Project

General

Profile

« Previous | Next » 

Revision 6349

Added inputs/HIBG/

View differences:

inputs/HIBG/Specimen/map.csv
1
HIBG,VegCore,Filter,Comments
2
id,occurrenceID,,
3
county,county,,
4
dateIdentified,dateIdentified,,
5
rightsHolder,dcterms:rightsHolder,,
6
verbatimSRS,verbatimSRS,,
7
references,dcterms:references,,
8
habitat,habitat,,
9
institutionID,institutionID,,
10
decimalLongitude,decimalLongitude,,
11
verbatimCoordinateSystem,verbatimCoordinateSystem,,
12
catalogNumber,catalogNumber,,
13
phylum,phylum,,
14
family,family,,
15
locationRemarks,locationRemarks,,
16
reproductiveCondition,reproductiveCondition,,
17
country,country,,
18
collectionID,collectionID,,
19
dynamicProperties,dynamicProperties,,
20
infraspecificEpithet,infraspecificEpithet,,
21
basisOfRecord,basisOfRecord,,
22
georeferenceSources,georeferenceSources,,
23
identifiedBy,identifiedBy,,
24
locality,locality,,
25
datasetName,datasetName,,
26
bibliographicCitation,dcterms:bibliographicCitation,,
27
datasetID,datasetID,,
28
institutionCode,institutionCode,,
29
recordNumber,recordNumber,,
30
order,order,,
31
kingdom,kingdom,,
32
specificEpithet,specificEpithet,,
33
informationWithheld,informationWithheld,,
34
verbatimDepth,verbatimDepth,,
35
geodeticDatum,geodeticDatum,,
36
associatedMedia,associatedMedia,,
37
nomenclaturalCode,nomenclaturalCode,,
38
waterBody,waterBody,,
39
rights,dcterms:rights,,
40
stateProvince,stateProvince,,
41
recordedBy,recordedBy,,
42
decimalLatitude,decimalLatitude,,
43
modified,dcterms:modified,,
44
verbatimCoordinates,verbatimCoordinates,,
45
continent,continent,,
46
identificationRemarks,identificationRemarks,,
47
georeferenceVerificationStatus,georeferenceVerificationStatus,,
48
occurrenceRemarks,occurrenceRemarks,,
49
municipality,municipality,,
50
genus,genus,,
51
taxonRank,taxonRank,,
52
type,dcterms:type,,
53
eventDate,eventDate,,
54
scientificName,scientificName,,
55
verbatimElevation,verbatimElevation,,
56
scientificNameAuthorship,scientificNameAuthorship,,
57
collectionCode,collectionCode,,
58
language,dcterms:language,,
59
ownerInstitutionCode,ownerInstitutionCode,,
60
class,class,,
inputs/HIBG/Specimen/VegBIEN.csv
1
HIBG,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2
id,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/1",
3
catalogNumber,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/cond/_exists",
4
institutionCode,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/1",
5
collectionCode,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/2/_join/1",
6
collectionID,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/2/_join/2",
7
catalogNumber,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/3/_if[@name=""if indirect voucher""]/else",
8
verbatimElevation,"/location/elevation_m/_alt/1/_units:[to=m,to=]/value",
9
id,"/location/iscultivated/_if[@name=""if TaxonOccurrence""]/cond/_exists",
10
recordNumber,"/location/iscultivated/_if[@name=""if TaxonOccurrence""]/cond/_exists",
11
eventDate,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if has event""]/cond/_exists",
12
eventDate,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if has event""]/then/parent_id/locationevent/obsenddate/_alt/2/_dateRangeEnd/value",
13
eventDate,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if has event""]/then/parent_id/locationevent/obsstartdate/_alt/2/_dateRangeStart/value",
14
eventDate,/location/locationevent/obsenddate/_alt/2/_dateRangeEnd/value,
15
eventDate,/location/locationevent/obsstartdate/_alt/2/_dateRangeStart/value,
16
recordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber,
17
catalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else",
18
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
19
collectionID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_join/2,
20
institutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcename/name,
21
id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode,
22
recordNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/1/_first/1",
23
scientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/2",
24
recordedBy,/location/locationevent/taxonoccurrence/collector_id/party/fullname,
25
id,"/location/locationevent/taxonoccurrence/iscultivated/_alt/1/_if[@name=""if TaxonOccurrence""]/cond/_exists",
26
recordNumber,"/location/locationevent/taxonoccurrence/iscultivated/_alt/1/_if[@name=""if TaxonOccurrence""]/cond/_exists",
27
id,/location/locationevent/taxonoccurrence/sourceaccessioncode/_first/3,
28
identifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/fullname,
29
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",
30
scientificName,"/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/1",
31
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",
32
