Revision 4814
Added by Aaron Marcuse-Kubitza about 12 years ago
inputs/XAL/Specimen/map.csv | ||
---|---|---|
19 | 19 |
darwin:MonthIdentified,monthIdentified,, |
20 | 20 |
darwin:DayIdentified,dayIdentified,, |
21 | 21 |
darwin:TypeStatus,TypeStatus,, |
22 |
darwin:CollectorNumber,recordNumber,/_alt/1,
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23 |
darwin:FieldNumber,recordNumber,/_alt/2,"This historical DwC term (http://rs.tdwg.org/dwc/terms/history/index.htm#fieldNumber-2009-04-24) has close to the same meaning as recordNumber (http://rs.tdwg.org/dwc/terms/#recordNumber). It is also unused: `grep -F ""<darwin:FieldNumber>"" inputs/XAL/src/digir.specimens.xml` returns no lines."
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22 |
darwin:CollectorNumber,recordNumber,, |
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23 |
darwin:FieldNumber,UNUSED,,"`grep -F ""<darwin:FieldNumber>"" inputs/XAL/src/digir.specimens.xml` returns no lines. This historical DwC term (http://rs.tdwg.org/dwc/terms/history/index.htm#fieldNumber-2009-04-24) has close to the same meaning as recordNumber (http://rs.tdwg.org/dwc/terms/#recordNumber)."
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24 | 24 |
darwin:Collector,recordedBy,, |
25 | 25 |
darwin:YearCollected,yearCollected,, |
26 | 26 |
darwin:MonthCollected,monthCollected,, |
inputs/XAL/Specimen/VegBIEN.csv | ||
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15 | 15 |
darwin:YearCollected,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_alt/2/_date/year/_nullIf:[null=0,type=float]/value", |
16 | 16 |
darwin:IndividualCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/count, |
17 | 17 |
darwin:Notes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes, |
18 |
darwin:CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/1, |
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19 |
darwin:FieldNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber/_alt/2,"This historical DwC term (http://rs.tdwg.org/dwc/terms/history/index.htm#fieldNumber-2009-04-24) has close to the same meaning as recordNumber (http://rs.tdwg.org/dwc/terms/#recordNumber). It is also unused: `grep -F ""<darwin:FieldNumber>"" inputs/XAL/src/digir.specimens.xml` returns no lines." |
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18 |
darwin:CollectorNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/collectionnumber, |
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20 | 19 |
darwin:Sex,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]:[@fkey=tablerecord_id]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
21 | 20 |
darwin:CatalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
22 | 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 |
23 | 22 |
darwin:InstitutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname, |
24 |
darwin:CollectorNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/1, |
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25 |
darwin:FieldNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/2,"This historical DwC term (http://rs.tdwg.org/dwc/terms/history/index.htm#fieldNumber-2009-04-24) has close to the same meaning as recordNumber (http://rs.tdwg.org/dwc/terms/#recordNumber). It is also unused: `grep -F ""<darwin:FieldNumber>"" inputs/XAL/src/digir.specimens.xml` returns no lines." |
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23 |
darwin:CollectorNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1, |
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26 | 24 |
