaccessioncode>1</sourceaccessioncode> |
|
| 6 | 8 |
<catalognumber_dwc>931</catalognumber_dwc> |
| 7 |
<sourceaccessioncode>1</sourceaccessioncode> |
|
| 8 | 9 |
</specimenreplicate> |
| 9 | 10 |
<aggregateoccurrence> |
| 10 | 11 |
<taxonoccurrence_id> |
| ... | ... | |
| 102 | 103 |
</definedvalue> |
| 103 | 104 |
</aggregateoccurrence> |
| 104 | 105 |
<authorplantcode>1</authorplantcode> |
| 105 |
<sourceaccessioncode>1</sourceaccessioncode> |
|
| 106 | 106 |
</plantobservation> |
| 107 | 107 |
<plantobservation id="1"> |
| 108 |
<sourceaccessioncode>2</sourceaccessioncode> |
|
| 108 | 109 |
<specimenreplicate> |
| 109 | 110 |
<datasource_id><party><organizationname>SALVIAS</organizationname></party></datasource_id> |
| 111 |
<sourceaccessioncode>2</sourceaccessioncode> |
|
| 110 | 112 |
<catalognumber_dwc>933</catalognumber_dwc> |
| 111 |
<sourceaccessioncode>2</sourceaccessioncode> |
|
| 112 | 113 |
</specimenreplicate> |
| 113 | 114 |
<aggregateoccurrence> |
| 114 | 115 |
<taxonoccurrence_id> |
| ... | ... | |
| 206 | 207 |
</definedvalue> |
| 207 | 208 |
</aggregateoccurrence> |
| 208 | 209 |
<authorplantcode>2</authorplantcode> |
| 209 |
<sourceaccessioncode>2</sourceaccessioncode> |
|
| 210 | 210 |
</plantobservation> |
| 211 | 211 |
</VegBIEN> |
| inputs/SALVIAS/maps/VegBIEN.organisms.csv | ||
|---|---|---|
| 1 | 1 |
SALVIAS,VegBIEN:/plantobservation,Comments |
| 2 |
PlotObsID,"/""""/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/sourceaccessioncode}","Brad: Neither is correct; this is just an internal ID for table plotObservations. However, it has the important property of uniquely identifying an ""observation"", which is an individual tree, in the case of an individual observation, or a records of a species with an associated count of individuals or measurement of percent cover, in the case of aggregate observations. Not sure where to store this. Main point is that it is not part of the original data, but an auto_increment added later.; Quotes sort it with other _ifs"
|
|
| 2 | 3 |
coll_number,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/catalognumber_dwc/_alt/1",Brad: Incorrect. Map instead as for voucher_string
|
| 3 | 4 |
SourceVoucher,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/catalognumber_dwc/_alt/2","Brad: OMIT. This is the verbatim text, which includes both collectors name and collection number. I would use coll_number, below."
|
| 4 | 5 |
census_date,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/collectiondate/_*/date",
|
| ... | ... | |
| 29 | 30 |
x_position,/stemobservation/xposition,"Brad: Correct for VegBank. I'm not so sure for VegX. Let's ask Nick about this. These are important, fundamental values of many tree plots, and should be accommodated within VegX." |
| 30 | 31 |
y_position,/stemobservation/yposition,Brad: See comment above for x_position |
| 31 | 32 |
DetType,/{.}/_ignore/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.; ""{"" sorts it after what uses it, so the _ignore is executed after the _refs"
|
| 32 |
PlotObsID,"/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/sourceaccessioncode}","Brad: Neither is correct; this is just an internal ID for table plotObservations. However, it has the important property of uniquely identifying an ""observation"", which is an individual tree, in the case of an individual observation, or a records of a species with an associated count of individuals or measurement of percent cover, in the case of aggregate observations. Not sure where to store this. Main point is that it is not part of the original data, but an auto_increment added later."