specificEpithet,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/_if[@name=""if has verbatim name""]/else/matched_label_id/taxonlabel:[source_id/source/shortname=TNRS]/taxonomicname/_join_words/2/_alt/2/_join_words/1/_alt/2/_join_words/3/_join_words/1",
33
infraspecificEpithet,"/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/5/_join_words/1/_if[@name=""if has infraspecificEpithet""]/cond",
34
taxonRank,"/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/5/_join_words/1/_if[@name=""if has infraspecificEpithet""]/then",
35
infraspecificEpithet,"/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/5/_join_words/2",
36
scientificNameAuthorship,"/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/2",
37
dateIdentified,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/creationdate/_alt/1/_dateRangeStart/value,
38
taxonRank,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/_if[@name=""if has explicit parent""]/else/rank",
39
taxonRank,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/_if[@name=""if has explicit parent""]/else/taxonverbatim/verbatimrank",
40
specificEpithet,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=species]/taxonepithet",
41
genus,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=genus]/_if[@name=""if is canonical name""]/then/matched_label_id/taxonlabel:[source_id/source/shortname=NCBI]/taxonomicname",
42
genus,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=genus]/taxonepithet",
43
family,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,genus,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=family]/_if[@name=""if is canonical name""]/then/matched_label_id/taxonlabel:[source_id/source/shortname=NCBI]/taxonomicname",
44
family,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,genus,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=family]/taxonepithet",
45
order,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,genus,family,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=order]/taxonepithet",
46
class,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,genus,family,order,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=class]/taxonepithet",
47
phylum,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,genus,family,order,class,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=phylum]/taxonepithet",
48
kingdom,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,genus,family,order,class,phylum,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=kingdom]/taxonepithet",
49
infraspecificEpithet,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/taxonepithet,
50
taxonRank,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/rank,
51
taxonRank,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonepithet/_if[@name=""if taxonomic name is epithet""]/cond/_alt:[2=true]/1/_taxonomic_name_is_epithet/rank",
52
family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_join_words/1/_taxon_family_require_std/family,
53
scientificName,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_join_words/2/_alt/1,
54
genus,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_join_words/2/_alt/2/_join_words/1/_alt/2/_join_words/2,
55
specificEpithet,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_join_words/2/_alt/2/_join_words/1/_alt/2/_join_words/3/_join_words/1,
56
infraspecificEpithet,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_join_words/2/_alt/2/_join_words/1/_alt/2/_join_words/5/_join_words/1/_if[@name=""if has infraspecificEpithet""]/cond",
57
taxonRank,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_join_words/2/_alt/2/_join_words/1/_alt/2/_join_words/5/_join_words/1/_if[@name=""if has infraspecificEpithet""]/then",
58
infraspecificEpithet,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_join_words/2/_alt/2/_join_words/1/_alt/2/_join_words/5/_join_words/2,
59
scientificNameAuthorship,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_join_words/2/_alt/2/_join_words/2,
60
scientificNameAuthorship,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/author,
61
family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/family,
62
genus,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/genus,
63
specificEpithet,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/specific_epithet,
64
scientificName,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/taxonomicname,
65
taxonRank,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/verbatimrank,
66
dateIdentified,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/determinationdate/_alt/1/_dateRangeStart/value,
67
catalogNumber,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/then",
68
locality,/location/locationnarrative/_merge/1,
69
habitat,"/location/locationnarrative/_merge/3/_label[label=""habitat""]/value","Brad: Free-text description of vegetation community where collected, frequently redundane wrt 'Vegetation'. Bob, Nick: keep as user defined or create special element?"
