Revision 11107
Added by Aaron Marcuse-Kubitza about 11 years ago
| test.xml.ref | ||
|---|---|---|
| 50 | 50 |
</iscultivated> |
| 51 | 51 |
<locationevent> |
| 52 | 52 |
<method_id><method><name>$samplingProtocol</name></method></method_id> |
| 53 |
<taxonoccurrence> |
|
| 54 |
<aggregateoccurrence> |
|
| 55 |
<collectiondate> |
|
| 56 |
<_alt> |
|
| 57 |
<1>$dateCollected</1> |
|
| 58 |
<2> |
|
| 59 |
<_date> |
|
| 60 |
<day> |
|
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<_nullIf> |
|
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<null>0</null> |
|
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<type>float</type> |
|
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<value>$dayCollected</value> |
|
| 65 |
</_nullIf> |
|
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</day> |
|
| 67 |
<month> |
|
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<_nullIf> |
|
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<null>0</null> |
|
| 70 |
<type>float</type> |
|
| 71 |
<value>$monthCollected</value> |
|
| 72 |
</_nullIf> |
|
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</month> |
|
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<year> |
|
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<_nullIf> |
|
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<null>0</null> |
|
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<type>float</type> |
|
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<value>$yearCollected</value> |
|
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</_nullIf> |
|
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</year> |
|
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</_date> |
|
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</2> |
|
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</_alt> |
|
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</collectiondate> |
|
| 85 |
<count>$individualCount</count> |
|
| 86 |
<notes>$occurrenceRemarks</notes> |
|
| 87 |
<plantobservation> |
|
| 88 |
<authorplantcode>$collectorNumber</authorplantcode> |
|
| 89 |
<definedvalue fkey="tablerecord_id"> |
|
| 90 |
<userdefined_id> |
|
| 91 |
<userdefined> |
|
| 92 |
<tablename>plantobservation</tablename> |
|
| 93 |
<userdefinedname>sex</userdefinedname> |
|
| 94 |
</userdefined> |
|
| 95 |
</userdefined_id> |
|
| 96 |
<definedvalue>$sex</definedvalue> |
|
| 97 |
</definedvalue> |
|
| 98 |
<reproductivecondition>$reproductiveCondition</reproductivecondition> |
|
| 99 |
<specimenreplicate> |
|
| 100 |
<catalognumber_dwc>$accessionNumber</catalognumber_dwc> |
|
| 101 |
<collectioncode_dwc>$collection</collectioncode_dwc> |
|
| 102 |
<collectionnumber>$collectorNumber</collectionnumber> |
|
| 103 |
<institution_id> |
|
| 104 |
<sourcelist> |
|
| 105 |
<name>$specimenHolderInstitutions</name> |
|
| 106 |
<sourcename> |
|
| 107 |
<name> |
|
| 108 |
<_split> |
|
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<separator>[,;] *</separator> |
|
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<value>$specimenHolderInstitutions</value> |
|
| 111 |
</_split> |
|
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</name> |
|
| 113 |
</sourcename> |
|
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</sourcelist> |
|
| 115 |
</institution_id> |
|
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<sourceaccessioncode>$occurrenceID</sourceaccessioncode> |
|
| 117 |
</specimenreplicate> |
|
| 118 |
</plantobservation> |
|
| 119 |
</aggregateoccurrence> |
|
| 120 |
<collector_id><party><fullname>$recordedBy</fullname></party></collector_id> |
|
| 121 |
<iscultivated> |
|
| 122 |
<_map> |
|
| 123 |
<cultivated>t</cultivated> |
|
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<wild>f</wild> |
|
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<*></*> |
|
