Revision 8074
Added by Aaron Marcuse-Kubitza almost 12 years ago
| inputs/MO/Specimen.2/test.xml.ref | ||
|---|---|---|
| 1 |
Put template: |
|
| 2 |
<VegBIEN> |
|
| 3 |
<_setDefault id="-1"> |
|
| 4 |
<source_id><source><shortname>MO</shortname></source></source_id> |
|
| 5 |
<path> |
|
| 6 |
<_simplifyPath> |
|
| 7 |
<next>parent_id</next> |
|
| 8 |
<path> |
|
| 9 |
<location> |
|
| 10 |
<authorlocationcode>$specimenid</authorlocationcode> |
|
| 11 |
<elevation_m> |
|
| 12 |
<_avg> |
|
| 13 |
<1>$minimumelevation</1> |
|
| 14 |
<2>$maximumelevation</2> |
|
| 15 |
</_avg> |
|
| 16 |
</elevation_m> |
|
| 17 |
<iscultivated><_locationnarrative_is_cultivated><locationnarrative>$locality</locationnarrative></_locationnarrative_is_cultivated></iscultivated> |
|
| 18 |
<locationevent> |
|
| 19 |
<taxonoccurrence> |
|
| 20 |
<aggregateoccurrence> |
|
| 21 |
<plantobservation> |
|
| 22 |
<authorplantcode>$collectionnumber</authorplantcode> |
|
| 23 |
<reproductivecondition>$ecologicalcondition</reproductivecondition> |
|
| 24 |
<specimenreplicate> |
|
| 25 |
<collectionnumber>$collectionnumber</collectionnumber> |
|
| 26 |
<institution_id> |
|
| 27 |
<sourcelist> |
|
| 28 |
<name>$acronyms</name> |
|
| 29 |
<sourcename> |
|
| 30 |
<name> |
|
| 31 |
<_split> |
|
| 32 |
<separator>[,;] *</separator> |
|
| 33 |
<value>$acronyms</value> |
|
| 34 |
</_split> |
|
| 35 |
</name> |
|
| 36 |
</sourcename> |
|
| 37 |
</sourcelist> |
|
| 38 |
</institution_id> |
|
| 39 |
<sourceaccessioncode>$specimenid</sourceaccessioncode> |
|
| 40 |
</specimenreplicate> |
|
| 41 |
</plantobservation> |
|
| 42 |
</aggregateoccurrence> |
|
| 43 |
<collector_id><party><fullname>$collectorstring</fullname></party></collector_id> |
|
| 44 |
<iscultivated>$iscultivated</iscultivated> |
|
| 45 |
<sourceaccessioncode>$specimenid</sourceaccessioncode> |
|
| 46 |
<taxondetermination> |
|
| 47 |
<party_id><party><fullname>$determinedby</fullname></party></party_id> |
|
| 48 |
<taxonverbatim_id> |
|
| 49 |
<taxonverbatim> |
|
| 50 |
<taxonlabel_id> |
|
| 51 |
<taxonlabel> |
|
| 52 |
<parent_id> |
|
| 53 |
<taxonlabel> |
|
| 54 |
<rank>$rankabbreviation</rank> |
|
| 55 |
<parent_id> |
|
| 56 |
<taxonlabel> |
|
| 57 |
<rank>cultivar</rank> |
|
| 58 |
<parent_id> |
|
| 59 |
<taxonlabel> |
|
| 60 |
<rank>forma</rank> |
|
| 61 |
<parent_id> |
|
| 62 |
<taxonlabel> |
|
| 63 |
<rank>variety</rank> |
|
| 64 |
<parent_id> |
|
| 65 |
<taxonlabel> |
|
| 66 |
<rank>subspecies</rank> |
|
| 67 |
<parent_id> |
|
| 68 |
<taxonlabel> |
|
| 69 |
<rank>species</rank> |
|
| 70 |
<taxonepithet>$speciesnamepart</taxonepithet> |
|
| 71 |
<parent_id> |
|
| 72 |
<taxonlabel> |
|
| 73 |
<rank>genus</rank> |
|
| 74 |
<taxonepithet>$genusnamepart</taxonepithet> |
|
| 75 |
<parent_id> |
|
| 76 |
<taxonlabel> |
|
| 77 |
<rank>family</rank> |
|
| 78 |
<taxonepithet>$family</taxonepithet> |
|
| 79 |
</taxonlabel> |
|
| 80 |
</parent_id> |
|
| 81 |
</taxonlabel> |
|
| 82 |
</parent_id> |
|
| 83 |
</taxonlabel> |
|
| 84 |
</parent_id> |
|
| 85 |
</taxonlabel> |
|
| 86 |
</parent_id> |
|
| 87 |
</taxonlabel> |
|
| 88 |
</parent_id> |
|
| 89 |
</taxonlabel> |
|
| 90 |
</parent_id> |
|
| 91 |
</taxonlabel> |
|
| 92 |
</parent_id> |
|
| 93 |
<taxonepithet>$epithet</taxonepithet> |
|
| 94 |
</taxonlabel> |
|
| 95 |
</parent_id> |
|
| 96 |
<rank>$rankabbreviation</rank> |
|
| 97 |
<sourceaccessioncode>$determinationnameid</sourceaccessioncode> |
|
| 98 |
<taxonomicname> |
|
| 99 |
<_merge_prefix> |
|
| 100 |
<prefix><_taxon_family_require_std><family>$family</family></_taxon_family_require_std></prefix> |
|
| 101 |
<value> |
|
| 102 |
<_alt> |
|
| 103 |
<1>$fullname</1> |
|
| 104 |
<2> |
|
| 105 |
<_alt> |
|
| 106 |
<1>$name</1> |
|
| 107 |
<2> |
|
| 108 |
<_join_words> |
|
| 109 |
<2>$genusnamepart</2> |
|
| 110 |
<3>$speciesnamepart</3> |
|
| 111 |
<5> |
|
| 112 |
<_join_words> |
|
| 113 |
<1> |
|
| 114 |
<_if name="if has infraspecificEpithet"> |
|
| 115 |
<cond>$epithet</cond> |
|
| 116 |
<then>$rankabbreviation</then> |
|
| 117 |
</_if> |
|
| 118 |
</1> |
|
| 119 |
<2>$epithet</2> |
|
| 120 |
</_join_words> |
|
| 121 |
</5> |
|
| 122 |
</_join_words> |
|
| 123 |
</2> |
|
| 124 |
</_alt> |
|
| 125 |
</2> |
|
| 126 |
</_alt> |
|
| 127 |
</value> |
|
| 128 |
</_merge_prefix> |
|
| 129 |
</taxonomicname> |
|
| 130 |
</taxonlabel> |
|
