Revision 6795
Added by Aaron Marcuse-Kubitza over 11 years ago
| inputs/MO/Specimen/VegBIEN.csv | ||
|---|---|---|
| 21 | 21 |
CollectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_join/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
| 22 | 22 |
CatalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 23 | 23 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 24 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 25 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 24 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 26 | 25 |
CollectorNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1", |
| 27 | 26 |
ScientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/3", |
| 28 | 27 |
Collector,/location/locationevent/taxonoccurrence/collector_id/party/fullname, |
| inputs/TRTE/Specimen/test.xml.ref | ||
|---|---|---|
| 61 | 61 |
<sourcelist> |
| 62 | 62 |
<name>$institutionCode</name> |
| 63 | 63 |
<sourcename> |
| 64 |
<matched_source_id><source><shortname>$institutionCode</shortname></source></matched_source_id> |
|
| 65 |
<name>$institutionCode</name> |
|
| 64 |
<name> |
|
| 65 |
<_split> |
|
| 66 |
<separator>, </separator> |
|
| 67 |
<value>$institutionCode</value> |
|
| 68 |
</_split> |
|
| 69 |
</name> |
|
| 66 | 70 |
</sourcename> |
| 67 | 71 |
</sourcelist> |
| 68 | 72 |
</institution_id> |
| ... | ... | |
| 322 | 326 |
</path> |
| 323 | 327 |
</_setDefault> |
| 324 | 328 |
</VegBIEN> |
| 325 |
Inserted 36 new rows into database |
|
| 329 |
Inserted 35 new rows into database |
|
| inputs/UNCC/Specimen/VegBIEN.csv | ||
|---|---|---|
| 62 | 62 |
HAVING count(*) > 1 |
| 63 | 63 |
-----" |
| 64 | 64 |
herbarium,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 65 |
herbarium,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 66 |
herbarium,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 65 |
herbarium,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 67 | 66 |
accession,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode,"Globally unique, although occasionally duplicated. [1] |
| 68 | 67 |
|
| 69 | 68 |
[1] Using the following query: |
| inputs/.herbaria/herbaria/VegBIEN.csv | ||
|---|---|---|
| 5 | 5 |
:specimen,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_if[@name=""if plot""]/cond/_eq:[right=plot]/left", |
| 6 | 6 |
herbariumAcronym,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_if[@name=""if plot""]/else/_alt/2/_if[@name=""if catalogNumber""]/then/_join/1/_if[@name=""if specimen""]/then", |
| 7 | 7 |
herbariumAcronym,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 8 |
herbariumAcronym,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 9 |
herbariumAcronym,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 8 |
herbariumAcronym,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 10 | 9 |
City,,"** No non-empty join mapping for OMIT ** Just importing whether a datasource is a herbarium, for now" |
| 11 | 10 |
CoordinatesVerbatim,,"** No non-empty join mapping for OMIT ** Just importing whether a datasource is a herbarium, for now" |
| 12 | 11 |
Country,,"** No non-empty join mapping for OMIT ** Just importing whether a datasource is a herbarium, for now" |
| inputs/REMIB/Specimen/test.xml.ref | ||
|---|---|---|
| 58 | 58 |
<sourcelist> |
| 59 | 59 |
<name>$acronym</name> |
| 60 | 60 |
<sourcename> |
| 61 |
<matched_source_id><source><shortname>$acronym</shortname></source></matched_source_id> |
|
| 62 |
<name>$acronym</name> |
|
| 61 |
<name> |
|
| 62 |
<_split> |
|
| 63 |
<separator>, </separator> |
|
| 64 |
<value>$acronym</value> |
|
| 65 |
</_split> |
|
| 66 |
</name> |
|
| 63 | 67 |
</sourcename> |
| 64 | 68 |
</sourcelist> |
| 65 | 69 |
</institution_id> |
| ... | ... | |
| 222 | 226 |
</path> |
| 223 | 227 |
</_setDefault> |
| 224 | 228 |
</VegBIEN> |
| 225 |
Inserted 34 new rows into database |
|
| 229 |
Inserted 33 new rows into database |
|
| inputs/ARIZ/Specimen/test.xml.ref | ||
|---|---|---|
| 89 | 89 |
<sourcelist> |
| 90 | 90 |
<name>$InstitutionCode</name> |
| 91 | 91 |
<sourcename> |
| 92 |
<matched_source_id><source><shortname>$InstitutionCode</shortname></source></matched_source_id> |
|
| 93 |
<name>$InstitutionCode</name> |
|
| 92 |
<name> |
|
| 93 |
<_split> |
|
| 94 |
<separator>, </separator> |
|
| 95 |
<value>$InstitutionCode</value> |
|
| 96 |
</_split> |
|
