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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 5126 over 12 years Aaron Marcuse-Kubitza tnrs_db: Exclude taxonomic names which have alr...
  config 272 about 13 years Aaron Marcuse-Kubitza Moved bien_password to new config dir
  inputs 5135 over 12 years Aaron Marcuse-Kubitza schemas/vegbien.sql: taxonpath: Made taxonomicn...
  lib 5129 over 12 years Aaron Marcuse-Kubitza sql_io.py: cleanup_table(): Don't clean up the ...
  mappings 5132 over 12 years Aaron Marcuse-Kubitza mappings/VegCore-VegBIEN.csv, VegCore.csv: Remo...
  schemas 5135 over 12 years Aaron Marcuse-Kubitza schemas/vegbien.sql: taxonpath: Made taxonomicn...
  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 9.99 KB 4752 over 12 years Aaron Marcuse-Kubitza root Makefile: PostgreSQL: postgres-Linux: Adde...
README.TXT 11.3 KB 5040 over 12 years Aaron Marcuse-Kubitza README.TXT: Data import: Starting column-based ...
map 1.28 KB 4981 over 12 years Aaron Marcuse-Kubitza root map: Fixed custom public schema override t...
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
5135 10/01/2012 03:25 PM Aaron Marcuse-Kubitza

schemas/vegbien.sql: taxonpath: Made taxonomicnamewithauthor optional again and include all columns in the taxonpath_unique_within_datasource_by_name unique index so that the original name components can be stored in a separate taxonpath from the taxonpath with the concatenated taxonomic name. (The datasource's taxonpath would not always contain an entry for taxonomicnamewithauthor, so the other columns also need to be used in the unique index.)

5134 10/01/2012 02:57 PM Aaron Marcuse-Kubitza

schemas/vegbien.sql: taxonpath: Added back datasource_id, plantcode to make taxonpath datasource-specific again. This way, the original name components can still be stored in taxonpath, in addition to storing the concatenated name in a datasource-general taxonpath for use by TNRS.

5133 09/28/2012 03:46 PM Aaron Marcuse-Kubitza

inputs/.TNRS/tnrs/map.csv: Mapped columns for components of original, submitted name

5132 09/28/2012 03:33 PM Aaron Marcuse-Kubitza

mappings/VegCore-VegBIEN.csv, VegCore.csv: Removed no longer used verbatimScientificNameWithAuthorship. Use scientificNameWithAuthorship instead, and map accepted (scrubbed) names to acceptedScientificNameWithAuthorship to create the canon_taxonpath_id link.

5131 09/28/2012 03:28 PM Aaron Marcuse-Kubitza

inputs/.TNRS/tnrs/map.csv: Remapped to new accepted* taxonomic terms

5130 09/28/2012 03:23 PM Aaron Marcuse-Kubitza

mappings/VegCore-VegBIEN.csv: Mapped accepted* taxonomic terms

5129 09/28/2012 03:00 PM Aaron Marcuse-Kubitza

sql_io.py: cleanup_table(): Don't clean up the pkey, because the canonicalization involved may produce collisions (as it does for TNRS.tnrs)

5128 09/28/2012 02:58 PM Aaron Marcuse-Kubitza

sql.py: Added pkey_col_()

5127 09/28/2012 02:31 PM Aaron Marcuse-Kubitza

tnrs.py: tnrs_request(): Added comment that names containing only whitespace characters are ignored by TNRS and do not receive a response row. Our tnrs_db and reimport pipeline handles the necessary re-matching-up by just creating taxonpaths for each Name_submitted, and then letting the data import process on the following import attach to the prepopulated taxonpaths.

5126 09/28/2012 02:17 PM Aaron Marcuse-Kubitza

tnrs_db: Exclude taxonomic names which have already been scrubbed, by using a filter-out LEFT JOIN on TNRS.tnrs

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