| 131 |
</taxonlabel_id> |
|
| 132 |
<family>$family</family> |
|
| 133 |
<genus>$genusnamepart</genus> |
|
| 134 |
<specific_epithet>$speciesnamepart</specific_epithet> |
|
| 135 |
<taxonname>$name</taxonname> |
|
| 136 |
<taxonomicname>$fullname</taxonomicname> |
|
| 137 |
<verbatimrank>$rankabbreviation</verbatimrank> |
|
| 138 |
</taxonverbatim> |
|
| 139 |
</taxonverbatim_id> |
|
| 140 |
<determinationdate> |
|
| 141 |
<_date> |
|
| 142 |
<year> |
|
| 143 |
<_nullIf> |
|
| 144 |
<null>0</null> |
|
| 145 |
<type>float</type> |
|
| 146 |
<value>$determinationyear</value> |
|
| 147 |
</_nullIf> |
|
| 148 |
</year> |
|
| 149 |
</_date> |
|
| 150 |
</determinationdate> |
|
| 151 |
<taxonfit>$qualifier</taxonfit> |
|
| 152 |
</taxondetermination> |
|
| 153 |
</taxonoccurrence> |
|
| 154 |
</locationevent> |
|
| 155 |
<locationnarrative>$locality</locationnarrative> |
|
| 156 |
<locationplace> |
|
| 157 |
<place_id> |
|
| 158 |
<place> |
|
| 159 |
<coordinates_id> |
|
| 160 |
<coordinates> |
|
| 161 |
<latitude_deg> |
|
| 162 |
<_nullIf> |
|
| 163 |
<null>0</null> |
|
| 164 |
<type>float</type> |
|
| 165 |
<value>$minlatdecdeg</value> |
|
| 166 |
</_nullIf> |
|
| 167 |
</latitude_deg> |
|
| 168 |
<longitude_deg> |
|
| 169 |
<_nullIf> |
|
| 170 |
<null>0</null> |
|
| 171 |
<type>float</type> |
|
| 172 |
<value>$minlongdecdeg</value> |
|
| 173 |
</_nullIf> |
|
| 174 |
</longitude_deg> |
|
| 175 |
</coordinates> |
|
| 176 |
</coordinates_id> |
|
| 177 |
<continent>$continent</continent> |
|
| 178 |
<country>$country</country> |
|
| 179 |
<county>$lower</county> |
|
| 180 |
<matched_place_id> |
|
| 181 |
<place> |
|
| 182 |
<source_id><source><shortname>geoscrub</shortname></source></source_id> |
|
| 183 |
<coordinates_id> |
|
| 184 |
<coordinates> |
|
| 185 |
<source_id><source><shortname>geoscrub</shortname></source></source_id> |
|
| 186 |
<latitude_deg> |
|
| 187 |
<_nullIf> |
|
| 188 |
<null>0</null> |
|
| 189 |
<type>float</type> |
|
| 190 |
<value>$minlatdecdeg</value> |
|
| 191 |
</_nullIf> |
|
| 192 |
</latitude_deg> |
|
| 193 |
<longitude_deg> |
|
| 194 |
<_nullIf> |
|
| 195 |
<null>0</null> |
|
| 196 |
<type>float</type> |
|
| 197 |
<value>$minlongdecdeg</value> |
|
| 198 |
</_nullIf> |
|
| 199 |
</longitude_deg> |
|
| 200 |
</coordinates> |
|
| 201 |
</coordinates_id> |
|
| 202 |
<country>$country</country> |
|
| 203 |
<county>$lower</county> |
|
| 204 |
<stateprovince>$upper</stateprovince> |
|
| 205 |
</place> |
|
| 206 |
</matched_place_id> |
|
| 207 |
<stateprovince>$upper</stateprovince> |
|
| 208 |
</place> |
|
| 209 |
</place_id> |
|
| 210 |
</locationplace> |
|
| 211 |
<notespublic>$notes</notespublic> |
|
| 212 |
</location> |
|
| 213 |
</path> |
|
| 214 |
</_simplifyPath> |
|
| 215 |
</path> |
|
| 216 |
</_setDefault> |
|
| 217 |
</VegBIEN> |
|
| 218 |
Inserted 39 new rows into database |
|
| inputs/MO/Specimen.2/VegBIEN.csv | ||
|---|---|---|
| 1 |
MO,VegBIEN:/_setDefault:[source_id/source/shortname/_env:[name=source]]/path/_simplifyPath:[next=parent_id]/path,Comments |
|
| 2 |
specimenid,"/_if[@name=""if specimen""]/cond/_exists", |
|
| 3 |
acronyms,"/_if[@name=""if specimen""]/else/source/shortname/_first/1", |
|
| 4 |
specimenid,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_if[@name=""if plot""]/else/_alt/1", |
|
| 5 |
specimenid,"/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", |
|
| 6 |
acronyms,"/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", |
|
| 7 |
minimumelevation,/location/elevation_m/_alt/2/_avg/1,Setting units to m for now because only 4% of rows have valid elevationunits other than Meters (these rows all have units of Feet) |
|
| 8 |
maximumelevation,/location/elevation_m/_alt/2/_avg/2,Setting units to m for now because only 4% of rows have valid elevationunits other than Meters (these rows all have units of Feet) |
|
| 9 |
collectionnumber,"/location/iscultivated/_or/1/_if[@name=""if TaxonOccurrence""]/cond/_exists", |
|
| 10 |
iscultivated,"/location/iscultivated/_or/1/_if[@name=""if TaxonOccurrence""]/else/_alt/2", |
|
| 11 |
locality,/location/iscultivated/_or/2/_locationnarrative_is_cultivated/locationnarrative/_join/1, |
|
| 12 |
determinationyear,"/location/locationevent/taxonoccurrence/_if[@name=""if has accepted name""]/then/taxondetermination:[determinationtype=accepted]/determinationdate/_alt/2/_date/year/_nullIf:[null=0,type=float]/value", |