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<value>$establishmentMeans</value> |
|
| 127 |
</_map> |
|
| 128 |
</iscultivated> |
|
| 129 |
<isnative> |
|
| 130 |
<_map> |
|
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<native>t</native> |
|
| 132 |
<exotic>f</exotic> |
|
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<*></*> |
|
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<value>$establishmentMeans</value> |
|
| 135 |
</_map> |
|
| 136 |
</isnative> |
|
| 137 |
<sourceaccessioncode>$occurrenceID</sourceaccessioncode> |
|
| 138 |
<taxondetermination> |
|
| 139 |
<party_id><party><fullname>$identifiedBy</fullname></party></party_id> |
|
| 140 |
<taxonverbatim_id> |
|
| 141 |
<taxonverbatim> |
|
| 142 |
<taxonlabel_id> |
|
| 143 |
<taxonlabel> |
|
| 144 |
<parent_id> |
|
| 145 |
<taxonlabel> |
|
| 146 |
<rank>$taxonRank</rank> |
|
| 147 |
<parent_id> |
|
| 148 |
<taxonlabel> |
|
| 149 |
<rank>cultivar</rank> |
|
| 150 |
<parent_id> |
|
| 151 |
<taxonlabel> |
|
| 152 |
<rank>forma</rank> |
|
| 153 |
<parent_id> |
|
| 154 |
<taxonlabel> |
|
| 155 |
<rank>variety</rank> |
|
| 156 |
<parent_id> |
|
| 157 |
<taxonlabel> |
|
| 158 |
<rank>subspecies</rank> |
|
| 159 |
<parent_id> |
|
| 160 |
<taxonlabel> |
|
| 161 |
<rank>species</rank> |
|
| 162 |
<taxonepithet>$specificEpithet</taxonepithet> |
|
| 163 |
<parent_id> |
|
| 164 |
<taxonlabel> |
|
| 165 |
<rank>genus</rank> |
|
| 166 |
<taxonepithet>$genus</taxonepithet> |
|
| 167 |
<parent_id> |
|
| 168 |
<taxonlabel> |
|
| 169 |
<rank>family</rank> |
|
| 170 |
<taxonepithet>$family</taxonepithet> |
|
| 171 |
</taxonlabel> |
|
| 172 |
</parent_id> |
|
| 173 |
</taxonlabel> |
|
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</parent_id> |
|
| 175 |
</taxonlabel> |
|
| 176 |
</parent_id> |
|
| 177 |
</taxonlabel> |
|
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</parent_id> |
|
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</taxonlabel> |
|
| 180 |
</parent_id> |
|
| 181 |
</taxonlabel> |
|
| 182 |
</parent_id> |
|
| 183 |
</taxonlabel> |
|
| 184 |
</parent_id> |
|
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<taxonepithet>$infraspecificEpithet</taxonepithet> |
|
| 186 |
</taxonlabel> |
|
| 187 |
</parent_id> |
|
| 188 |
<rank>$taxonRank</rank> |
|
| 189 |
<taxonomicname> |
|
| 190 |
<_merge_prefix> |
|
| 191 |
<prefix><_taxon_family_require_std><family>$family</family></_taxon_family_require_std></prefix> |
|
| 192 |
<value> |
|
| 193 |
<_alt> |
|
| 194 |
<1>$scientificName</1> |
|
| 195 |
<2> |
|
| 196 |
<_join_words> |
|
| 197 |
<1> |
|
| 198 |
<_join_words> |
|
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<2><_filter_genus><value>$genus</value></_filter_genus></2> |
|
| 200 |
<3>$specificEpithet</3> |
|
| 201 |
<5> |
|
| 202 |
<_join_words> |
|
| 203 |
<1> |
|
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<_if name="if has infraspecificEpithet"> |
|
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<cond>$infraspecificEpithet</cond> |
|
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<then>$taxonRank</then> |
|
| 207 |
</_if> |
|
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</1> |
|
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<2>$infraspecificEpithet</2> |
|
| 210 |
</_join_words> |
|
| 211 |
</5> |
|
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</_join_words> |
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</1> |
|
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<2>$scientificNameAuthorship</2> |
|
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</_join_words> |
|
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</2> |
|
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</_alt> |
|
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</value> |
|
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</_merge_prefix> |
|
| 220 |
</taxonomicname> |
|
| 221 |
</taxonlabel> |