darwin:ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3, |
27 | 25 |
darwin:IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/givenname/_namePart/first, |
28 | 26 |
darwin:IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/middlename/_namePart/middle, |
... | ... | |
51 | 49 |
darwin:StateProvince,/location/locationplace/*_id/placepath/stateprovince, |
52 | 50 |
darwin:BasisOfRecord,,** No join mapping for BasisOfRecord ** |
53 | 51 |
darwin:DateLastModified,,** No join mapping for dcterms:modified ** |
52 |
darwin:FieldNumber,,"** No join mapping for UNUSED ** `grep -F ""<darwin:FieldNumber>"" inputs/XAL/src/digir.specimens.xml` returns no lines. This historical DwC term (http://rs.tdwg.org/dwc/terms/history/index.htm#fieldNumber-2009-04-24) has close to the same meaning as recordNumber (http://rs.tdwg.org/dwc/terms/#recordNumber)." |
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54 | 53 |
darwin:JulianDay,,** No join mapping for day ** |
55 | 54 |
darwin:PreparationType,,** No join mapping for preparations ** |
56 | 55 |
darwin:PreviousCatalogNumber,,** No join mapping for otherCatalogNumbers ** |
inputs/XAL/Specimen/unmapped_terms.csv | ||
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1 | 1 |
dcterms:modified |
2 | 2 |
BasisOfRecord |
3 | 3 |
TypeStatus |
4 |
UNUSED |
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4 | 5 |
day |
5 | 6 |
eventTime |
6 | 7 |
preparations |
inputs/NY/Specimen/map.csv | ||
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1 | 1 |
NY,VegCore,Filter,Comments |
2 |
key,key,,Not used because UniqueNYInternalRecordNumber is a better pkey
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2 |
key,OMIT,,UniqueNYInternalRecordNumber is a better pkey
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3 | 3 |
DateLastModified,dcterms:modified,, |
4 | 4 |
InstitutionCode,institutionCode,, |
5 | 5 |
CollectionCode,collectionCode,, |
... | ... | |
20 | 20 |
MonthIdentified,monthIdentified,, |
21 | 21 |
DayIdentified,dayIdentified,, |
22 | 22 |
TypeStatus,TypeStatus,, |
23 |
CollectorNumber,OMIT,,"Not used [1], so does not need to be mapped. |
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24 |
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25 |
[1] The following query returns no rows: SELECT * FROM ""NY"".""Specimen"" WHERE ""CollectorNumber"" IS NOT NULL" |
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23 |
CollectorNumber,UNUSED,, |
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26 | 24 |
FieldNumber,recordNumber,,Usage inconsistent with DwC definition |
27 | 25 |
Collector,recordedBy,, |
28 | 26 |
YearCollected,yearCollected,, |
inputs/NY/Specimen/VegBIEN.csv | ||
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55 | 55 |
County,/location/locationplace/*_id/placepath/county, |
56 | 56 |
StateProvince,/location/locationplace/*_id/placepath/stateprovince, |
57 | 57 |
BasisOfRecord,,** No join mapping for BasisOfRecord ** |
58 |
CollectorNumber,,"** No join mapping for OMIT ** Not used [1], so does not need to be mapped. |
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59 |
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60 |
[1] The following query returns no rows: SELECT * FROM ""NY"".""Specimen"" WHERE ""CollectorNumber"" IS NOT NULL" |
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58 |
CollectorNumber,,** No join mapping for UNUSED ** |
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61 | 59 |
DateLastModified,,** No join mapping for dcterms:modified ** |
62 | 60 |
JulianDay,,** No join mapping for day ** |