|
| 13 |
qualifier,"/location/locationevent/taxonoccurrence/_if[@name=""if has accepted name""]/then/taxondetermination:[determinationtype=accepted]/taxonfit", |
|
| 14 |
collectionnumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_first/2, |
|
| 15 |
ecologicalcondition,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/reproductivecondition, |
|
| 16 |
collectionnumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_if[@name=""if indirect voucher""]/else", |
|
| 17 |
specimenid,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
|
| 18 |
acronyms,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name/_first/2", |
|
| 19 |
acronyms,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_first/2/_split:[separator=""[,;] *""]/value", |
|
| 20 |
specimenid,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
|
| 21 |
collectionnumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/3", |
|
| 22 |
fullname,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/3/_first/2", |
|
| 23 |
name,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/3/_first/3", |
|
| 24 |
collectorstring,/location/locationevent/taxonoccurrence/collector_id/party/fullname, |
|
| 25 |
collectionnumber,"/location/locationevent/taxonoccurrence/iscultivated/_alt/1/_if[@name=""if TaxonOccurrence""]/cond/_exists", |
|
| 26 |
specimenid,"/location/locationevent/taxonoccurrence/iscultivated/_alt/1/_if[@name=""if TaxonOccurrence""]/cond/_exists", |
|
| 27 |
iscultivated,"/location/locationevent/taxonoccurrence/iscultivated/_alt/1/_if[@name=""if TaxonOccurrence""]/then/_alt/2", |
|
| 28 |
specimenid,/location/locationevent/taxonoccurrence/sourceaccessioncode/_first/3, |
|
| 29 |
determinedby,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/fullname, |
|
| 30 |
rankabbreviation,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/_if[@name=""if has explicit parent""]/else/rank", |
|
| 31 |
speciesnamepart,"/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", |
|
| 32 |
genusnamepart,"/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", |
|
| 33 |
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", |
|
| 34 |
epithet,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/taxonepithet, |
|
| 35 |
rankabbreviation,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/rank, |
|
| 36 |
determinationnameid,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/sourceaccessioncode, |
|
| 37 |
rankabbreviation,"/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", |
|
| 38 |
family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/prefix/_taxon_family_require_std/family, |
|
| 39 |
fullname,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/1, |
|
| 40 |
name,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/1, |
|
| 41 |
genusnamepart,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/2, |
|
| 42 |
speciesnamepart,/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, |
|
| 43 |
epithet,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/5/_join_words/1/_if[@name=""if has infraspecificEpithet""]/cond", |
|
| 44 |
rankabbreviation,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/5/_join_words/1/_if[@name=""if has infraspecificEpithet""]/then", |
|
| 45 |
epithet,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/5/_join_words/2, |
|
| 46 |
family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/family, |
|
| 47 |
genusnamepart,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/genus, |
|
| 48 |
speciesnamepart,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/specific_epithet, |
|
| 49 |
name,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/taxonname, |
|
| 50 |
fullname,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/taxonomicname, |
|
| 51 |
rankabbreviation,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/verbatimrank, |
|
| 52 |
determinationyear,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/determinationdate/_alt/2/_date/year/_nullIf:[null=0,type=float]/value", |
|
| 53 |
qualifier,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/taxonfit, |
|
| 54 |
collectionnumber,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/collectionnumber/_if[@name=""if indirect voucher""]/then", |
|
| 55 |
locality,/location/locationnarrative/_merge/1, |
|