70
decimalLatitude,"/location/locationplace/*_id/place/*_id/coordinates/latitude_deg/_nullIf:[null=0,type=float]/value",
71
decimalLongitude,"/location/locationplace/*_id/place/*_id/coordinates/longitude_deg/_nullIf:[null=0,type=float]/value",
72
continent,/location/locationplace/*_id/place/continent,
73
country,/location/locationplace/*_id/place/country,
74
county,/location/locationplace/*_id/place/county,
75
decimalLatitude,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/latitude_deg/_nullIf:[null=0,type=float]/value",""".,"" sorts it with other coordinates mappings"
76
decimalLongitude,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/longitude_deg/_nullIf:[null=0,type=float]/value",""".,"" sorts it with other coordinates mappings"
77
country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2,
78
county,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2,
79
stateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2,
80
stateProvince,/location/locationplace/*_id/place/stateprovince,
81
verbatimElevation,/location/verbatimelevation,
82
associatedMedia,,** No join mapping for associatedMedia ** 
83
basisOfRecord,,** No join mapping for basisOfRecord ** 
84
bibliographicCitation,,** No join mapping for dcterms:bibliographicCitation ** 
85
datasetID,,** No join mapping for datasetID ** 
86
datasetName,,** No join mapping for datasetName ** 
87
dynamicProperties,,** No join mapping for dynamicProperties ** 
88
geodeticDatum,,** No join mapping for geodeticDatum ** 
89
georeferenceSources,,** No join mapping for georeferenceSources ** 
90
georeferenceVerificationStatus,,** No join mapping for georeferenceVerificationStatus ** 
91
identificationRemarks,,** No join mapping for identificationRemarks ** 
92
informationWithheld,,** No join mapping for informationWithheld ** 
93
institutionID,,** No join mapping for institutionID ** 
94
language,,** No join mapping for dcterms:language ** 
95
locationRemarks,,** No join mapping for locationRemarks ** 
96
modified,,** No join mapping for dcterms:modified ** 
97
municipality,,** No join mapping for municipality ** 
98
nomenclaturalCode,,** No join mapping for nomenclaturalCode ** 
99
occurrenceRemarks,,** No join mapping for occurrenceRemarks ** 
100
ownerInstitutionCode,,** No join mapping for ownerInstitutionCode ** 
101
references,,** No join mapping for dcterms:references ** 
102
reproductiveCondition,,** No join mapping for reproductiveCondition ** 
103
rights,,** No join mapping for dcterms:rights ** 
104
rightsHolder,,** No join mapping for dcterms:rightsHolder ** 
105
type,,** No join mapping for dcterms:type ** 
106
verbatimCoordinateSystem,,** No join mapping for verbatimCoordinateSystem ** 
107
verbatimCoordinates,,** No join mapping for verbatimCoordinates ** 
108
verbatimDepth,,** No join mapping for verbatimDepth ** 
109
verbatimSRS,,** No join mapping for verbatimSRS ** 
110
waterBody,,** No join mapping for waterBody ** 
inputs/HIBG/Specimen/test.xml.ref
1
Put template:
2
<VegBIEN>
3
    <_simplifyPath id="-1">
4
        <next>parent_id</next>
5
        <path>
6
            <location>
7
                <authorlocationcode>
8
                    <_alt>
9
                        <1>$id</1>
10
                        <2>
11
                            <_join>
12
                                <1>$institutionCode</1>
13
                                <2>
14
                                    <_join>
15
                                        <1>$collectionCode</1>
16
                                        <2>$collectionID</2>
17
                                    </_join>
18
                                </2>
19
                                <3>$catalogNumber</3>
20
                            </_join>
21
                        </2>
22
                    </_alt>
23
                </authorlocationcode>
24
                <elevation_m>
25
                    <_units>
26
                        <to>m</to>
27
                        <to></to>
28
                        <value>$verbatimElevation</value>
29
                    </_units>
30
                </elevation_m>
31
                <locationevent>
32
                    <obsenddate><_dateRangeEnd><value>$eventDate</value></_dateRangeEnd></obsenddate>
33
                    <obsstartdate><_dateRangeStart><value>$eventDate</value></_dateRangeStart></obsstartdate>
34
                    <taxonoccurrence>
35
                        <aggregateoccurrence>
36
                            <plantobservation>
37
                                <collectionnumber>$recordNumber</collectionnumber>
38
                                <specimenreplicate>
39
                                    <catalognumber_dwc>$catalogNumber</catalognumber_dwc>
40
                                    <collectioncode_dwc>
41
                                        <_join>
42
                                            <1>$collectionCode</1>
43
                                            <2>$collectionID</2>
44
                                        </_join>
45
                                    </collectioncode_dwc>
46
                                    <institution_id><sourcename><name>$institutionCode</name></sourcename></institution_id>
47
                                    <sourceaccessioncode>$id</sourceaccessioncode>
48
                                </specimenreplicate>
49
                            </plantobservation>
50
                        </aggregateoccurrence>
51
                        <collector_id><party><fullname>$recordedBy</fullname></party></collector_id>
52
                        <sourceaccessioncode>$id</sourceaccessioncode>
53
                        <taxondetermination>
54
                            <party_id><party><fullname>$identifiedBy</fullname></party></party_id>
55
                            <taxonverbatim_id>
56
                                <taxonverbatim>
57
                                    <taxonlabel_id>
58
                                        <taxonlabel>
59
                                            <matched_label_id>
60
                                                <taxonlabel>
61
                                                    <source_id><source><shortname>TNRS</shortname></source></source_id>
62
                                                    <taxonomicname>
63
                                                        <_join_words>
64
                                                            <1><_taxon_family_require_std><family>$family</family></_taxon_family_require_std></1>