|
|
| 33 | 33 |
GenAuth,,** No input mapping for GenAuth ** |
| 34 | 34 |
IsMorpho,,** No input mapping for IsMorpho ** |
| 35 | 35 |
Notes,,** No join mapping for /*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept/note/text ** |
| mappings/VegX-VegBIEN.organisms.csv | ||
|---|---|---|
| 1 | 1 |
"VegX::[@xmlns:tcs=""http://www.tdwg.org/schemas/tcs/1.01""]/*s/individualOrganismObservation",VegBIEN:/plantobservation,Comments |
| 2 |
:[*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept/partyWithRole/*ID->/parties/party/organizationName=$/_ignore/inLabel]/simpleUserdefined[name=sourceAccessionCode]/value,"/""""/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/sourceaccessioncode}",Quotes sort it with other _ifs
|
|
| 2 | 3 |
/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept:[partyWithRole/*ID->/parties/party/organizationName=$/_ignore/inLabel]/voucher,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/catalognumber_dwc",
|
| 3 | 4 |
/simpleUserdefined[name=collectionDate]/value,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/collectiondate",
|
| 4 | 5 |
/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept/partyWithRole/*ID->/parties/party/organizationName,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/datasource_id/party/organizationname/_alt/1",
|
| ... | ... | |
| 84 | 85 |
/relativePlotPosition/relativeX,/stemobservation/xposition, |
| 85 | 86 |
/relativePlotPosition/relativeY,/stemobservation/yposition, |
| 86 | 87 |
"/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/groupType",/{.}/_ignore/voucherType,"""{"" sorts it after what uses it, so the _ignore is executed after the _refs"
|
| 87 |
:[*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept/partyWithRole/*ID->/parties/party/organizationName=$/_ignore/inLabel]/simpleUserdefined[name=sourceAccessionCode]/value,"/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/sourceaccessioncode}",
|
|
| mappings/for_review/VegX-VegBIEN.organisms.csv | ||
|---|---|---|
| 1 | 1 |
"VegX::[@xmlns:tcs=""http://www.tdwg.org/schemas/tcs/1.01""]/*s/individualOrganismObservation",VegBIEN:/plantobservation,Comments |
| 2 |
/simpleUserdefined[name=sourceAccessionCode]/value,"/""""/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}//sourceaccessioncode}",Quotes sort it with other _ifs
|
|
| 2 | 3 |
//taxonNameUsageConcept/voucher,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}//catalognumber_dwc",
|
| 3 | 4 |
/simpleUserdefined[name=collectionDate]/value,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}//collectiondate",
|
| 4 | 5 |
//party/organizationName,"/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}//datasource_id/party/organizationname/_alt/1",
|
| ... | ... | |
| 84 | 85 |
//relativePlotPosition/relativeX,//stemobservation/xposition, |
| 85 | 86 |
//relativePlotPosition/relativeY,//stemobservation/yposition, |
| 86 | 87 |
//*s/taxonDetermination[role=collector]/groupType,/{.}/_ignore/voucherType,"""{"" sorts it after what uses it, so the _ignore is executed after the _refs"
|
| 87 |
/simpleUserdefined[name=sourceAccessionCode]/value,"/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}//sourceaccessioncode}",
|
|
| mappings/for_review/VegX-VegBIEN.stems.csv | ||
|---|---|---|
| 1 | 1 |
"VegX::[@xmlns:tcs=""http://www.tdwg.org/schemas/tcs/1.01""]/*s/individualOrganismObservation[relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID]",VegBIEN:/stemobservation,Comments |
| 2 |
//individualOrganismObservation/simpleUserdefined[name=sourceAccessionCode]/value,"/*_id/plantobservation/""""/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}//sourceaccessioncode}",Quotes sort it with other _ifs
|
|
| 2 | 3 |
//taxonNameUsageConcept/voucher,"//*_id/plantobservation/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}//catalognumber_dwc",
|
| 3 | 4 |
//individualOrganismObservation/simpleUserdefined[name=collectionDate]/value,"//*_id/plantobservation/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}//collectiondate",
|
| 4 | 5 |
//party/organizationName,"//*_id/plantobservation/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}//datasource_id/party/organizationname/_alt/1",