| 56 |
minlatdecdeg,"/location/locationplace/*_id/place/*_id/coordinates/latitude_deg/_nullIf:[null=0,type=float]/value", |
|
| 57 |
minlongdecdeg,"/location/locationplace/*_id/place/*_id/coordinates/longitude_deg/_nullIf:[null=0,type=float]/value", |
|
| 58 |
continent,/location/locationplace/*_id/place/continent, |
|
| 59 |
country,/location/locationplace/*_id/place/country, |
|
| 60 |
lower,/location/locationplace/*_id/place/county, |
|
| 61 |
minlatdecdeg,"/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" |
|
| 62 |
minlongdecdeg,"/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" |
|
| 63 |
country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
|
| 64 |
lower,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 65 |
upper,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
|
| 66 |
upper,/location/locationplace/*_id/place/stateprovince, |
|
| 67 |
notes,/location/notespublic, |
|
| 68 |
coord_method,,** No join mapping for georeferenceProtocol ** |
|
| 69 |
description,,** No join mapping for specimenDescription ** |
|
| 70 |
elev_method,,** No join mapping for *elev_method ** |
|
| 71 |
elevationunits,,** No join mapping for *elevationunits ** |
|
| 72 |
minimumday,,** No join mapping for day ** |
|
| 73 |
minimummonth,,** No join mapping for month ** |
|
| 74 |
minimumyear,,** No join mapping for year ** |
|
| inputs/MO/Specimen.2/new_terms.csv | ||
|---|---|---|
| 1 |
specimenid,dataProviderRecordID,, |
|
| 2 |
collectorstring,recordedBy,, |
|
| 3 |
determinationnameid,scientificNameID,, |
|
| 4 |
name,taxonName,, |
|
| 5 |
fullname,scientificName,, |
|
| 6 |
genusnamepart,genus,, |
|
| 7 |
speciesnamepart,specificEpithet,, |
|
| 8 |
epithet,infraspecificEpithet,, |
|
| 9 |
rankabbreviation,taxonRank,, |
|
| 10 |
upper,stateProvince,, |
|
| 11 |
lower,county,, |
|
| 12 |
minlatdecdeg,decimalLatitude,, |
|
| 13 |
minlongdecdeg,decimalLongitude,, |
|
| 14 |
minimumday,day,, |
|
| 15 |
minimummonth,month,, |
|
| 16 |
minimumyear,year,, |
|
| 17 |
description,specimenDescription,, |
|
| 18 |
acronyms,specimenHolderInstitutions,, |
|
| 19 |
determinationyear,yearIdentified,, |
|
| 20 |
determinedby,identifiedBy,, |
|
| 21 |
qualifier,identificationQualifier,, |
|
| 22 |
iscultivated,cultivated,, |
|
| 23 |
ecologicalcondition,reproductiveCondition,, |
|
| 24 |
coord_method,georeferenceProtocol,, |
|
| inputs/MO/Specimen.2/unmapped_terms.csv | ||
|---|---|---|
| 1 |
*elevationunits |
|
| 2 |
day |
|
| 3 |
month |
|
| 4 |
year |
|
| 5 |
specimenDescription |
|
| 6 |
*elev_method |
|
| 7 |
georeferenceProtocol |
|
| inputs/MO/Specimen.2/map.csv | ||
|---|---|---|
| 1 |
MO,VegCore,Filter,Comments |
|
| 2 |
specimenid,dataProviderRecordID,, |
|
| 3 |
collectorstring,recordedBy,, |
|
| 4 |
collectionnumber,collectorNumber,, |
|
| 5 |
determinationnameid,scientificNameID,, |
|
| 6 |
name,taxonName,, |
|
| 7 |
fullname,scientificName,, |
|
| 8 |
genusnamepart,genus,, |
|
| 9 |
speciesnamepart,specificEpithet,, |
|
| 10 |
epithet,infraspecificEpithet,, |
|
| 11 |
rankabbreviation,taxonRank,, |
|
| 12 |
family,family,, |
|
| 13 |
continent,continent,, |
|
| 14 |
country,country,, |
|
| 15 |
upper,stateProvince,, |
|
| 16 |
lower,county,, |
|
| 17 |
locality,locality,, |
|
| 18 |
minimumelevation,minimumElevationInMeters,,Setting units to m for now because only 4% of rows have valid elevationunits other than Meters (these rows all have units of Feet) |
|
| 19 |
maximumelevation,maximumElevationInMeters,,Setting units to m for now because only 4% of rows have valid elevationunits other than Meters (these rows all have units of Feet) |
|
| 20 |
elevationunits,*elevationunits,, |
|
| 21 |
minlatdecdeg,decimalLatitude,, |
|
| 22 |
minlongdecdeg,decimalLongitude,, |
|
| 23 |
minimumday,day,, |
|
| 24 |
minimummonth,month,, |
|
| 25 |
minimumyear,year,, |
|
| 26 |
description,specimenDescription,, |
|
| 27 |
acronyms,specimenHolderInstitutions,, |
|
| 28 |
notes,locationRemarks,, |
|
| 29 |
determinationyear,yearIdentified,, |
|
| 30 |
determinedby,identifiedBy,, |
|
| 31 |
qualifier,identificationQualifier,, |
|
| 32 |
iscultivated,cultivated,, |
|
| 33 |
ecologicalcondition,reproductiveCondition,, |
|
| 34 |
elev_method,*elev_method,, |
|
| 35 |
coord_method,georeferenceProtocol,, |
|
| inputs/MO/import_order.txt | ||
|---|---|---|
| 1 | 1 |
Source |
