| 1 |
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REMIB,VegBIEN:/_setDefault:[source_id/source/shortname/_env:[name=source]]/path/_simplifyPath:[next=parent_id]/path,Comments
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| 2 |
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accession_number,"/_if[@name=""if specimen""]/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]
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| 3 |
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| 4 |
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[1] Using the following query:
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| 5 |
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-----
|
| 6 |
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SELECT acronym, accession_number, count(*)
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| 7 |
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FROM ""REMIB"".""Specimen""
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| 8 |
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GROUP BY acronym, accession_number
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| 9 |
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HAVING count(*) > 1
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| 10 |
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-----"
|
| 11 |
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acronym,"/_if[@name=""if specimen""]/else/source/shortname/_first/1",
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| 12 |
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accession_number,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_if[@name=""if plot""]/else/_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]
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| 13 |
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| 14 |
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[1] Using the following query:
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| 15 |
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-----
|
| 16 |
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SELECT acronym, accession_number, count(*)
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| 17 |
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FROM ""REMIB"".""Specimen""
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| 18 |
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GROUP BY acronym, accession_number
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| 19 |
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HAVING count(*) > 1
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| 20 |
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-----"
|
| 21 |
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accession_number,"/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""]/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]
|
| 22 |
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|
| 23 |
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[1] Using the following query:
|
| 24 |
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-----
|
| 25 |
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SELECT acronym, accession_number, count(*)
|
| 26 |
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FROM ""REMIB"".""Specimen""
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| 27 |
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GROUP BY acronym, accession_number
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| 28 |
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HAVING count(*) > 1
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| 29 |
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-----"
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| 30 |
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acronym,"/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/_first/2",
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| 31 |
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accession_number,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_if[@name=""if plot""]/else/_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]
|
| 32 |
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|
| 33 |
|
[1] Using the following query:
|
| 34 |
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-----
|
| 35 |
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SELECT acronym, accession_number, count(*)
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| 36 |
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FROM ""REMIB"".""Specimen""
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| 37 |
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GROUP BY acronym, accession_number
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| 38 |
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HAVING count(*) > 1
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| 39 |
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-----"
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| 40 |
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locality,/location/iscultivated/_or/2/_locationnarrative_is_cultivated/locationnarrative/_join/1,
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| 41 |
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habitat,/location/iscultivated/_or/2/_locationnarrative_is_cultivated/locationnarrative/_join/3,
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| 42 |
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coll_day,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_alt/2/_date/day/_nullIf:[null=0,type=float]/value",
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| 43 |
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coll_month,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_alt/2/_date/month/_nullIf:[null=0,type=float]/value",
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| 44 |
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coll_year,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_alt/2/_date/year/_nullIf:[null=0,type=float]/value",
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| 45 |
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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]
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| 46 |
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|
| 47 |
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[1] Using the following query:
|
| 48 |
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-----
|
| 49 |
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SELECT acronym, accession_number, count(*)
|
| 50 |
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FROM ""REMIB"".""Specimen""
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| 51 |
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GROUP BY acronym, accession_number
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| 52 |
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HAVING count(*) > 1
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| 53 |
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-----"
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| 54 |
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accession_number,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/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]
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| 55 |
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|
| 56 |
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[1] Using the following query:
|
| 57 |
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-----
|
| 58 |
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SELECT acronym, accession_number, count(*)
|
| 59 |
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FROM ""REMIB"".""Specimen""
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| 60 |
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GROUP BY acronym, accession_number
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| 61 |
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HAVING count(*) > 1
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| 62 |
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-----"
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| 63 |
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acronym,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name/_first/2",
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| 64 |
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acronym,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_first/2/_split:[separator=""[,;] *""]/value",
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| 65 |
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collector,/location/locationevent/taxonoccurrence/collector_id/party/fullname,
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| 66 |
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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",
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| 67 |
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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",
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| 68 |
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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",
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| 69 |
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family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/prefix/_taxon_family_require_std/family,
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| 70 |
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genus,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/2/_filter_genus/value,
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| 71 |
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specificEpithet,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/3/_join_words/1,
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| 72 |
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family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/family,
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| 73 |
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genus,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/genus,
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| 74 |
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specificEpithet,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/specific_epithet,
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| 75 |
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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]
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| 76 |
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|
| 77 |
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[1] Using the following query:
|
| 78 |
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-----
|
| 79 |
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SELECT acronym, accession_number, count(*)
|
| 80 |
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FROM ""REMIB"".""Specimen""
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| 81 |
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GROUP BY acronym, accession_number
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| 82 |
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HAVING count(*) > 1
|
| 83 |
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-----"
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| 84 |
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locality,/location/locationnarrative/_merge/1,
|
| 85 |
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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?"