|
| 222 |
</taxonlabel_id> |
|
| 223 |
<author>$scientificNameAuthorship</author> |
|
| 224 |
<family>$family</family> |
|
| 225 |
<genus>$genus</genus> |
|
| 226 |
<specific_epithet>$specificEpithet</specific_epithet> |
|
| 227 |
<taxonomicname>$scientificName</taxonomicname> |
|
| 228 |
<verbatimrank>$taxonRank</verbatimrank> |
|
| 229 |
</taxonverbatim> |
|
| 230 |
</taxonverbatim_id> |
|
| 231 |
<determinationdate><_dateRangeStart><value>$dateIdentified</value></_dateRangeStart></determinationdate> |
|
| 232 |
<notes>$taxonRemarks</notes> |
|
| 233 |
<taxonfit>$identificationQualifier</taxonfit> |
|
| 234 |
</taxondetermination> |
|
| 235 |
</taxonoccurrence> |
|
| 53 |
<locationevent fkey="parent_id"> |
|
| 54 |
<taxonoccurrence> |
|
| 55 |
<aggregateoccurrence> |
|
| 56 |
<collectiondate> |
|
| 57 |
<_alt> |
|
| 58 |
<1>$dateCollected</1> |
|
| 59 |
<2> |
|
| 60 |
<_date> |
|
| 61 |
<day> |
|
| 62 |
<_nullIf> |
|
| 63 |
<null>0</null> |
|
| 64 |
<type>float</type> |
|
| 65 |
<value>$dayCollected</value> |
|
| 66 |
</_nullIf> |
|
| 67 |
</day> |
|
| 68 |
<month> |
|
| 69 |
<_nullIf> |
|
| 70 |
<null>0</null> |
|
| 71 |
<type>float</type> |
|
| 72 |
<value>$monthCollected</value> |
|
| 73 |
</_nullIf> |
|
| 74 |
</month> |
|
| 75 |
<year> |
|
| 76 |
<_nullIf> |
|
| 77 |
<null>0</null> |
|
| 78 |
<type>float</type> |
|
| 79 |
<value>$yearCollected</value> |
|
| 80 |
</_nullIf> |
|
| 81 |
</year> |
|
| 82 |
</_date> |
|
| 83 |
</2> |
|
| 84 |
</_alt> |
|
| 85 |
</collectiondate> |
|
| 86 |
<count>$individualCount</count> |
|
| 87 |
<notes>$occurrenceRemarks</notes> |
|
| 88 |
<plantobservation> |
|
| 89 |
<authorplantcode>$collectorNumber</authorplantcode> |
|
| 90 |
<definedvalue fkey="tablerecord_id"> |
|
| 91 |
<userdefined_id> |
|
| 92 |
<userdefined> |
|
| 93 |
<tablename>plantobservation</tablename> |
|
| 94 |
<userdefinedname>sex</userdefinedname> |
|
| 95 |
</userdefined> |
|
| 96 |
</userdefined_id> |
|
| 97 |
<definedvalue>$sex</definedvalue> |
|
| 98 |
</definedvalue> |
|
| 99 |
<reproductivecondition>$reproductiveCondition</reproductivecondition> |
|
| 100 |
<specimenreplicate> |
|
| 101 |
<catalognumber_dwc>$accessionNumber</catalognumber_dwc> |
|
| 102 |
<collectioncode_dwc>$collection</collectioncode_dwc> |
|
| 103 |
<collectionnumber>$collectorNumber</collectionnumber> |
|
| 104 |
<institution_id> |
|
| 105 |
<sourcelist> |
|
| 106 |
<name>$specimenHolderInstitutions</name> |
|
| 107 |
<sourcename> |
|
| 108 |
<name> |
|
| 109 |
<_split> |
|
| 110 |
<separator>[,;] *</separator> |
|
| 111 |
<value>$specimenHolderInstitutions</value> |
|
| 112 |
</_split> |
|
| 113 |
</name> |
|
| 114 |
</sourcename> |
|
| 115 |
</sourcelist> |
|
| 116 |
</institution_id> |
|
| 117 |
<sourceaccessioncode>$occurrenceID</sourceaccessioncode> |
|
| 118 |
</specimenreplicate> |
|
| 119 |
</plantobservation> |
|
| 120 |
</aggregateoccurrence> |
|
| 121 |
<collector_id><party><fullname>$recordedBy</fullname></party></collector_id> |
|
| 122 |
<iscultivated> |
|
| 123 |
<_map> |
|
| 124 |
<cultivated>t</cultivated> |
|
| 125 |
<wild>f</wild> |
|
| 126 |
<*></*> |
|
| 127 |
<value>$establishmentMeans</value> |
|
| 128 |
</_map> |
|
| 129 |
</iscultivated> |
|
| 130 |
<isnative> |
|
| 131 |
<_map> |
|
| 132 |
<native>t</native> |
|
| 133 |
<exotic>f</exotic> |
|
| 134 |
<*></*> |
|
| 135 |
<value>$establishmentMeans</value> |
|
| 136 |
</_map> |
|
| 137 |
</isnative> |
|
| 138 |
<sourceaccessioncode>$occurrenceID</sourceaccessioncode> |
|
| 139 |
<taxondetermination> |
|
| 140 |
<party_id><party><fullname>$identifiedBy</fullname></party></party_id> |
|
| 141 |
<taxonverbatim_id> |
|
| 142 |
<taxonverbatim> |
|
| 143 |
<taxonlabel_id> |
|
| 144 |
<taxonlabel> |
|
| 145 |
<parent_id> |
|
| 146 |
<taxonlabel> |
|
| 147 |
<rank>$taxonRank</rank> |
|
| 148 |
<parent_id> |
|
| 149 |
<taxonlabel> |
|
| 150 |