65
                                                            <2>
66
                                                                <_alt>
67
                                                                    <1>$scientificName</1>
68
                                                                    <2>
69
                                                                        <_join_words>
70
                                                                            <1>
71
                                                                                <_join_words>
72
                                                                                    <2>$genus</2>
73
                                                                                    <3>$specificEpithet</3>
74
                                                                                    <5>
75
                                                                                        <_join_words>
76
                                                                                            <1>
77
                                                                                                <_if name="if has infraspecificEpithet">
78
                                                                                                    <cond>$infraspecificEpithet</cond>
79
                                                                                                    <then>$taxonRank</then>
80
                                                                                                </_if>
81
                                                                                            </1>
82
                                                                                            <2>$infraspecificEpithet</2>
83
                                                                                        </_join_words>
84
                                                                                    </5>
85
                                                                                </_join_words>
86
                                                                            </1>
87
                                                                            <2>$scientificNameAuthorship</2>
88
                                                                        </_join_words>
89
                                                                    </2>
90
                                                                </_alt>
91
                                                            </2>
92
                                                        </_join_words>
93
                                                    </taxonomicname>
94
                                                </taxonlabel>
95
                                            </matched_label_id>
96
                                            <creationdate><_dateRangeStart><value>$dateIdentified</value></_dateRangeStart></creationdate>
97
                                            <parent_id>
98
                                                <taxonlabel>
99
                                                    <rank>$taxonRank</rank>
100
                                                    <taxonverbatim><verbatimrank>$taxonRank</verbatimrank></taxonverbatim>
101
                                                    <parent_id>
102
                                                        <taxonlabel>
103
                                                            <rank>cultivar</rank>
104
                                                            <parent_id>
105
                                                                <taxonlabel>
106
                                                                    <rank>forma</rank>
107
                                                                    <parent_id>
108
                                                                        <taxonlabel>
109
                                                                            <rank>variety</rank>
110
                                                                            <parent_id>
111
                                                                                <taxonlabel>
112
                                                                                    <rank>subspecies</rank>
113
                                                                                    <parent_id>
114
                                                                                        <taxonlabel>
115
                                                                                            <rank>species</rank>
116
                                                                                            <taxonepithet>$specificEpithet</taxonepithet>
117
                                                                                            <parent_id>
118
                                                                                                <taxonlabel>
119
                                                                                                    <rank>genus</rank>
120
                                                                                                    <taxonepithet>$genus</taxonepithet>
121
                                                                                                    <parent_id>
122
                                                                                                        <taxonlabel>
123
                                                                                                            <rank>family</rank>
124
                                                                                                            <taxonepithet>$family</taxonepithet>
125
                                                                                                            <parent_id>
126
                                                                                                                <taxonlabel>
127
                                                                                                                    <rank>order</rank>
128
                                                                                                                    <taxonepithet>$order</taxonepithet>
129