63 | 61 |
PreparationType,,** No join mapping for preparations ** |
... | ... | |
66 | 64 |
RelationshipType,,** No join mapping for relationshipOfResource ** |
67 | 65 |
TimeOfDay,,** No join mapping for eventTime ** |
68 | 66 |
TypeStatus,,** No join mapping for TypeStatus ** |
69 |
key,,** No join mapping for key ** Not used because UniqueNYInternalRecordNumber is a better pkey |
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67 |
key,,** No join mapping for OMIT ** UniqueNYInternalRecordNumber is a better pkey |
inputs/NY/Specimen/new_terms.csv | ||
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1 |
key |
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1 | 2 |
PlantFungusDescription |
2 | 3 |
Substrate |
3 | 4 |
Vegetation |
inputs/NY/Specimen/unmapped_terms.csv | ||
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1 |
key
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1 |
OMIT
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2 | 2 |
dcterms:modified |
3 | 3 |
BasisOfRecord |
4 | 4 |
TypeStatus |
5 |
OMIT
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5 |
UNUSED
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6 | 6 |
day |
7 | 7 |
eventTime |
8 | 8 |
preparations |
inputs/CVS/Organism/map.csv | ||
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1 | 1 |
CVS,VegCore,Filter,Comments |
2 | 2 |
authorObsCode,fieldNumber,, |
3 | 3 |
obsStartDate,startDate,, |
4 |
realLatitude,OMIT,,
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5 |
realLongitude,OMIT,,
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4 |
realLatitude,PRIVATE,,
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5 |
realLongitude,PRIVATE,,
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6 | 6 |
locationAccuracy-m,coordinateUncertaintyInMeters,, |
7 | 7 |
publicLatitude,decimalLatitude,, |
8 | 8 |
publicLongitude,decimalLongitude,, |
inputs/CVS/Organism/VegBIEN.csv | ||
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13 | 13 |
county,/location/locationplace/*_id/placepath/county, |
14 | 14 |
state,/location/locationplace/*_id/placepath/stateprovince, |
15 | 15 |
confidentialityStatus,,** No join mapping for confidentialityStatus ** |
16 |
realLatitude,,** No join mapping for OMIT ** |
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17 |
realLongitude,,** No join mapping for OMIT ** |
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16 |
realLatitude,,** No join mapping for PRIVATE ** |
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17 |
realLongitude,,** No join mapping for PRIVATE ** |
inputs/CVS/Organism/unmapped_terms.csv | ||
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1 |
OMIT
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2 |
OMIT
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1 |
PRIVATE
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2 |
PRIVATE
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3 | 3 |
confidentialityStatus |
inputs/CTFS/TaxonOccurrence/map.csv | ||
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11 | 11 |
SubSpeciesName,subspecies,, |
12 | 12 |
SubSpeciesMnemonic,SubSpeciesMnemonic,, |
13 | 13 |
SubSpeciesAuthority,SubSpeciesAuthority,, |
14 |
InfraSpecificLevel,InfraSpecificLevel,,"Not used, as the following query returns zero: |
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15 |
----- |
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16 |
SELECT COUNT(*) FROM ""CTFS"".""InfraspecificEpithet.src"" |
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17 |