| 97 |
</name> |
|
| 94 | 98 |
</sourcename> |
| 95 | 99 |
</sourcelist> |
| 96 | 100 |
</institution_id> |
| ... | ... | |
| 374 | 378 |
</path> |
| 375 | 379 |
</_setDefault> |
| 376 | 380 |
</VegBIEN> |
| 377 |
Inserted 46 new rows into database |
|
| 381 |
Inserted 45 new rows into database |
|
| inputs/TRT/Specimen/test.xml.ref | ||
|---|---|---|
| 80 | 80 |
<sourcelist> |
| 81 | 81 |
<name>$institutionCode</name> |
| 82 | 82 |
<sourcename> |
| 83 |
<matched_source_id><source><shortname>$institutionCode</shortname></source></matched_source_id> |
|
| 84 |
<name>$institutionCode</name> |
|
| 83 |
<name> |
|
| 84 |
<_split> |
|
| 85 |
<separator>, </separator> |
|
| 86 |
<value>$institutionCode</value> |
|
| 87 |
</_split> |
|
| 88 |
</name> |
|
| 85 | 89 |
</sourcename> |
| 86 | 90 |
</sourcelist> |
| 87 | 91 |
</institution_id> |
| ... | ... | |
| 360 | 364 |
</path> |
| 361 | 365 |
</_setDefault> |
| 362 | 366 |
</VegBIEN> |
| 363 |
Inserted 44 new rows into database |
|
| 367 |
Inserted 43 new rows into database |
|
| inputs/TRTE/Specimen/VegBIEN.csv | ||
|---|---|---|
| 28 | 28 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 29 | 29 |
id,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 30 | 30 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 31 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 32 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 31 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 33 | 32 |
id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 34 | 33 |
recordNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1", |
| 35 | 34 |
scientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/2", |
| mappings/for_review/VegCore-VegBIEN.csv | ||
|---|---|---|
| 118 | 118 |
catalogNumber,"//institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 119 | 119 |
occurrenceID,"//institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 120 | 120 |
institutionCode,"//institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 121 |
institutionCode,"//institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 122 | 121 |
institutionCode,"//institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
| 123 | 122 |
occurrenceID,//specimenreplicate/sourceaccessioncode, |
| 124 | 123 |
stemCount,//plantobservation/stemcount, |
| inputs/MT/Specimen/VegBIEN.csv | ||
|---|---|---|
| 14 | 14 |
collectionID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_join/2, |
| 15 | 15 |
id,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 16 | 16 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 17 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 18 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 17 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 19 | 18 |
id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 20 | 19 |
id,"/location/locationevent/taxonoccurrence/iscultivated/_alt/1/_if[@name=""if TaxonOccurrence""]/cond/_exists", |
| 21 | 20 |
establishmentMeans,"/location/locationevent/taxonoccurrence/iscultivated/_alt/2/_map:[cultivated=t,wild=f,*=]/value", |
| inputs/MT/Specimen/test.xml.ref | ||
|---|---|---|
| 26 | 26 |
<sourcelist> |
| 27 | 27 |
<name>$institutionCode</name> |
| 28 | 28 |
<sourcename> |
| 29 |
<matched_source_id><source><shortname>$institutionCode</shortname></source></matched_source_id> |
|
| 30 |
<name>$institutionCode</name> |
|
| 29 |
<name> |
|
| 30 |
<_split> |
|
| 31 |
<separator>, </separator> |
|
| 32 |
<value>$institutionCode</value> |
|
| 33 |
</_split> |
|
| 34 |
</name> |
|
| 31 | 35 |
</sourcename> |
| 32 | 36 |
</sourcelist> |
| 33 | 37 |
</institution_id> |
| ... | ... | |
| 132 | 136 |
</path> |
| 133 | 137 |
</_setDefault> |
| 134 | 138 |
</VegBIEN> |
| 135 |
Inserted 27 new rows into database |
|
| 139 |
Inserted 26 new rows into database |
|
| inputs/XAL/Specimen/VegBIEN.csv | ||
|---|---|---|
| 21 | 21 |
darwin:CollectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_join/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
| 22 | 22 |
darwin:CatalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 23 | 23 |
darwin:InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 24 |
darwin:InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 25 |
darwin:InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 24 |
darwin:InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 26 | 25 |