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| 86 |
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latitude_deg,/location/locationplace/*_id/place/*_id/coordinates/latitude_deg/_dms_to_dd/deg,
|
| 87 |
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latitude_min,/location/locationplace/*_id/place/*_id/coordinates/latitude_deg/_dms_to_dd/min,
|
| 88 |
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latitude_sec,/location/locationplace/*_id/place/*_id/coordinates/latitude_deg/_dms_to_dd/sec,
|
| 89 |
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longitude_deg,/location/locationplace/*_id/place/*_id/coordinates/longitude_deg/_dms_to_dd/deg,
|
| 90 |
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longitude_min,/location/locationplace/*_id/place/*_id/coordinates/longitude_deg/_dms_to_dd/min,
|
| 91 |
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longitude_sec,/location/locationplace/*_id/place/*_id/coordinates/longitude_deg/_dms_to_dd/sec,
|
| 92 |
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country,/location/locationplace/*_id/place/country,
|
| 93 |
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county,/location/locationplace/*_id/place/county,
|
| 94 |
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latitude_deg,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/latitude_deg/_dms_to_dd/deg",
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| 95 |
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latitude_min,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/latitude_deg/_dms_to_dd/min",
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| 96 |
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latitude_sec,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/latitude_deg/_dms_to_dd/sec",
|
| 97 |
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longitude_deg,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/longitude_deg/_dms_to_dd/deg",
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| 98 |
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longitude_min,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/longitude_deg/_dms_to_dd/min",
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| 99 |
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longitude_sec,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/longitude_deg/_dms_to_dd/sec",
|
| 100 |
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country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2,
|
| 101 |
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county,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2,
|
| 102 |
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stateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2,
|
| 103 |
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stateProvince,/location/locationplace/*_id/place/stateprovince,
|
| 104 |
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country,,** No join mapping for country_verbatim **
|
| 105 |
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county,,** No join mapping for county_verbatim **
|
| 106 |
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habitat,,** No join mapping for habitat_verbatim **
|
| 107 |
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lat_deg,,** No join mapping for latitude_deg_verbatim **
|
| 108 |
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lat_min,,** No join mapping for latitude_min_verbatim **
|
| 109 |
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lat_sec,,** No join mapping for latitude_sec_verbatim **
|
| 110 |
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locality,,** No join mapping for locality_verbatim **
|
| 111 |
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long_deg,,** No join mapping for longitude_deg_verbatim **
|
| 112 |
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long_min,,** No join mapping for longitude_min_verbatim **
|
| 113 |
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long_sec,,** No join mapping for longitude_sec_verbatim **
|
| 114 |
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preparation,,** No join mapping for preparations **
|
| 115 |
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row_num,,** No join mapping for *row_num **
|
| 116 |
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state,,** No join mapping for stateProvince_verbatim **
|
|
1 |
link ../../../mappings/VegCore-VegBIEN.csv
|
| 117 |
2 |
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inputs/REMIB/: switched to new-style import, using the steps at wiki.vegpath.org/Switching_to_new-style_import#stage-I-source-specific > "run the following for each datasource"