| 2 |
Specimen.2 |
|
| 2 |
Specimen |
|
| inputs/MO/Specimen/map.csv | ||
|---|---|---|
| 1 |
MO,VegCore,Filter,Comments |
|
| 2 |
specimenid,dataProviderRecordID,, |
|
| 3 |
collectorstring,recordedBy,, |
|
| 4 |
collectionnumber,collectorNumber,, |
|
| 5 |
determinationnameid,scientificNameID,, |
|
| 6 |
name,taxonName,, |
|
| 7 |
fullname,scientificName,, |
|
| 8 |
genusnamepart,genus,, |
|
| 9 |
speciesnamepart,specificEpithet,, |
|
| 10 |
epithet,infraspecificEpithet,, |
|
| 11 |
rankabbreviation,taxonRank,, |
|
| 12 |
family,family,, |
|
| 13 |
continent,continent,, |
|
| 14 |
country,country,, |
|
| 15 |
upper,stateProvince,, |
|
| 16 |
lower,county,, |
|
| 17 |
locality,locality,, |
|
| 18 |
minimumelevation,minimumElevationInMeters,,Setting units to m for now because only 4% of rows have valid elevationunits other than Meters (these rows all have units of Feet) |
|
| 19 |
maximumelevation,maximumElevationInMeters,,Setting units to m for now because only 4% of rows have valid elevationunits other than Meters (these rows all have units of Feet) |
|
| 20 |
elevationunits,*elevationunits,, |
|
| 21 |
minlatdecdeg,decimalLatitude,, |
|
| 22 |
minlongdecdeg,decimalLongitude,, |
|
| 23 |
minimumday,day,, |
|
| 24 |
minimummonth,month,, |
|
| 25 |
minimumyear,year,, |
|
| 26 |
description,specimenDescription,, |
|
| 27 |
acronyms,specimenHolderInstitutions,, |
|
| 28 |
notes,locationRemarks,, |
|
| 29 |
determinationyear,yearIdentified,, |
|
| 30 |
determinedby,identifiedBy,, |
|
| 31 |
qualifier,identificationQualifier,, |
|
| 32 |
iscultivated,cultivated,, |
|
| 33 |
ecologicalcondition,reproductiveCondition,, |
|
| 34 |
elev_method,*elev_method,, |
|
| 35 |
coord_method,georeferenceProtocol,, |
|
| inputs/MO/Specimen/VegBIEN.csv | ||
|---|---|---|
| 1 |
MO,VegBIEN:/_setDefault:[source_id/source/shortname/_env:[name=source]]/path/_simplifyPath:[next=parent_id]/path,Comments |
|
| 2 |
specimenid,"/_if[@name=""if specimen""]/cond/_exists", |
|
| 3 |
acronyms,"/_if[@name=""if specimen""]/else/source/shortname/_first/1", |
|
| 4 |
specimenid,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_if[@name=""if plot""]/else/_alt/1", |
|
| 5 |
specimenid,"/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", |
|
| 6 |
acronyms,"/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", |
|
| 7 |
minimumelevation,/location/elevation_m/_alt/2/_avg/1,Setting units to m for now because only 4% of rows have valid elevationunits other than Meters (these rows all have units of Feet) |
|
| 8 |
maximumelevation,/location/elevation_m/_alt/2/_avg/2,Setting units to m for now because only 4% of rows have valid elevationunits other than Meters (these rows all have units of Feet) |
|
| 9 |
collectionnumber,"/location/iscultivated/_or/1/_if[@name=""if TaxonOccurrence""]/cond/_exists", |
|
| 10 |
iscultivated,"/location/iscultivated/_or/1/_if[@name=""if TaxonOccurrence""]/else/_alt/2", |
|
| 11 |
locality,/location/iscultivated/_or/2/_locationnarrative_is_cultivated/locationnarrative/_join/1, |
|
| 12 |
determinationyear,"/location/locationevent/taxonoccurrence/_if[@name=""if has accepted name""]/then/taxondetermination:[determinationtype=accepted]/determinationdate/_alt/2/_date/year/_nullIf:[null=0,type=float]/value", |
|
| 13 |
qualifier,"/location/locationevent/taxonoccurrence/_if[@name=""if has accepted name""]/then/taxondetermination:[determinationtype=accepted]/taxonfit", |
|
| 14 |
collectionnumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_first/2, |
|
| 15 |
ecologicalcondition,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/reproductivecondition, |
|
| 16 |
collectionnumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_if[@name=""if indirect voucher""]/else", |
|
| 17 |
specimenid,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
|
| 18 |
acronyms,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name/_first/2", |
|
| 19 |
acronyms,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_first/2/_split:[separator=""[,;] *""]/value", |
|
| 20 |
specimenid,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode, |
|
| 21 |
collectionnumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/3", |
|
| 22 |
fullname,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/3/_first/2", |
|
| 23 |
name,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/3/_first/3", |