                                                                                                                    <parent_id>
130
                                                                                                                        <taxonlabel>
131
                                                                                                                            <rank>class</rank>
132
                                                                                                                            <taxonepithet>$class</taxonepithet>
133
                                                                                                                            <parent_id>
134
                                                                                                                                <taxonlabel>
135
                                                                                                                                    <rank>phylum</rank>
136
                                                                                                                                    <taxonepithet>$phylum</taxonepithet>
137
                                                                                                                                    <parent_id>
138
                                                                                                                                        <taxonlabel>
139
                                                                                                                                            <rank>kingdom</rank>
140
                                                                                                                                            <taxonepithet>$kingdom</taxonepithet>
141
                                                                                                                                        </taxonlabel>
142
                                                                                                                                    </parent_id>
143
                                                                                                                                </taxonlabel>
144
                                                                                                                            </parent_id>
145
                                                                                                                        </taxonlabel>
146
                                                                                                                    </parent_id>
147
                                                                                                                </taxonlabel>
148
                                                                                                            </parent_id>
149
                                                                                                        </taxonlabel>
150
                                                                                                    </parent_id>
151
                                                                                                </taxonlabel>
152
                                                                                            </parent_id>
153
                                                                                        </taxonlabel>
154
                                                                                    </parent_id>
155
                                                                                </taxonlabel>
156
                                                                            </parent_id>
157
                                                                        </taxonlabel>
158
                                                                    </parent_id>
159
                                                                </taxonlabel>
160
                                                            </parent_id>
161
                                                        </taxonlabel>
162
                                                    </parent_id>
163
                                                    <taxonepithet>$infraspecificEpithet</taxonepithet>
164
                                                </taxonlabel>
165
                                            </parent_id>
166
                                            <rank>$taxonRank</rank>
167
                                            <taxonomicname>
168
                                                <_join_words>
169
                                                    <1><_taxon_family_require_std><family>$family</family></_taxon_family_require_std></1>
170
                                                    <2>
171
                                                        <_alt>
172
                                                            <1>$scientificName</1>
173
                                                            <2>
174
                                                                <_join_words>
175
                                                                    <1>
176
                                                                        <_join_words>
177
                                                                            <2>$genus</2>
178
                                                                            <3>$specificEpithet</3>
179
                                                                            <5>
180
                                                                                <_join_words>
181
                                                                                    <1>
182
                                                                                        <_if name="if has infraspecificEpithet">
183
                                                                                            <cond>$infraspecificEpithet</cond>
184
                                                                                            <then>$taxonRank</then>
185
                                                                                        </_if>
186
                                                                                    </1>
187
                                                                                    <2>$infraspecificEpithet</2>
188