|
| ... | ... | |
| 85 | 86 |
//relativePlotPosition/relativeX,//stemobservation/xposition, |
| 86 | 87 |
//relativePlotPosition/relativeY,//stemobservation/yposition, |
| 87 | 88 |
//*s/taxonDetermination[role=collector]/groupType,/*_id/plantobservation/{.}/_ignore/voucherType,"""{"" sorts it after what uses it, so the _ignore is executed after the _refs"
|
| 88 |
//individualOrganismObservation/simpleUserdefined[name=sourceAccessionCode]/value,"/*_id/plantobservation/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}//sourceaccessioncode}",
|
|
| 89 | 89 |
/diameterBaseDistance[value=0]/diameter,/basaldiameter, |
| 90 | 90 |
/simpleUserdefined[name=canopyForm]/value,"/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=canopyForm]]/definedvalue", |
| 91 | 91 |
/simpleUserdefined[name=canopyPosition]/value,"/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=canopyPosition]]/definedvalue", |
| mappings/VegX-VegBIEN.stems.csv | ||
|---|---|---|
| 1 | 1 |
"VegX::[@xmlns:tcs=""http://www.tdwg.org/schemas/tcs/1.01""]/*s/individualOrganismObservation[relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID]",VegBIEN:/stemobservation,Comments |
| 2 |
/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation:[*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept/partyWithRole/*ID->/parties/party/organizationName=$/_ignore/inLabel]/simpleUserdefined[name=sourceAccessionCode]/value,"/*_id/plantobservation/""""/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/sourceaccessioncode}",Quotes sort it with other _ifs
|
|
| 2 | 3 |
/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept:[partyWithRole/*ID->/parties/party/organizationName=$/_ignore/inLabel]/voucher,"/*_id/plantobservation/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/catalognumber_dwc",
|
| 3 | 4 |
/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/simpleUserdefined[name=collectionDate]/value,"/*_id/plantobservation/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/collectiondate",
|
| 4 | 5 |
/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept/partyWithRole/*ID->/parties/party/organizationName,"/*_id/plantobservation/_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/datasource_id/party/organizationname/_alt/1",
|
| ... | ... | |
| 85 | 86 |
/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/relativePlotPosition/relativeX,/*_id/plantobservation/stemobservation/xposition, |
| 86 | 87 |
/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/relativePlotPosition/relativeY,/*_id/plantobservation/stemobservation/yposition, |
| 87 | 88 |
"/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation/*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/groupType",/*_id/plantobservation/{.}/_ignore/voucherType,"""{"" sorts it after what uses it, so the _ignore is executed after the _refs"
|
| 88 |
/relatedIndividual/relatedItem[itemRelationship=stemParent]/relatedItemID->/*s/individualOrganismObservation:[*ID->/*s/individualOrganism/*ID->/*s/taxonNameUsageConcept/partyWithRole/*ID->/parties/party/organizationName=$/_ignore/inLabel]/simpleUserdefined[name=sourceAccessionCode]/value,"/*_id/plantobservation/{sourceaccessioncode,_if:[cond/_eq:[left/_ref[addr=""../../../../_ignore/voucherType""],right=direct]]/{then/specimenreplicate,else/aggregateoccurrence/*_id/taxonoccurrence/voucher/*_id/specimenreplicate}/:[datasource_id/party/organizationname/_alt/2=$/_ignore/inLabel]/sourceaccessioncode}",
|
|
| 89 | 89 |
/diameterBaseDistance[baseDistance/value=0]/diameter,/basaldiameter, |
| 90 | 90 |
/simpleUserdefined[name=canopyForm]/value,"/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=canopyForm]]:[@fkey=tablerecord_id]/definedvalue", |
| 91 | 91 |
/simpleUserdefined[name=canopyPosition]/value,"/definedvalue[*_id/userdefined[tablename=stemobservation,userdefinedname=canopyPosition]]:[@fkey=tablerecord_id]/definedvalue", |
Also available in: Unified diff
mappings/VegX-VegBIEN.stems.csv: Sort the plantobservation.sourceaccessioncode/specimenreplicate.sourceaccessioncode mapping with the other _ifs so the adjacent node merging works properly and it gets created before _ignore removes voucherType