WHERE ""InfraSpecificLevel"" IS NOT NULL |
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18 |
-----" |
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14 |
InfraSpecificLevel,UNUSED,, |
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19 | 15 |
SpeciesCurrentTaxonFlag,SpeciesCurrentTaxonFlag,, |
20 | 16 |
SpeciesObsoleteTaxonFlag,SpeciesObsoleteTaxonFlag,, |
21 | 17 |
SpeciesReferenceID,SpeciesReferenceID,, |
inputs/CTFS/TaxonOccurrence/VegBIEN.csv | ||
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18 | 18 |
GenusID,,** No join mapping for GenusID ** |
19 | 19 |
GenusReferenceID,,** No join mapping for GenusReferenceID ** |
20 | 20 |
IDLevel,,** No join mapping for IDLevel ** |
21 |
InfraSpecificLevel,,"** No join mapping for InfraSpecificLevel ** Not used, as the following query returns zero: |
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22 |
----- |
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23 |
SELECT COUNT(*) FROM ""CTFS"".""InfraspecificEpithet.src"" |
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24 |
WHERE ""InfraSpecificLevel"" IS NOT NULL |
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25 |
-----" |
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21 |
InfraSpecificLevel,,** No join mapping for UNUSED ** |
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26 | 22 |
ReferenceID,,** No join mapping for ReferenceID ** |
27 | 23 |
SpeciesAuthority,,** No join mapping for SpeciesAuthority ** |
28 | 24 |
SpeciesCurrentTaxonFlag,,** No join mapping for SpeciesCurrentTaxonFlag ** |
inputs/CTFS/TaxonOccurrence/unmapped_terms.csv | ||
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6 | 6 |
SubSpeciesObsoleteTaxonFlag |
7 | 7 |
SubSpeciesMnemonic |
8 | 8 |
SubSpeciesAuthority |
9 |
InfraSpecificLevel
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9 |
UNUSED
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10 | 10 |
SpeciesCurrentTaxonFlag |
11 | 11 |
SpeciesObsoleteTaxonFlag |
12 | 12 |
SpeciesReferenceID |
inputs/U/Specimen/map.csv | ||
---|---|---|
2 | 2 |
ID,occurrenceID,, |
3 | 3 |
Barcode,catalogNumber,, |
4 | 4 |
Collector,recordedBy,/_join/1, |
5 |
Prefix,Prefix,,Not used
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5 |
Prefix,UNUSED,,
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6 | 6 |
Number,recordNumber,, |
7 |
Suffix,Suffix,,Not used
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7 |
Suffix,UNUSED,,
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8 | 8 |
Addcoll,recordedBy,/_join/2, |
9 | 9 |
Colldd,dayCollected,, |
10 | 10 |
Collmm,monthCollected,, |
11 | 11 |
Collyy,yearCollected,, |
12 |
DateInfo,DateInfo,,Not used
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12 |
DateInfo,UNUSED,,
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13 | 13 |
Family,family,, |
14 | 14 |
Genus,genus,, |
15 | 15 |
cf,identificationQualifier,, |
inputs/U/Specimen/VegBIEN.csv | ||
---|---|---|
29 | 29 |
Alt,,** No join mapping for Alt ** What is this? |
30 | 30 |
Alt2,,** No join mapping for Alt2 ** What is this? |
31 | 31 |
Coorsyst,,** No join mapping for Coorsyst ** |
32 |
DateInfo,,** No join mapping for DateInfo ** Not used
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32 |
DateInfo,,** No join mapping for UNUSED **
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33 | 33 |
EW,,** No join mapping for EW ** |
34 | 34 |
Majorarea,,** No join mapping for Majorarea ** |
35 | 35 |
NS,,** No join mapping for NS ** |
36 | 36 |
Phenology,,** No join mapping for ReproductiveCondition ** |