darwin:CollectorNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1", |
| 27 | 26 |
darwin:ScientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/3", |
| 28 | 27 |
darwin:Collector,/location/locationevent/taxonoccurrence/collector_id/party/fullname, |
| inputs/NCU/Specimen/VegBIEN.csv | ||
|---|---|---|
| 25 | 25 |
SpecimenPK,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 26 | 26 |
CatalogSeriesPrefix,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name/_alt/1", |
| 27 | 27 |
OwnerInstitution,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name/_alt/2", |
| 28 |
CatalogSeriesPrefix,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname/_alt/1", |
|
| 29 |
OwnerInstitution,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname/_alt/2", |
|
| 30 |
CatalogSeriesPrefix,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_alt/1", |
|
| 31 |
OwnerInstitution,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_alt/2", |
|
| 28 |
CatalogSeriesPrefix,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value/_alt/1", |
|
| 29 |
OwnerInstitution,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value/_alt/2", |
|
| 32 | 30 |
SpecimenPK,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 33 | 31 |
firstCollectorRemarks,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1","Actually the collector's number, not remarks" |
| 34 | 32 |
CurrentScientificNameWithAuthor,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/2", |
| inputs/NCU/Specimen/test.xml.ref | ||
|---|---|---|
| 53 | 53 |
</_alt> |
| 54 | 54 |
</name> |
| 55 | 55 |
<sourcename> |
| 56 |
<matched_source_id> |
|
| 57 |
<source> |
|
| 58 |
<shortname> |
|
| 56 |
<name> |
|
| 57 |
<_split> |
|
| 58 |
<separator>, </separator> |
|
| 59 |
<value> |
|
| 59 | 60 |
<_alt> |
| 60 | 61 |
<1>$CatalogSeriesPrefix</1> |
| 61 | 62 |
<2>$OwnerInstitution</2> |
| 62 | 63 |
</_alt> |
| 63 |
</shortname> |
|
| 64 |
</source> |
|
| 65 |
</matched_source_id> |
|
| 66 |
<name> |
|
| 67 |
<_alt> |
|
| 68 |
<1>$CatalogSeriesPrefix</1> |
|
| 69 |
<2>$OwnerInstitution</2> |
|
| 70 |
</_alt> |
|
| 64 |
</value> |
|
| 65 |
</_split> |
|
| 71 | 66 |
</name> |
| 72 | 67 |
</sourcename> |
| 73 | 68 |
</sourcelist> |
| ... | ... | |
| 202 | 197 |
</path> |
| 203 | 198 |
</_setDefault> |
| 204 | 199 |
</VegBIEN> |
| 205 |
Inserted 42 new rows into database |
|
| 200 |
Inserted 40 new rows into database |
|
| inputs/ACAD/Specimen/VegBIEN.csv | ||
|---|---|---|
| 28 | 28 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 29 | 29 |
id,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 30 | 30 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 31 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 32 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 31 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 33 | 32 |
id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 34 | 33 |
recordNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1", |
| 35 | 34 |
scientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/2", |
| inputs/ACAD/Specimen/test.xml.ref | ||
|---|---|---|
| 61 | 61 |
<sourcelist> |
| 62 | 62 |
<name>$institutionCode</name> |
| 63 | 63 |
<sourcename> |
| 64 |
<matched_source_id><source><shortname>$institutionCode</shortname></source></matched_source_id> |
|
| 65 |
<name>$institutionCode</name> |
|
| 64 |
<name> |
|
| 65 |
<_split> |
|
| 66 |
<separator>, </separator> |
|
| 67 |
<value>$institutionCode</value> |
|
| 68 |
</_split> |
|
| 69 |
</name> |
|
| 66 | 70 |
</sourcename> |
| 67 | 71 |
</sourcelist> |
| 68 | 72 |
</institution_id> |
| ... | ... | |
| 323 | 327 |
</path> |
| 324 | 328 |
</_setDefault> |
| 325 | 329 |
</VegBIEN> |
| 326 |
Inserted 48 new rows into database |
|
| 330 |
Inserted 47 new rows into database |
|
| inputs/WIN/Specimen/VegBIEN.csv | ||
|---|---|---|
| 29 | 29 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 30 | 30 |
id,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 31 | 31 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 32 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 33 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 32 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 34 | 33 |
id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 35 | 34 |
recordNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1", |