<rank>cultivar</rank> |
|
| 151 |
<parent_id> |
|
| 152 |
<taxonlabel> |
|
| 153 |
<rank>forma</rank> |
|
| 154 |
<parent_id> |
|
| 155 |
<taxonlabel> |
|
| 156 |
<rank>variety</rank> |
|
| 157 |
<parent_id> |
|
| 158 |
<taxonlabel> |
|
| 159 |
<rank>subspecies</rank> |
|
| 160 |
<parent_id> |
|
| 161 |
<taxonlabel> |
|
| 162 |
<rank>species</rank> |
|
| 163 |
<taxonepithet>$specificEpithet</taxonepithet> |
|
| 164 |
<parent_id> |
|
| 165 |
<taxonlabel> |
|
| 166 |
<rank>genus</rank> |
|
| 167 |
<taxonepithet>$genus</taxonepithet> |
|
| 168 |
<parent_id> |
|
| 169 |
<taxonlabel> |
|
| 170 |
<rank>family</rank> |
|
| 171 |
<taxonepithet>$family</taxonepithet> |
|
| 172 |
</taxonlabel> |
|
| 173 |
</parent_id> |
|
| 174 |
</taxonlabel> |
|
| 175 |
</parent_id> |
|
| 176 |
</taxonlabel> |
|
| 177 |
</parent_id> |
|
| 178 |
</taxonlabel> |
|
| 179 |
</parent_id> |
|
| 180 |
</taxonlabel> |
|
| 181 |
</parent_id> |
|
| 182 |
</taxonlabel> |
|
| 183 |
</parent_id> |
|
| 184 |
</taxonlabel> |
|
| 185 |
</parent_id> |
|
| 186 |
<taxonepithet>$infraspecificEpithet</taxonepithet> |
|
| 187 |
</taxonlabel> |
|
| 188 |
</parent_id> |
|
| 189 |
<rank>$taxonRank</rank> |
|
| 190 |
<taxonomicname> |
|
| 191 |
<_merge_prefix> |
|
| 192 |
<prefix><_taxon_family_require_std><family>$family</family></_taxon_family_require_std></prefix> |
|
| 193 |
<value> |
|
| 194 |
<_alt> |
|
| 195 |
<1>$scientificName</1> |
|
| 196 |
<2> |
|
| 197 |
<_join_words> |
|
| 198 |
<1> |
|
| 199 |
<_join_words> |
|
| 200 |
<2><_filter_genus><value>$genus</value></_filter_genus></2> |
|
| 201 |
<3>$specificEpithet</3> |
|
| 202 |
<5> |
|
| 203 |
<_join_words> |
|
| 204 |
<1> |
|
| 205 |
<_if name="if has infraspecificEpithet"> |
|
| 206 |
<cond>$infraspecificEpithet</cond> |
|
| 207 |
<then>$taxonRank</then> |
|
| 208 |
</_if> |
|
| 209 |
</1> |
|
| 210 |
<2>$infraspecificEpithet</2> |
|
| 211 |
</_join_words> |
|
| 212 |
</5> |
|
| 213 |
</_join_words> |
|
| 214 |
</1> |
|
| 215 |
<2>$scientificNameAuthorship</2> |
|
| 216 |
</_join_words> |
|
| 217 |
</2> |
|
| 218 |
</_alt> |
|
| 219 |
</value> |
|
| 220 |
</_merge_prefix> |
|
| 221 |
</taxonomicname> |
|
| 222 |
</taxonlabel> |
|
| 223 |
</taxonlabel_id> |
|
| 224 |
<author>$scientificNameAuthorship</author> |
|
| 225 |
<family>$family</family> |
|
| 226 |
<genus>$genus</genus> |
|
| 227 |
<specific_epithet>$specificEpithet</specific_epithet> |
|
| 228 |
<taxonomicname>$scientificName</taxonomicname> |
|
| 229 |
<verbatimrank>$taxonRank</verbatimrank> |
|
| 230 |
</taxonverbatim> |
|
| 231 |
</taxonverbatim_id> |
|
| 232 |
<determinationdate><_dateRangeStart><value>$dateIdentified</value></_dateRangeStart></determinationdate> |
|
| 233 |
<notes>$taxonRemarks</notes> |
|
| 234 |
<taxonfit>$identificationQualifier</taxonfit> |
|
| 235 |
</taxondetermination> |
|
| 236 |
</taxonoccurrence> |
|
| 237 |
</locationevent> |
|
| 236 | 238 |
</locationevent> |
| 237 | 239 |
<locationnarrative> |
| 238 | 240 |
<_merge> |
Also available in: Unified diff
bugfix: mappings/VegCore-VegBIEN.csv: nest all taxonoccurrences inside a stratum event, so that the parent locationevent is always fully populated before child locationevents point to it. (previously, a stub parent event was created when the child event was imported first, which blocked the fully-populated parent event from being inserted later on.) this uses auto-folding (for VegBank/CVS) and auto-forwarding (for other datasources) to prune empty stratum events for taxonoccurrences that don't have strata. (see wiki.vegpath.org/Auto-folding, wiki.vegpath.org/Auto-forwarding for more info about these normalization techniques.) note that the inserted row counts stay exactly the same for all datasources except VegBank (which was being fixed), indicating that this signficant change to the mappings did not change the semantics of the import of taxonoccurrences.