|
| 24 |
collectorstring,/location/locationevent/taxonoccurrence/collector_id/party/fullname, |
|
| 25 |
collectionnumber,"/location/locationevent/taxonoccurrence/iscultivated/_alt/1/_if[@name=""if TaxonOccurrence""]/cond/_exists", |
|
| 26 |
specimenid,"/location/locationevent/taxonoccurrence/iscultivated/_alt/1/_if[@name=""if TaxonOccurrence""]/cond/_exists", |
|
| 27 |
iscultivated,"/location/locationevent/taxonoccurrence/iscultivated/_alt/1/_if[@name=""if TaxonOccurrence""]/then/_alt/2", |
|
| 28 |
specimenid,/location/locationevent/taxonoccurrence/sourceaccessioncode/_first/3, |
|
| 29 |
determinedby,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/fullname, |
|
| 30 |
rankabbreviation,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/_if[@name=""if has explicit parent""]/else/rank", |
|
| 31 |
speciesnamepart,"/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", |
|
| 32 |
genusnamepart,"/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", |
|
| 33 |
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", |
|
| 34 |
epithet,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/taxonepithet, |
|
| 35 |
rankabbreviation,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/rank, |
|
| 36 |
determinationnameid,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/sourceaccessioncode, |
|
| 37 |
rankabbreviation,"/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", |
|
| 38 |
family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/prefix/_taxon_family_require_std/family, |
|
| 39 |
fullname,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/1, |
|
| 40 |
name,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/1, |
|
| 41 |
genusnamepart,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/2, |
|
| 42 |
speciesnamepart,/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, |
|
| 43 |
epithet,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/5/_join_words/1/_if[@name=""if has infraspecificEpithet""]/cond", |
|
| 44 |
rankabbreviation,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/5/_join_words/1/_if[@name=""if has infraspecificEpithet""]/then", |
|
| 45 |
epithet,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/5/_join_words/2, |
|
| 46 |
family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/family, |
|
| 47 |
genusnamepart,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/genus, |
|
| 48 |
speciesnamepart,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/specific_epithet, |
|
| 49 |
name,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/taxonname, |
|
| 50 |
fullname,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/taxonomicname, |
|
| 51 |
rankabbreviation,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/verbatimrank, |
|
| 52 |
determinationyear,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/determinationdate/_alt/2/_date/year/_nullIf:[null=0,type=float]/value", |
|
| 53 |
qualifier,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/taxonfit, |
|
| 54 |
collectionnumber,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/collectionnumber/_if[@name=""if indirect voucher""]/then", |
|
| 55 |
locality,/location/locationnarrative/_merge/1, |
|
| 56 |
minlatdecdeg,"/location/locationplace/*_id/place/*_id/coordinates/latitude_deg/_nullIf:[null=0,type=float]/value", |
|
| 57 |
minlongdecdeg,"/location/locationplace/*_id/place/*_id/coordinates/longitude_deg/_nullIf:[null=0,type=float]/value", |
|
| 58 |
continent,/location/locationplace/*_id/place/continent, |
|
| 59 |
country,/location/locationplace/*_id/place/country, |
|
| 60 |
lower,/location/locationplace/*_id/place/county, |
|
| 61 |
minlatdecdeg,"/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" |
|
| 62 |
minlongdecdeg,"/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" |
|
| 63 |
country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
|
| 64 |
lower,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 65 |
upper,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
|
| 66 |
upper,/location/locationplace/*_id/place/stateprovince, |
|
| 67 |
notes,/location/notespublic, |
|
| 68 |
coord_method,,** No join mapping for georeferenceProtocol ** |
|
| 69 |
description,,** No join mapping for specimenDescription ** |
|
| 70 |
elev_method,,** No join mapping for *elev_method ** |
|