| 36 | 35 |
scientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/2", |
| inputs/WIN/Specimen/test.xml.ref | ||
|---|---|---|
| 66 | 66 |
<sourcelist> |
| 67 | 67 |
<name>$institutionCode</name> |
| 68 | 68 |
<sourcename> |
| 69 |
<matched_source_id><source><shortname>$institutionCode</shortname></source></matched_source_id> |
|
| 70 |
<name>$institutionCode</name> |
|
| 69 |
<name> |
|
| 70 |
<_split> |
|
| 71 |
<separator>, </separator> |
|
| 72 |
<value>$institutionCode</value> |
|
| 73 |
</_split> |
|
| 74 |
</name> |
|
| 71 | 75 |
</sourcename> |
| 72 | 76 |
</sourcelist> |
| 73 | 77 |
</institution_id> |
| ... | ... | |
| 298 | 302 |
</path> |
| 299 | 303 |
</_setDefault> |
| 300 | 304 |
</VegBIEN> |
| 301 |
Inserted 38 new rows into database |
|
| 305 |
Inserted 37 new rows into database |
|
| inputs/QFA/Specimen/VegBIEN.csv | ||
|---|---|---|
| 28 | 28 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 29 | 29 |
id,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 30 | 30 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 31 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 32 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 31 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 33 | 32 |
id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 34 | 33 |
recordNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1", |
| 35 | 34 |
scientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/2", |
| inputs/QFA/Specimen/test.xml.ref | ||
|---|---|---|
| 61 | 61 |
<sourcelist> |
| 62 | 62 |
<name>$institutionCode</name> |
| 63 | 63 |
<sourcename> |
| 64 |
<matched_source_id><source><shortname>$institutionCode</shortname></source></matched_source_id> |
|
| 65 |
<name>$institutionCode</name> |
|
| 64 |
<name> |
|
| 65 |
<_split> |
|
| 66 |
<separator>, </separator> |
|
| 67 |
<value>$institutionCode</value> |
|
| 68 |
</_split> |
|
| 69 |
</name> |
|
| 66 | 70 |
</sourcename> |
| 67 | 71 |
</sourcelist> |
| 68 | 72 |
</institution_id> |
| ... | ... | |
| 337 | 341 |
</path> |
| 338 | 342 |
</_setDefault> |
| 339 | 343 |
</VegBIEN> |
| 340 |
Inserted 48 new rows into database |
|
| 344 |
Inserted 47 new rows into database |
|
| inputs/GBIF/Specimen/VegBIEN.csv | ||
|---|---|---|
| 14 | 14 |
CollectionCD,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_join/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
| 15 | 15 |
CatalogNO,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 16 | 16 |
InstitutionCD,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 17 |
InstitutionCD,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 18 |
InstitutionCD,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 17 |
InstitutionCD,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 19 | 18 |
ScientificNameOriginal,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/1", |
| 20 | 19 |
ScientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/3", |
| 21 | 20 |
Collector,/location/locationevent/taxonoccurrence/collector_id/party/fullname, |
| inputs/GBIF/Specimen/test.xml.ref | ||
|---|---|---|
| 33 | 33 |
<sourcelist> |
| 34 | 34 |
<name>$InstitutionCD</name> |
| 35 | 35 |
<sourcename> |
| 36 |
<matched_source_id><source><shortname>$InstitutionCD</shortname></source></matched_source_id> |
|
| 37 |
<name>$InstitutionCD</name> |
|
| 36 |
<name> |
|
| 37 |
<_split> |
|
| 38 |
<separator>, </separator> |
|
| 39 |
<value>$InstitutionCD</value> |
|
| 40 |
</_split> |
|
| 41 |
</name> |
|
| 38 | 42 |
</sourcename> |
| 39 | 43 |
</sourcelist> |
| 40 | 44 |
</institution_id> |
| ... | ... | |
| 331 | 335 |
</path> |
| 332 | 336 |
</_setDefault> |
| 333 | 337 |
</VegBIEN> |
| 334 |
Inserted 48 new rows into database |
|
| 338 |
Inserted 47 new rows into database |
|
| inputs/JBM/Specimen/VegBIEN.csv | ||
|---|---|---|
| 29 | 29 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 30 | 30 |
id,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 31 | 31 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 32 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 33 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 32 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 34 | 33 |
id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 35 | 34 |
recordNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1", |
| 36 | 35 |
scientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/2", |
| inputs/JBM/Specimen/test.xml.ref | ||
|---|---|---|
| 64 | 64 |
<sourcelist> |
| 65 | 65 |
<name>$institutionCode</name> |
| 66 | 66 |
<sourcename> |
| 67 |
<matched_source_id><source><shortname>$institutionCode</shortname></source></matched_source_id> |
|
| 68 |
<name>$institutionCode</name> |
|
| 67 |
<name> |
|
| 68 |
<_split> |
|
| 69 |
<separator>, </separator> |
|
| 70 |
<value>$institutionCode</value> |
|
| 71 |
</_split> |
|
| 72 |
</name> |
|
| 69 | 73 |
</sourcename> |
| 70 | 74 |
</sourcelist> |
| 71 | 75 |
</institution_id> |
| ... | ... | |
| 284 | 288 |
</path> |
| 285 | 289 |
</_setDefault> |
| 286 | 290 |
</VegBIEN> |
| 287 |
Inserted 39 new rows into database |
|
| 291 |
Inserted 38 new rows into database |
|
| inputs/UBC/Specimen/VegBIEN.csv | ||
|---|---|---|
| 28 | 28 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 29 | 29 |
id,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 30 | 30 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 31 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 32 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 31 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 33 | 32 |
id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 34 | 33 |
recordNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1", |
| 35 | 34 |
scientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/2", |
| inputs/UBC/Specimen/test.xml.ref | ||
|---|---|---|
| 61 | 61 |
<sourcelist> |
| 62 | 62 |
<name>$institutionCode</name> |
| 63 | 63 |
<sourcename> |
| 64 |
<matched_source_id><source><shortname>$institutionCode</shortname></source></matched_source_id> |
|
| 65 |
<name>$institutionCode</name> |
|
| 64 |
<name> |
|
| 65 |
<_split> |
|
| 66 |
<separator>, </separator> |
|
| 67 |
<value>$institutionCode</value> |
|
| 68 |
</_split> |
|
| 69 |
</name> |
|
| 66 | 70 |
</sourcename> |
| 67 | 71 |
</sourcelist> |
| 68 | 72 |
</institution_id> |
| ... | ... | |
| 323 | 327 |
</path> |
| 324 | 328 |
</_setDefault> |
| 325 | 329 |
</VegBIEN> |
| 326 |
Inserted 44 new rows into database |
|
| 330 |
Inserted 43 new rows into database |
|
| inputs/HIBG/Specimen/VegBIEN.csv | ||
|---|---|---|
| 28 | 28 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 29 | 29 |
id,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 30 | 30 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 31 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 32 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 31 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 33 | 32 |
id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 34 | 33 |
recordNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1", |
| 35 | 34 |
scientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/2", |
| inputs/HIBG/Specimen/test.xml.ref | ||
|---|---|---|
| 61 | 61 |
<sourcelist> |
| 62 | 62 |
<name>$institutionCode</name> |
| 63 | 63 |
<sourcename> |
| 64 |
<matched_source_id><source><shortname>$institutionCode</shortname></source></matched_source_id> |
|
| 65 |
<name>$institutionCode</name> |
|
| 64 |
<name> |
|
| 65 |
<_split> |
|
| 66 |
<separator>, </separator> |
|
| 67 |
<value>$institutionCode</value> |
|
| 68 |
</_split> |
|
| 69 |
</name> |
|
| 66 | 70 |
</sourcename> |
| 67 | 71 |
</sourcelist> |
| 68 | 72 |
</institution_id> |
| inputs/SpeciesLink/Specimen/VegBIEN.csv | ||
|---|---|---|
| 94 | 94 |
conceptual_darwin_2003_1_0_InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 95 | 95 |
dwc_dwcore_InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 96 | 96 |
dwc_terms_institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 97 |
conceptual_darwin_2003_1_0_InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 98 |
dwc_dwcore_InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 99 |
dwc_terms_institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 100 |
conceptual_darwin_2003_1_0_InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 101 |
dwc_dwcore_InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 102 |
dwc_terms_institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 97 |
conceptual_darwin_2003_1_0_InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 98 |
dwc_dwcore_InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 99 |
dwc_terms_institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 103 | 100 |