                                                                                </_join_words>
189
                                                                            </5>
190
                                                                        </_join_words>
191
                                                                    </1>
192
                                                                    <2>$scientificNameAuthorship</2>
193
                                                                </_join_words>
194
                                                            </2>
195
                                                        </_alt>
196
                                                    </2>
197
                                                </_join_words>
198
                                            </taxonomicname>
199
                                        </taxonlabel>
200
                                    </taxonlabel_id>
201
                                    <author>$scientificNameAuthorship</author>
202
                                    <family>$family</family>
203
                                    <genus>$genus</genus>
204
                                    <specific_epithet>$specificEpithet</specific_epithet>
205
                                    <taxonomicname>$scientificName</taxonomicname>
206
                                    <verbatimrank>$taxonRank</verbatimrank>
207
                                </taxonverbatim>
208
                            </taxonverbatim_id>
209
                            <determinationdate><_dateRangeStart><value>$dateIdentified</value></_dateRangeStart></determinationdate>
210
                        </taxondetermination>
211
                    </taxonoccurrence>
212
                </locationevent>
213
                <locationnarrative>
214
                    <_merge>
215
                        <1>$locality</1>
216
                        <3>
217
                            <_label>
218
                                <label>habitat</label>
219
                                <value>$habitat</value>
220
                            </_label>
221
                        </3>
222
                    </_merge>
223
                </locationnarrative>
224
                <locationplace>
225
                    <place_id>
226
                        <place>
227
                            <coordinates_id>
228
                                <coordinates>
229
                                    <latitude_deg>
230
                                        <_nullIf>
231
                                            <null>0</null>
232
                                            <type>float</type>
233
                                            <value>$decimalLatitude</value>
234
                                        </_nullIf>
235
                                    </latitude_deg>
236
                                    <longitude_deg>
237
                                        <_nullIf>
238
                                            <null>0</null>
239
                                            <type>float</type>
240
                                            <value>$decimalLongitude</value>
241
                                        </_nullIf>
242
                                    </longitude_deg>
243
                                </coordinates>
244
                            </coordinates_id>
245
                            <continent>$continent</continent>
246
                            <country>$country</country>
247
                            <county>$county</county>
248
                            <matched_place_id>
249
                                <place>
250
                                    <source_id><source><shortname>geoscrub</shortname></source></source_id>
251
                                    <coordinates_id>
252
                                        <coordinates>
253
                                            <source_id><source><shortname>geoscrub</shortname></source></source_id>
254
                                            <latitude_deg>
255
                                                <_nullIf>
256
                                                    <null>0</null>
257
                                                    <type>float</type>
258
                                                    <value>$decimalLatitude</value>
259
                                                </_nullIf>
260
                                            </latitude_deg>
261
                                            <longitude_deg>
262
                                                <_nullIf>
263
                                                    <null>0</null>
264
                                                    <type>float</type>
265
                                                    <value>$decimalLongitude</value>
266
                                                </_nullIf>
267
                                            </longitude_deg>
268
                                        </coordinates>
269
                                    </coordinates_id>
270
                                    <country>$country</country>
271
                                    <county>$county</county>
272
                                    <stateprovince>$stateProvince</stateprovince>
273
                                </place>
274
                            </matched_place_id>
275
                            <stateprovince>$stateProvince</stateprovince>
276
                        </place>
277
                    </place_id>
278
                </locationplace>
279
                <verbatimelevation>$verbatimElevation</verbatimelevation>
280
            </location>
281
        </path>
282
    </_simplifyPath>
283
</VegBIEN>
284
Inserted 39 new rows into database
inputs/HIBG/Specimen/unmapped_terms.csv
1
dcterms:rightsHolder
2
verbatimSRS
3
dcterms:references
4
institutionID
5
verbatimCoordinateSystem
6
locationRemarks
7
reproductiveCondition
8
dynamicProperties
9
basisOfRecord
10
georeferenceSources
11
datasetName
12
dcterms:bibliographicCitation
13
datasetID
14
informationWithheld
15
verbatimDepth
16
geodeticDatum
17
associatedMedia
18
nomenclaturalCode
19
waterBody
20
dcterms:rights
21
dcterms:modified
22
verbatimCoordinates
23
identificationRemarks
24
georeferenceVerificationStatus
25
occurrenceRemarks
26
municipality
27
dcterms:type
28
dcterms:language
29
ownerInstitutionCode

Also available in: Unified diff