| 71 |
elevationunits,,** No join mapping for *elevationunits ** |
|
| 72 |
minimumday,,** No join mapping for day ** |
|
| 73 |
minimummonth,,** No join mapping for month ** |
|
| 74 |
minimumyear,,** No join mapping for year ** |
|
| inputs/MO/Specimen/test.xml.ref | ||
|---|---|---|
| 1 |
Put template: |
|
| 2 |
<VegBIEN> |
|
| 3 |
<_setDefault id="-1"> |
|
| 4 |
<source_id><source><shortname>MO</shortname></source></source_id> |
|
| 5 |
<path> |
|
| 6 |
<_simplifyPath> |
|
| 7 |
<next>parent_id</next> |
|
| 8 |
<path> |
|
| 9 |
<location> |
|
| 10 |
<authorlocationcode>$specimenid</authorlocationcode> |
|
| 11 |
<elevation_m> |
|
| 12 |
<_avg> |
|
| 13 |
<1>$minimumelevation</1> |
|
| 14 |
<2>$maximumelevation</2> |
|
| 15 |
</_avg> |
|
| 16 |
</elevation_m> |
|
| 17 |
<iscultivated><_locationnarrative_is_cultivated><locationnarrative>$locality</locationnarrative></_locationnarrative_is_cultivated></iscultivated> |
|
| 18 |
<locationevent> |
|
| 19 |
<taxonoccurrence> |
|
| 20 |
<aggregateoccurrence> |
|
| 21 |
<plantobservation> |
|
| 22 |
<authorplantcode>$collectionnumber</authorplantcode> |
|
| 23 |
<reproductivecondition>$ecologicalcondition</reproductivecondition> |
|
| 24 |
<specimenreplicate> |
|
| 25 |
<collectionnumber>$collectionnumber</collectionnumber> |
|
| 26 |
<institution_id> |
|
| 27 |
<sourcelist> |
|
| 28 |
<name>$acronyms</name> |
|
| 29 |
<sourcename> |
|
| 30 |
<name> |
|
| 31 |
<_split> |
|
| 32 |
<separator>[,;] *</separator> |
|
| 33 |
<value>$acronyms</value> |
|
| 34 |
</_split> |
|
| 35 |
</name> |
|
| 36 |
</sourcename> |
|
| 37 |
</sourcelist> |
|
| 38 |
</institution_id> |
|
| 39 |
<sourceaccessioncode>$specimenid</sourceaccessioncode> |
|
| 40 |
</specimenreplicate> |
|
| 41 |
</plantobservation> |
|
| 42 |
</aggregateoccurrence> |
|
| 43 |
<collector_id><party><fullname>$collectorstring</fullname></party></collector_id> |
|
| 44 |
<iscultivated>$iscultivated</iscultivated> |
|
| 45 |
<sourceaccessioncode>$specimenid</sourceaccessioncode> |
|
| 46 |
<taxondetermination> |
|
| 47 |
<party_id><party><fullname>$determinedby</fullname></party></party_id> |
|
| 48 |
<taxonverbatim_id> |
|
| 49 |
<taxonverbatim> |
|
| 50 |
<taxonlabel_id> |
|
| 51 |
<taxonlabel> |
|
| 52 |
<parent_id> |
|
| 53 |
<taxonlabel> |
|
| 54 |
<rank>$rankabbreviation</rank> |
|
| 55 |
<parent_id> |
|
| 56 |
<taxonlabel> |
|
| 57 |
<rank>cultivar</rank> |
|
| 58 |
<parent_id> |
|
| 59 |
<taxonlabel> |
|
| 60 |
<rank>forma</rank> |
|
| 61 |
<parent_id> |
|
| 62 |
<taxonlabel> |
|
| 63 |
<rank>variety</rank> |
|
| 64 |
<parent_id> |
|
| 65 |
<taxonlabel> |
|
| 66 |
<rank>subspecies</rank> |
|
| 67 |
<parent_id> |
|
| 68 |
<taxonlabel> |
|
| 69 |
<rank>species</rank> |
|
| 70 |
<taxonepithet>$speciesnamepart</taxonepithet> |
|
| 71 |
<parent_id> |
|
| 72 |
<taxonlabel> |
|
| 73 |
<rank>genus</rank> |
|
| 74 |
<taxonepithet>$genusnamepart</taxonepithet> |
|
| 75 |
<parent_id> |
|
| 76 |
<taxonlabel> |
|
| 77 |
<rank>family</rank> |
|
| 78 |
<taxonepithet>$family</taxonepithet> |
|
| 79 |
</taxonlabel> |
|
| 80 |
</parent_id> |
|
| 81 |
</taxonlabel> |
|
| 82 |
</parent_id> |
|
| 83 |
</taxonlabel> |
|
| 84 |
</parent_id> |
|
| 85 |
</taxonlabel> |
|
| 86 |
</parent_id> |
|
| 87 |
</taxonlabel> |
|
| 88 |
</parent_id> |
|
| 89 |
</taxonlabel> |
|
| 90 |
</parent_id> |
|
| 91 |
</taxonlabel> |
|
| 92 |
</parent_id> |
|
| 93 |
<taxonepithet>$epithet</taxonepithet> |
|
| 94 |
</taxonlabel> |
|
| 95 |
</parent_id> |
|
| 96 |
<rank>$rankabbreviation</rank> |
|
| 97 |
<sourceaccessioncode>$determinationnameid</sourceaccessioncode> |
|
| 98 |
<taxonomicname> |
|
| 99 |
<_merge_prefix> |
|
| 100 |
<prefix><_taxon_family_require_std><family>$family</family></_taxon_family_require_std></prefix> |
|
| 101 |
<value> |
|
| 102 |
<_alt> |
|
| 103 |
<1>$fullname</1> |
|
| 104 |
<2> |
|
| 105 |
<_alt> |
|
| 106 |
<1>$name</1> |
|
| 107 |
<2> |
|
| 108 |
<_join_words> |
|
| 109 |
<2>$genusnamepart</2> |
|
| 110 |
<3>$speciesnamepart</3> |
|
| 111 |
<5> |
|
| 112 |
<_join_words> |
|
| 113 |
<1> |
|
| 114 |
<_if name="if has infraspecificEpithet"> |
|
| 115 |
<cond>$epithet</cond> |
|
| 116 |
<then>$rankabbreviation</then> |
|
| 117 |
</_if> |
|
| 118 |
</1> |
|
| 119 |
<2>$epithet</2> |
|
| 120 |
</_join_words> |
|
| 121 |
</5> |
|
| 122 |
</_join_words> |
|
| 123 |
</2> |