37 |
Prefix,,** No join mapping for Prefix ** Not used |
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38 |
Suffix,,** No join mapping for Suffix ** Not used |
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37 |
Prefix,,** No join mapping for UNUSED ** |
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38 |
Suffix,,** No join mapping for UNUSED ** |
inputs/U/Specimen/new_terms.csv | ||
---|---|---|
1 | 1 |
Barcode |
2 |
Prefix |
|
2 | 3 |
Number |
4 |
Suffix |
|
3 | 5 |
Addcoll |
4 | 6 |
Colldd |
5 | 7 |
Collmm |
6 | 8 |
Collyy |
9 |
DateInfo |
|
7 | 10 |
cf |
8 | 11 |
Detby |
9 | 12 |
Detyy |
inputs/U/Specimen/unmapped_terms.csv | ||
---|---|---|
1 |
Prefix
|
|
2 |
Suffix
|
|
3 |
DateInfo
|
|
1 |
UNUSED
|
|
2 |
UNUSED
|
|
3 |
UNUSED
|
|
4 | 4 |
Majorarea |
5 | 5 |
Coorsyst |
6 | 6 |
NS |
inputs/ARIZ/Specimen/map.csv | ||
---|---|---|
28 | 28 |
Locality,locality,, |
29 | 29 |
DecimalLatitude,decimalLatitude,, |
30 | 30 |
DecimalLongitude,decimalLongitude,, |
31 |
HorizontalDatum,HorizontalDatum,,Not used
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31 |
HorizontalDatum,UNUSED,,
|
|
32 | 32 |
OriginalCoordinateSystem,verbatimSRS,, |
33 | 33 |
VerbatimLatitude,verbatimLatitude,, |
34 | 34 |
VerbatimLongitude,verbatimLongitude,, |
... | ... | |
60 | 60 |
TypeStatus,TypeStatus,, |
61 | 61 |
Sex,sex,, |
62 | 62 |
Preparations,Preparations,, |
63 |
Tissues,Tissues,,Not used
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63 |
Tissues,UNUSED,,
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64 | 64 |
IndividualCount,individualCount,, |
65 | 65 |
AgeClass,lifeStage,, |
66 | 66 |
GenBankNum,associatedSequences,"/_label[label=""GenBank""]/value", |
inputs/ARIZ/Specimen/VegBIEN.csv | ||
---|---|---|
69 | 69 |
GenBankNum,,"** No join mapping for associatedSequences/_label[label=""GenBank""]/value ** " |
70 | 70 |
GeorefMethod,,** No join mapping for georeferenceProtocol ** |
71 | 71 |
HigherGeography,,** No join mapping for HigherGeography ** |
72 |
HorizontalDatum,,** No join mapping for HorizontalDatum ** Not used
|
|
72 |
HorizontalDatum,,** No join mapping for UNUSED **
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|
73 | 73 |
Island,,** No join mapping for Island ** |
74 | 74 |
IslandGroup,,** No join mapping for IslandGroup ** |
75 | 75 |
JulianDay,,** No join mapping for day ** |
... | ... | |
79 | 79 |
Preparations,,** No join mapping for Preparations ** |
80 | 80 |
RelatedCatalogedItems,,** No join mapping for relatedResourceID/_alt/2 ** Used only when OtherCatalogNumbers is NULL |
81 | 81 |
TimeCollected,,** No join mapping for eventTime ** |
82 |
Tissues,,** No join mapping for Tissues ** Not used
|
|
82 |
Tissues,,** No join mapping for UNUSED **
|
|
83 | 83 |
TypeStatus,,** No join mapping for TypeStatus ** |
84 | 84 |
VerbatimDepth,,** No join mapping for VerbatimDepth ** |
inputs/ARIZ/Specimen/new_terms.csv | ||
---|---|---|
1 | 1 |
CatalogNumberNumeric |
2 | 2 |
TimeCollected |
3 | 3 |
VerbatimCollectingDate |
4 |
HorizontalDatum |
|
4 | 5 |
OriginalCoordinateSystem |
5 | 6 |
GeorefMethod |
6 | 7 |
LatLongComments |
7 | 8 |
IdentificationModifier |
9 |
Tissues |
|
8 | 10 |
AgeClass |
9 | 11 |
GenBankNum |
10 | 12 |
OtherCatalogNumbers |
inputs/ARIZ/Specimen/unmapped_terms.csv | ||
---|---|---|
6 | 6 |
HigherGeography |
7 | 7 |
IslandGroup |
8 | 8 |
Island |
9 |
HorizontalDatum
|
|
9 |
UNUSED
|
|
10 | 10 |
verbatimSRS |
11 | 11 |
georeferenceProtocol |
12 | 12 |
georeferenceRemarks |
13 | 13 |
VerbatimDepth |
14 | 14 |
TypeStatus |
15 | 15 |
