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Name Size Revision Age Author Comment
  _archive 1598 almost 13 years Aaron Marcuse-Kubitza Moved _archive/tapir2flatClient/trunk/client/ t...
  analysis 3076 over 12 years Aaron Marcuse-Kubitza Added top-level analysis dir for range modeling
  backups 4751 over 12 years Aaron Marcuse-Kubitza backups/Makefile: Backups: Full DB: Specify the...
  bin 5467 about 12 years Aaron Marcuse-Kubitza schemas/vegbien.sql: taxonconcept: Renamed cano...
  config 272 about 13 years Aaron Marcuse-Kubitza Moved bien_password to new config dir
  inputs 5491 about 12 years Aaron Marcuse-Kubitza Added inputs/.NCBI/. This uses many of the new ...
  lib 5491 about 12 years Aaron Marcuse-Kubitza Added inputs/.NCBI/. This uses many of the new ...
  mappings 5490 about 12 years Aaron Marcuse-Kubitza mappings/VegCore-VegBIEN.csv: identifyingtaxono...
  schemas 5492 about 12 years Aaron Marcuse-Kubitza schemas/: svn:ignore log files
  to_do 4524 over 12 years Aaron Marcuse-Kubitza to_do/timeline.doc: Updated to reflect addition...
  validation 4523 over 12 years Aaron Marcuse-Kubitza Added validation/
Makefile 9.86 KB 5459 about 12 years Aaron Marcuse-Kubitza Makefile: Moved setting of $(root) before inclu...
README.TXT 12.8 KB 5461 about 12 years Aaron Marcuse-Kubitza README.TXT: Use new revision # in log filenames...
map 989 Bytes 5158 about 12 years Aaron Marcuse-Kubitza root map: Removed no longer needed public schem...
new_terms.csv 30.4 KB 4887 over 12 years Aaron Marcuse-Kubitza Regenerated root unmapped_terms.csv, new_terms.csv
unmapped_terms.csv 5.8 KB 4887 over 12 years Aaron Marcuse-Kubitza Regenerated root unmapped_terms.csv, new_terms.csv

Latest revisions

# Date Author Comment
5492 10/12/2012 05:14 PM Aaron Marcuse-Kubitza

schemas/: svn:ignore log files

5491 10/12/2012 05:11 PM Aaron Marcuse-Kubitza

Added inputs/.NCBI/. This uses many of the new schema and mappings features, such as taxonconcept.sourceaccessioncode and parentTaxonID

5490 10/12/2012 05:07 PM Aaron Marcuse-Kubitza

mappings/VegCore-VegBIEN.csv: identifyingtaxonomicname: Don't create if taxonconcept has an explicit parent, because the taxonName (which is generally only a component of the full taxonomic name, e.g. specificEpithet) is not globally unique. Datasources that provide name components in such a way that levels at or below family can't be directly concatenated cannot currently receive an identifyingtaxonomicname for input to TNRS.

5489 10/12/2012 04:54 PM Aaron Marcuse-Kubitza

mappings/VegCore-VegBIEN.csv: taxonName->identifyingtaxonomicname: Don't include the rank with the taxonName, because TNRS only allows the rank to be included in the taxonomic name if it's infraspecific (otherwise, it returns no or an invalid match due to the presence of what it sees as an invalid term or a name component)

5488 10/12/2012 04:48 PM Aaron Marcuse-Kubitza

mappings/VegCore-VegBIEN.csv: Mapped taxonName to the TNRS input taxonconcept's identifyingtaxonomicname

5487 10/12/2012 04:28 PM Aaron Marcuse-Kubitza

mappings/VegCore-VegBIEN.csv: Only forward taxonRank to the parent taxonconcept (which stores the infraspecific taxonconcept when the infraspecificEpithet is provided) if there is no explicit parent provided via parentTaxonID/etc.

5486 10/12/2012 04:09 PM Aaron Marcuse-Kubitza

mappings/VegCore-VegBIEN.csv: Mapped parentScientificNameID, parentTaxonConceptID, parentTaxonID

5485 10/12/2012 04:03 PM Aaron Marcuse-Kubitza

mappings/VegCore.csv: Added parentScientificNameID, parentTaxonConceptID, parentTaxonID

5484 10/12/2012 03:53 PM Aaron Marcuse-Kubitza

input.Makefile: $(inDatasrc): Also include the vegbien_dest $schemas in the search_path, so that the datasource's SQL scripts (create.sql, etc.) can use VegBIEN functions and types

5483 10/12/2012 03:44 PM Aaron Marcuse-Kubitza

lib/common.Makefile: Added $(comma)

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