|
| 124 |
</_alt> |
|
| 125 |
</2> |
|
| 126 |
</_alt> |
|
| 127 |
</value> |
|
| 128 |
</_merge_prefix> |
|
| 129 |
</taxonomicname> |
|
| 130 |
</taxonlabel> |
|
| 131 |
</taxonlabel_id> |
|
| 132 |
<family>$family</family> |
|
| 133 |
<genus>$genusnamepart</genus> |
|
| 134 |
<specific_epithet>$speciesnamepart</specific_epithet> |
|
| 135 |
<taxonname>$name</taxonname> |
|
| 136 |
<taxonomicname>$fullname</taxonomicname> |
|
| 137 |
<verbatimrank>$rankabbreviation</verbatimrank> |
|
| 138 |
</taxonverbatim> |
|
| 139 |
</taxonverbatim_id> |
|
| 140 |
<determinationdate> |
|
| 141 |
<_date> |
|
| 142 |
<year> |
|
| 143 |
<_nullIf> |
|
| 144 |
<null>0</null> |
|
| 145 |
<type>float</type> |
|
| 146 |
<value>$determinationyear</value> |
|
| 147 |
</_nullIf> |
|
| 148 |
</year> |
|
| 149 |
</_date> |
|
| 150 |
</determinationdate> |
|
| 151 |
<taxonfit>$qualifier</taxonfit> |
|
| 152 |
</taxondetermination> |
|
| 153 |
</taxonoccurrence> |
|
| 154 |
</locationevent> |
|
| 155 |
<locationnarrative>$locality</locationnarrative> |
|
| 156 |
<locationplace> |
|
| 157 |
<place_id> |
|
| 158 |
<place> |
|
| 159 |
<coordinates_id> |
|
| 160 |
<coordinates> |
|
| 161 |
<latitude_deg> |
|
| 162 |
<_nullIf> |
|
| 163 |
<null>0</null> |
|
| 164 |
<type>float</type> |
|
| 165 |
<value>$minlatdecdeg</value> |
|
| 166 |
</_nullIf> |
|
| 167 |
</latitude_deg> |
|
| 168 |
<longitude_deg> |
|
| 169 |
<_nullIf> |
|
| 170 |
<null>0</null> |
|
| 171 |
<type>float</type> |
|
| 172 |
<value>$minlongdecdeg</value> |
|
| 173 |
</_nullIf> |
|
| 174 |
</longitude_deg> |
|
| 175 |
</coordinates> |
|
| 176 |
</coordinates_id> |
|
| 177 |
<continent>$continent</continent> |
|
| 178 |
<country>$country</country> |
|
| 179 |
<county>$lower</county> |
|
| 180 |
<matched_place_id> |
|
| 181 |
<place> |
|
| 182 |
<source_id><source><shortname>geoscrub</shortname></source></source_id> |
|
| 183 |
<coordinates_id> |
|
| 184 |
<coordinates> |
|
| 185 |
<source_id><source><shortname>geoscrub</shortname></source></source_id> |
|
| 186 |
<latitude_deg> |
|
| 187 |
<_nullIf> |
|
| 188 |
<null>0</null> |
|
| 189 |
<type>float</type> |
|
| 190 |
<value>$minlatdecdeg</value> |
|
| 191 |
</_nullIf> |
|
| 192 |
</latitude_deg> |
|
| 193 |
<longitude_deg> |
|
| 194 |
<_nullIf> |
|
| 195 |
<null>0</null> |
|
| 196 |
<type>float</type> |
|
| 197 |
<value>$minlongdecdeg</value> |
|
| 198 |
</_nullIf> |
|
| 199 |
</longitude_deg> |
|
| 200 |
</coordinates> |
|
| 201 |
</coordinates_id> |
|
| 202 |
<country>$country</country> |
|
| 203 |
<county>$lower</county> |
|
| 204 |
<stateprovince>$upper</stateprovince> |
|
| 205 |
</place> |
|
| 206 |
</matched_place_id> |
|
| 207 |
<stateprovince>$upper</stateprovince> |
|
| 208 |
</place> |
|
| 209 |
</place_id> |
|
| 210 |
</locationplace> |
|
| 211 |
<notespublic>$notes</notespublic> |
|
| 212 |
</location> |
|
| 213 |
</path> |
|
| 214 |
</_simplifyPath> |
|
| 215 |
</path> |
|
| 216 |
</_setDefault> |
|
| 217 |
</VegBIEN> |
|
| 218 |
Inserted 39 new rows into database |
|
| inputs/MO/Specimen/new_terms.csv | ||
|---|---|---|
| 1 |
specimenid,dataProviderRecordID,, |
|
| 2 |
collectorstring,recordedBy,, |
|
| 3 |
determinationnameid,scientificNameID,, |
|
| 4 |
name,taxonName,, |
|
| 5 |
fullname,scientificName,, |
|
| 6 |
genusnamepart,genus,, |
|
| 7 |
speciesnamepart,specificEpithet,, |
|
| 8 |
epithet,infraspecificEpithet,, |
|
| 9 |
rankabbreviation,taxonRank,, |
|
| 10 |
upper,stateProvince,, |
|
| 11 |
lower,county,, |
|
| 12 |
minlatdecdeg,decimalLatitude,, |
|
| 13 |
minlongdecdeg,decimalLongitude,, |
|
| 14 |
minimumday,day,, |
|
| 15 |
minimummonth,month,, |
|
| 16 |
minimumyear,year,, |
|
| 17 |
description,specimenDescription,, |
|
| 18 |
acronyms,specimenHolderInstitutions,, |
|
| 19 |
determinationyear,yearIdentified,, |
|
| 20 |
determinedby,identifiedBy,, |
|
| 21 |
qualifier,identificationQualifier,, |
|
| 22 |
iscultivated,cultivated,, |
|
| 23 |
ecologicalcondition,reproductiveCondition,, |
|
| 24 |
coord_method,georeferenceProtocol,, |
|
| inputs/MO/Specimen/unmapped_terms.csv | ||
|---|---|---|
| 1 |
*elevationunits |
|
| 2 |
day |
|
| 3 |
month |
|
| 4 |
year |
|
| 5 |
specimenDescription |
|
| 6 |
*elev_method |
|
| 7 |
georeferenceProtocol |
|
Also available in: Unified diff
inputs/MO/: Renamed Specimen.2/ -> now available Specimen/