Preparations |
16 |
Tissues
|
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16 |
UNUSED
|
|
17 | 17 |
lifeStage |
18 | 18 |
associatedSequences |
19 | 19 |
relatedResourceID |
inputs/VegBank/plot_/map.csv | ||
---|---|---|
3 | 3 |
authorplotcode,plotName,, |
4 | 4 |
reference_id,reference_id,, |
5 | 5 |
parent_id,parentPlotID,, |
6 |
reallatitude,OMIT,,
|
|
7 |
reallongitude,OMIT,,
|
|
6 |
reallatitude,PRIVATE,,
|
|
7 |
reallongitude,PRIVATE,,
|
|
8 | 8 |
locationaccuracy,coordinateUncertaintyInMeters,, |
9 | 9 |
confidentialitystatus,confidentialitystatus,, |
10 | 10 |
confidentialityreason,confidentialityreason,, |
... | ... | |
26 | 26 |
layoutnarrative,layoutnarrative,, |
27 | 27 |
elevation,elevationInMeters,,"""The elevation of the plot origin in meters above sea level"" (elevation definition at <http://vegbank.org/vegbank/views/dba_tabledescription_detail.jsp?view=detail&wparam=plot&entity=dba_tabledescription&where=where_tablename>)" |
28 | 28 |
elevationaccuracy,elevationaccuracy,, |
29 |
elevationrange,elevationrange,,"Unused [1] |
|
30 |
|
|
31 |
[1] The following query returns no rows: SELECT count(*) FROM ""VegBank"".plot WHERE elevationrange IS NOT NULL" |
|
29 |
elevationrange,UNUSED,, |
|
32 | 30 |
slopeaspect,slopeAspect,, |
33 | 31 |
minslopeaspect,minSlopeAspect,, |
34 | 32 |
maxslopeaspect,maxSlopeAspect,, |
inputs/VegBank/plot_/VegBIEN.csv | ||
---|---|---|
39 | 39 |
dateentered,,** No join mapping for dateentered ** |
40 | 40 |
dsgpoly,,** No join mapping for dsgpoly ** |
41 | 41 |
elevationaccuracy,,** No join mapping for elevationaccuracy ** |
42 |
elevationrange,,"** No join mapping for elevationrange ** Unused [1] |
|
43 |
|
|
44 |
[1] The following query returns no rows: SELECT count(*) FROM ""VegBank"".plot WHERE elevationrange IS NOT NULL" |
|
42 |
elevationrange,,** No join mapping for UNUSED ** |
|
45 | 43 |
emb_plot,,** No join mapping for emb_plot ** |
46 | 44 |
layoutnarrative,,** No join mapping for layoutnarrative ** |
47 | 45 |
notesmgt,,** No join mapping for notesmgt ** |
... | ... | |
51 | 49 |
placementmethod,,** No join mapping for placementmethod ** |
52 | 50 |
plotrationalenarrative,,** No join mapping for plotrationalenarrative ** |
53 | 51 |
quadrangle,,** No join mapping for quadrangle ** |
54 |
reallatitude,,** No join mapping for OMIT **
|
|
55 |
reallongitude,,** No join mapping for OMIT **
|
|
52 |
reallatitude,,** No join mapping for PRIVATE **
|
|
53 |
reallongitude,,** No join mapping for PRIVATE **
|
|
56 | 54 |
reference_id,,** No join mapping for reference_id ** |
57 | 55 |
revisions,,** No join mapping for revisions ** |
58 | 56 |
rocktype,,** No join mapping for rocktype ** |
inputs/VegBank/plot_/new_terms.csv | ||
---|---|---|
3 | 3 |
locationaccuracy |
4 | 4 |
shape |
5 | 5 |
area |
6 |
elevationrange |
|
6 | 7 |
area|country|territory |
7 | 8 |
region|state|province |
inputs/VegBank/plot_/unmapped_terms.csv | ||
---|---|---|
1 | 1 |
reference_id |
2 | 2 |
parentPlotID |
3 |
OMIT
|
|
4 |
OMIT
|
|
3 |
PRIVATE
|
|
4 |
PRIVATE
|
|
5 | 5 |
confidentialitystatus |
6 | 6 |
confidentialityreason |
7 | 7 |
authore |
... | ... | |
16 | 16 |
permanence |
17 | 17 |
layoutnarrative |
18 | 18 |
elevationaccuracy |
19 |
elevationrange
|
|
19 |
UNUSED
|
|
20 | 20 |
topoposition |
21 | 21 |
surficialdeposits |
22 | 22 |
rocktype |
Also available in: Unified diff
inputs/*/*/map.csv: Remapped all unused terms to special value UNUSED. Remapped all private terms to special value PRIVATE. Remapped all deliberately unmapped terms to special value OMIT.