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1 4651 aaronmk
REMIB,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 4950 aaronmk
accession_number,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/cond/_exists","Not globally unique, only (usually) unique within the institution providing the data (""acronym""). Note that there are nevertheless 11,869 rows where an accession_number appears multiple times within the same institution. [1]
3
4
[1] Using the following query:
5
-----
6
SELECT acronym, accession_number, count(*)
7
FROM ""REMIB"".""Specimen""
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GROUP BY acronym, accession_number
9
HAVING count(*) > 1
10
-----"
11 4949 aaronmk
acronym,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/1",
12 4950 aaronmk
accession_number,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/3/_if[@name=""if indirect voucher""]/else","Not globally unique, only (usually) unique within the institution providing the data (""acronym""). Note that there are nevertheless 11,869 rows where an accession_number appears multiple times within the same institution. [1]
13
14
[1] Using the following query:
15
-----
16
SELECT acronym, accession_number, count(*)
17
FROM ""REMIB"".""Specimen""
18
GROUP BY acronym, accession_number
19
HAVING count(*) > 1
20
-----"
21 4566 aaronmk
coll_day,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_alt/2/_date/day/_nullIf:[null=0,type=float]/value",
22
coll_month,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_alt/2/_date/month/_nullIf:[null=0,type=float]/value",
23
coll_year,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_alt/2/_date/year/_nullIf:[null=0,type=float]/value",
24 4950 aaronmk
accession_number,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else","Not globally unique, only (usually) unique within the institution providing the data (""acronym""). Note that there are nevertheless 11,869 rows where an accession_number appears multiple times within the same institution. [1]
25
26
[1] Using the following query:
27
-----
28
SELECT acronym, accession_number, count(*)
29
FROM ""REMIB"".""Specimen""
30
GROUP BY acronym, accession_number
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HAVING count(*) > 1
32
-----"
33 6149 aaronmk
acronym,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/referencename/name,
34 6171 aaronmk
collector,/location/locationevent/taxonoccurrence/collector_id/party/fullname,
35 5953 aaronmk
family,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/_if[@name=""if has verbatim name""]/else/matched_label_id/taxonlabel:[reference_id/reference/shortname=TNRS]/taxonomicname/_join_words/1/_taxon_family_require_std/family",
36
genus,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/_if[@name=""if has verbatim name""]/else/matched_label_id/taxonlabel:[reference_id/reference/shortname=TNRS]/taxonomicname/_join_words/2/_alt/2/_join_words/1/_alt/2/_join_words/2",
37
specificEpithet,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/_if[@name=""if has verbatim name""]/else/matched_label_id/taxonlabel:[reference_id/reference/shortname=TNRS]/taxonomicname/_join_words/2/_alt/2/_join_words/1/_alt/2/_join_words/3/_join_words/1",
38 5657 aaronmk
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",
39 5953 aaronmk
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:[reference_id/reference/shortname=NCBI]/taxonomicname",
40 5657 aaronmk
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",
41 5953 aaronmk
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:[reference_id/reference/shortname=NCBI]/taxonomicname",
42 5657 aaronmk
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",
43 5790 aaronmk
family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_join_words/1/_taxon_family_require_std/family,
44 5788 aaronmk
genus,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_join_words/2/_alt/2/_join_words/1/_alt/2/_join_words/2,
45
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,
46 5657 aaronmk
family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/family,
47
genus,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/genus,
48 5783 aaronmk
specificEpithet,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/specific_epithet,
49 4950 aaronmk
accession_number,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/then","Not globally unique, only (usually) unique within the institution providing the data (""acronym""). Note that there are nevertheless 11,869 rows where an accession_number appears multiple times within the same institution. [1]
50
51
[1] Using the following query:
52
-----
53
SELECT acronym, accession_number, count(*)
54
FROM ""REMIB"".""Specimen""
55
GROUP BY acronym, accession_number
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HAVING count(*) > 1
57
-----"
58 3969 aaronmk
locality,/location/locationnarrative/_merge/1,
59
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?"
60 5861 aaronmk
lat_deg,"/location/locationplace/*_id/place/*_id/coordinates/latitude_deg/_nullIf:[null=0,type=float]/value",
61
long_deg,"/location/locationplace/*_id/place/*_id/coordinates/longitude_deg/_nullIf:[null=0,type=float]/value",
62 5855 aaronmk
country,/location/locationplace/*_id/place/country,
63
county,/location/locationplace/*_id/place/county,
64 6123 aaronmk
lat_deg,"/location/locationplace/*_id/place/matched_place_id/place:[.,reference_id/reference/shortname=geoscrub]/*_id/coordinates:[reference_id/reference/shortname=geoscrub]/_first/2/latitude_deg/_nullIf:[null=0,type=float]/value",""".,"" sorts it with other coordinates mappings"
65
long_deg,"/location/locationplace/*_id/place/matched_place_id/place:[.,reference_id/reference/shortname=geoscrub]/*_id/coordinates:[reference_id/reference/shortname=geoscrub]/_first/2/longitude_deg/_nullIf:[null=0,type=float]/value",""".,"" sorts it with other coordinates mappings"
66 5958 aaronmk
country,/location/locationplace/*_id/place/matched_place_id/place:[reference_id/reference/shortname=geoscrub]/country/_first/2,
67
state,/location/locationplace/*_id/place/matched_place_id/place:[reference_id/reference/shortname=geoscrub]/stateprovince/_first/2,
68 5855 aaronmk
state,/location/locationplace/*_id/place/stateprovince,
69 4979 aaronmk
lat_min,,** No join mapping for *lat_min **
70
lat_sec,,** No join mapping for *lat_sec **
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long_min,,** No join mapping for *long_min **
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long_sec,,** No join mapping for *long_sec **
73 4638 aaronmk
preparation,,** No join mapping for preparations **