dwc_dwcore_GlobalUniqueIdentifier,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 104 | 101 |
dwc_terms_recordNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1/_alt/1", |
| 105 | 102 |
conceptual_darwin_2003_1_0_FieldNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1/_alt/2","Usage inconsistent with DwC definition. This field is instead identical to recordNumber, as the following query returns zero: (takes 23 sec) |
| inputs/SpeciesLink/Specimen/test.xml.ref | ||
|---|---|---|
| 171 | 171 |
</_alt> |
| 172 | 172 |
</name> |
| 173 | 173 |
<sourcename> |
| 174 |
<matched_source_id> |
|
| 175 |
<source> |
|
| 176 |
<shortname> |
|
| 174 |
<name> |
|
| 175 |
<_split> |
|
| 176 |
<separator>, </separator> |
|
| 177 |
<value> |
|
| 177 | 178 |
<_alt> |
| 178 | 179 |
<0>$conceptual_darwin_2003_1_0_InstitutionCode</0> |
| 179 | 180 |
<1>$dwc_dwcore_InstitutionCode</1> |
| 180 | 181 |
<2>$dwc_terms_institutionCode</2> |
| 181 | 182 |
</_alt> |
| 182 |
</shortname> |
|
| 183 |
</source> |
|
| 184 |
</matched_source_id> |
|
| 185 |
<name> |
|
| 186 |
<_alt> |
|
| 187 |
<0>$conceptual_darwin_2003_1_0_InstitutionCode</0> |
|
| 188 |
<1>$dwc_dwcore_InstitutionCode</1> |
|
| 189 |
<2>$dwc_terms_institutionCode</2> |
|
| 190 |
</_alt> |
|
| 183 |
</value> |
|
| 184 |
</_split> |
|
| 191 | 185 |
</name> |
| 192 | 186 |
</sourcename> |
| 193 | 187 |
</sourcelist> |
| ... | ... | |
| 759 | 753 |
</path> |
| 760 | 754 |
</_setDefault> |
| 761 | 755 |
</VegBIEN> |
| 762 |
Inserted 48 new rows into database |
|
| 756 |
Inserted 47 new rows into database |
|
| inputs/bien_web/observation/VegBIEN.csv | ||
|---|---|---|
| 24 | 24 |
collectionNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber, |
| 25 | 25 |
observationID,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 26 | 26 |
dataSourceName,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 27 |
dataSourceName,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 28 |
dataSourceName,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 27 |
dataSourceName,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 29 | 28 |
observationID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 30 | 29 |
plotCode,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists", |
| 31 | 30 |
plotID,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists", |
| inputs/bien_web/observation/test.xml.ref | ||
|---|---|---|
| 24 | 24 |
<sourcelist> |
| 25 | 25 |
<name>$dataSourceName</name> |
| 26 | 26 |
<sourcename> |
| 27 |
<matched_source_id><source><shortname>$dataSourceName</shortname></source></matched_source_id> |
|
| 28 |
<name>$dataSourceName</name> |
|
| 27 |
<name> |
|
| 28 |
<_split> |
|
| 29 |
<separator>, </separator> |
|
| 30 |
<value>$dataSourceName</value> |
|
| 31 |
</_split> |
|
| 32 |
</name> |
|
| 29 | 33 |
</sourcename> |
| 30 | 34 |
</sourcelist> |
| 31 | 35 |
</institution_id> |
| inputs/NY/Specimen/VegBIEN.csv | ||
|---|---|---|
| 25 | 25 |
CollectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_join/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
| 26 | 26 |
CatalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 27 | 27 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 28 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 29 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 28 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 30 | 29 |
FieldNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1",Usage inconsistent with DwC definition |
| 31 | 30 |
ScientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/3", |
| 32 | 31 |
Collector,/location/locationevent/taxonoccurrence/collector_id/party/fullname, |
| inputs/NY/Specimen/test.xml.ref | ||
|---|---|---|
| 109 | 109 |
<sourcelist> |
| 110 | 110 |
<name>$InstitutionCode</name> |
| 111 | 111 |
<sourcename> |
| 112 |
<matched_source_id><source><shortname>$InstitutionCode</shortname></source></matched_source_id> |
|
| 113 |
<name>$InstitutionCode</name> |
|
| 112 |
<name> |
|
| 113 |
<_split> |
|
| 114 |
<separator>, </separator> |
|
| 115 |
<value>$InstitutionCode</value> |
|
| 116 |
</_split> |
|
| 117 |
</name> |
|
| 114 | 118 |
</sourcename> |
| 115 | 119 |
</sourcelist> |
| 116 | 120 |
</institution_id> |
| inputs/UNCC/Specimen/test.xml.ref | ||
|---|---|---|
| 79 | 79 |
<sourcelist> |
