moved everything into /trunk/ to create the standard svn layout, for use with tools that require this (eg. git-svn). IMPORTANT: do NOT do an `svn up`. instead, re-use your working copy's existing files with `svn switch` (http://svnbook.red-bean.com/en/1.6/svn.ref.svn.c.switch.html).
inputs/VegBank/plot/postprocess.sql: locality: include the site name (authorlocation), because this is part of the unique specification of the place that was sampled
bugfix: inputs/VegBank/: need to remove inter-datasource duplicates from plot instead of the left-joined plot_ table, because the fkeys needed to do the cascading deletes are all to the plot table. this requires doing the column-renaming and postprocessing on plot before it's left-joined.
inputs/VegBank/: prepended the table name to each column name to prevent column collisions, using the steps at http://wiki.vegpath.org/Left-joining_a_datasource
inputs/VegBank/: switched to new-style import, using the steps at http://wiki.vegpath.org/Adding_new-style_import_to_a_datasource
inputs/VegBank/plot_/: translated multi-column filters to postprocessing derived columns, using the steps at http://wiki.vegpath.org/Adding_new-style_import_to_a_datasource#Translating-filters-to-postprocessing-derived-columns
inputs/VegBank/plot_/: translated single-column filters to postprocessing derived columns, using the steps at http://wiki.vegpath.org/Adding_new-style_import_to_a_datasource#Translating-filters-to-postprocessing-derived-columns
inputs/VegBank/plot_/map.csv: area|country|territory, region|state|province (from place table): remapped to DUPLICATE, since these have the same data as, and are populated less often than, their country/stateprovince couterparts
inputs/VegBank/plot_/map.csv: elevation: documented that it has only 5 decimal places of precision, with only 9s and random #s after that
inputs/*/*/map.csv: added distinguishing #... suffix (e.g. UNUSED#institutionID) to the special terms OMIT, PRIVATE, UNUSED (VegCore.vegpath.org#Special-terms) to avoid creating a collision in the staging table renaming
inputs/input.Makefile: %/.map.csv.last_cleanup: Run fix_line_endings after canon/translate to standardize Python's \r\n line endings back to \n. This prevents issues with mixed line endings because LibreOffice (and probably Excel) treat all cell-internal line endings as \n but row line endings as whatever the file had, while text editors like jEdit translate all line endings to whatever the autodetected line ending is. (This creates spurious line ending diffs when a map spreadsheet containing multiline cells is edited in a text editor.)
mappings/VegCore.csv: Terms: Removed namespace prefixes (dcterms:), because VegCore terms are globally unique within VegCore and there should not be multiple versions of the same VegCore term with different namespaces. Provenance is instead indicated in the Sources column, which contains not just a namespace but a full URL to each source term.
mappings/VegCore.csv: Term names: Changed special characters to _ because Redmine doesn't support special characters in HTML anchors (it removes everything except letters, numbers, _, and -)
inputs/VegBank/plot_/map.csv: Mapped confidentialitystatus to coordinateUncertaintyInMeters, overriding locationaccuracy when the confidentialitystatus indicates fuzzing
mappings/VegCore.csv: Renamed plotName to locationName because this term also applies to the location of a specimen. This replaces CTFS's definition of locationName as locality.
inputs/VegBank/plot_/map.csv: confidentialitystatus filter: Merged mappings for 0 with other public-equivalent fields. Note that fuzzed plots are still public, because the private columns have been removed.
inputs/VegBank/plot_/map.csv: Mapped confidentialitystatus to dcterms:accessRights with an appropriate _map filter
inputs/VegBank/vegbank.~.clean_up.sql: Remove private columns (plot.reallatitude, reallongitude) that should not be publicly visible
input.Makefile: Staging tables installation: `%/install: %/create.sql`: Don't add a row number column to the created table because it is now added automatically to the temp table by column-based import (row-based import now also does not require a pkey for DB inputs)
inputs/*/*/map.csv: Prefix a * to every term that's not in Veg+ for easy identification of unmapped terms when editing map.csv. Note that canon will remove the * when it finds a matching Veg+ term.
inputs/*/*/map.csv: Remapped latitude/longitude to decimalLatitude/Longitude because these fields almost always have units of decimal degrees
Regenerated unmapped_terms.csv, new_terms.csv
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.
inputs/VegBank/plot_/map.csv: Remapped elevation from verbatimElevation to elevationInMeters, since the values are all decimals. The units come from the data dictionary.
inputs/VegBank/plot_/map.csv: Documented that elevationrange is unused
inputs/*/*/map.csv: Remapped applicable plotArea fields to plotArea_m2
inputs/*/*/map.csv: Changed output column header from Veg+ to VegCore because the names will be VegCore names after automapping. This is possible now that we're using new automapping scripts that do not require a particular column header.
inputs/*/*/map.csv: Added Filter column to contain any suffix added after the term, so that the automapping mechanism does not have to deal with the filter expressions
inputs/*/*/map.csv: Removed no longer needed [Veg+] suffix in root, because the input column is no longer used by old-style map utilities such as union that needed this
inputs/*/*/map.csv: Changed empty mappings to self mappings, using the steps at <https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/Map_refactoring#Change-empty-mappings-to-self-mappings>. Note that in map.full.csv and VegBIEN.csv, lines that have changed are always the result of the input field's case being changed to match the case of the datasource's actual column name.
inputs/*/*/map.csv: Added back automapped mappings to map.csv, using the steps at <https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/Map_refactoring#Add-back-automapped-mappings-to-mapcsv>
input.Makefile: Maps building: %/.map.csv.last_cleanup: Translate map.csv using $(mappings)/$(via)-VegCore.csv
mappings/VegCore-VegBIEN.csv: Mapped min/max SlopeAspect/SlopeGradient. Note that this allows the min/maxSlopeAspect values to bypass the additional _compass filter that is applied to slopeAspect.
inputs/VegBank/plot_/map.csv: Omit reallatitude/reallongitude because private data should not be placed in a public database
inputs/VegBank/: Added plot_/