| 80 | 80 |
<name>$herbarium</name> |
| 81 | 81 |
<sourcename> |
| 82 |
<matched_source_id><source><shortname>$herbarium</shortname></source></matched_source_id> |
|
| 83 |
<name>$herbarium</name> |
|
| 82 |
<name> |
|
| 83 |
<_split> |
|
| 84 |
<separator>, </separator> |
|
| 85 |
<value>$herbarium</value> |
|
| 86 |
</_split> |
|
| 87 |
</name> |
|
| 84 | 88 |
</sourcename> |
| 85 | 89 |
</sourcelist> |
| 86 | 90 |
</institution_id> |
| ... | ... | |
| 319 | 323 |
</path> |
| 320 | 324 |
</_setDefault> |
| 321 | 325 |
</VegBIEN> |
| 322 |
Inserted 30 new rows into database |
|
| 326 |
Inserted 29 new rows into database |
|
| inputs/REMIB/Specimen/VegBIEN.csv | ||
|---|---|---|
| 61 | 61 |
HAVING count(*) > 1 |
| 62 | 62 |
-----" |
| 63 | 63 |
acronym,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 64 |
acronym,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 65 |
acronym,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 64 |
acronym,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 66 | 65 |
collector,/location/locationevent/taxonoccurrence/collector_id/party/fullname, |
| 67 | 66 |
family,"/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/1/_taxon_family_require_std/family/_nullIf/value", |
| 68 | 67 |
genus,"/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/2", |
| inputs/ARIZ/Specimen/VegBIEN.csv | ||
|---|---|---|
| 33 | 33 |
CatalogNumberNumeric,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists/_alt/1", |
| 34 | 34 |
CatalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists/_alt/2",Don't overwrite CatalogNumberNumeric |
| 35 | 35 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 36 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 37 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 36 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 38 | 37 |
GlobalUniqueIdentifier,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 39 | 38 |
CollectorNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1", |
| 40 | 39 |
ScientificNameAuthor,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/2",Contains the binomial in addition to the authority |
| inputs/TRT/Specimen/VegBIEN.csv | ||
|---|---|---|
| 31 | 31 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 32 | 32 |
id,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 33 | 33 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 34 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 35 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 34 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 36 | 35 |
id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 37 | 36 |
recordNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1", |
| 38 | 37 |
scientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/2", |
| inputs/MO/Specimen/test.xml.ref | ||
|---|---|---|
| 65 | 65 |
<sourcelist> |
| 66 | 66 |
<name>$InstitutionCode</name> |
| 67 | 67 |
<sourcename> |
| 68 |
<matched_source_id><source><shortname>$InstitutionCode</shortname></source></matched_source_id> |
|
| 69 |
<name>$InstitutionCode</name> |
|
| 68 |
<name> |
|
| 69 |
<_split> |
|
| 70 |
<separator>, </separator> |
|
| 71 |
<value>$InstitutionCode</value> |
|
| 72 |
</_split> |
|
| 73 |
</name> |
|
| 70 | 74 |
</sourcename> |
| 71 | 75 |
</sourcelist> |
| 72 | 76 |
</institution_id> |
| mappings/VegCore-VegBIEN.csv | ||
|---|---|---|
| 118 | 118 |
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 119 | 119 |
occurrenceID,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
| 120 | 120 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name", |
| 121 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/matched_source_id/source/shortname", |
|
| 122 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name", |
|
| 121 |
institutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_split:[separator="", ""]/value", |
|
| 123 | 122 |
occurrenceID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
| 124 | 123 |
stemCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemcount, |
| 125 | 124 |
authorStemCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/authorstemcode, |
Also available in: Unified diff
mappings/VegCore-VegBIEN.csv: institutionCode: Removed mapping to sourcename.matched_source_id, which is now autopopulated. Split any list of institutionCodes apart using new _split().