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).
mappings/VegCore.htm: Regenerated from wiki. Remapped organismNotes to be a synonym of occurrenceRemarks, since notes on an organism are more generally notes on an occurrence.
mappings/VegCore.htm: Regenerated from wiki. Documentation has been added on how to choose term names (https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/VegCore#Naming) and how to form globally unique ID values (https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/VegCore#Forming-IDs). Source and Specimen terms have been renamed to be self-explanatory and unambiguous (the DwC equivalents remain as synonyms). Short definitions of Source terms have been added to explain the differences between them. Source, Specimen, and Collection terms have been shortened according to the new instructions for choosing preferred term names (https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/VegCore#Naming).
mappings/VegX-VegCore.csv: Applied term renamings from the new dynamically generated Veg+-VegCore.csv. Updates to VegCore term names that have occurred since the data dictionary was created are now able to take effect, which involves remapping several fields.
mappings/Makefile: VegX-VegCore.csv: Sort by the input column instead of the output column to keep the sort order stable across VegCore term renames
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.
mappings/Veg+-VegCore.csv: Added height
mappings/VegX-VegCore.csv: Translated VegCore terms using Veg+-VegCore.csv
mappings/: Removed now-inaccurate ".stems" suffix from VegX-VegCore.stems.csv, which actually applied to all tables
Merged DwC (including DwC1) and VegCSV mappings into new Veg+ schema. This involves replacing occurrences of DwC and VegCSV with Veg+ (or sometimes VegCore) everywhere, as described in <https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/VegCSV-DwC_merging>.
mappings/VegX-VegCSV.stems.csv: Removed Comments and Source columns because this information is now maintained in mappings/VegCSV-VegBIEN.specimens.csv. This will simplify later VegCSV refactoring, because the Comments and Source columns will not need to be changed along with the VegCSV column.
mappings/VegX-VegCSV.stems.csv: Removed no longer used user-defined terms (simpleUserdefined). Note that CTFS does use user-defined terms, but these are all defined in its own map spreadsheet.
mappings/VegX-VegCSV.stems.csv: Remapped stem notes to new stemNotes term, and mapped new organism notes VegX XPath to now-available DwC fieldNotes
mappings/VegX-VegCSV.stems.csv: Source: Put URLs in the order their terms appear in the VegCSV term name
mappings/VegX-VegCSV.stems.csv: Comments: Changed "Table name" to "Table" to be concise
mappings/VegX-VegCSV.stems.csv: Mapped VegX community fields
mappings/VegX-VegCSV.stems.csv: Mapped VegX cover-related fields
mappings/VegX-VegCSV.stems.csv: Changed authorPlantCode to the associated DwC term fieldNumber
mappings/VegX-VegCSV.stems.csv: Changed locationNarrative to the associated DwC term locality
mappings/VegX-VegCSV.stems.csv: Changed collectedDate to the associated DwC term eventDate
mappings/VegX-VegCSV.stems.csv: Added plot prefix to eventStartDate/eventEndDate to distinguish it from the DwC eventDate, which is the date the specimen was collected
mappings/VegX-VegCSV.stems.csv: Order within table: Updated order #s for salvias_plots terms that got changed to SALVIAS data dictionary terms
mappings/VegX-VegCSV.stems.csv: Changed collector name parts to the associated DwC term recordedBy
mappings/VegX-VegCSV.stems.csv: Mapped SALVIAS voucher type
mappings/VegX-VegCSV.stems.csv: Mapped collector name parts
mappings/VegX-VegCSV.stems.csv: Table names ("." prefixes) merged into name where possible, for consistency. computer taxonomic elements have not been merged because the field part should exactly match the corresponding DwC term.
mappings/VegX-VegCSV.stems.csv: Order within table: If Source has multiple URLs, ensure each source has its own order
mappings/VegX-VegCSV.stems.csv: Order within table: Separate orders of multiple elements with "," instead of ";", for consistency with the Source column
mappings/VegX-VegCSV.stems.csv: Changed authorPlotCode terms to a variation of VegX's plotName, for standardization with VegX
mappings/VegX-VegCSV.stems.csv: Changed uniqueIDs with table names to the table name + "ID", for standardization
mappings/VegX-VegCSV.stems.csv: Changed terms with table names to DwC terms where possible
mappings/VegX-VegCSV.stems.csv: Removed comments about alternate names, as these will be included in a separate "VegCSV-alt" mapping to "VegCSV-core" terms
mappings/VegX-VegCSV.stems.csv: Clarified comments about the inclusion of the table name
mappings/VegX-VegCSV.stems.csv: Mapped plotObservation user-defined terms
mappings/VegX-VegCSV.stems.csv: Mapped VegX plotObservation fields
mappings/VegX-VegCSV.stems.csv: Corrected sources of DwC terms to point to the actual DwC term, where needed. eventDate parts: Added source for VegBank field used as named suffix.
mappings/VegX-VegCSV.stems.csv: Corrected sources of VegX names to point to the actual VegX field name, where needed
mappings/VegX-VegCSV.stems.csv: Mapped SALVIAS stem tags
mappings/VegX-VegCSV.stems.csv: Corrected parent plot-only mappings by prefixing "parentPlot."
mappings/VegX-VegCSV.stems.csv: Mapped VegX //plot/plotName
mappings/VegX-VegCSV.stems.csv: Mapped VegX //plot/plotUniqueIdentifier
mappings/VegX-VegCSV.stems.csv: Source SALVIAS terms from the SALVIAS data dictionary when possible, to provide an automatic link to the description of the term. Having these direct links will also assist in creating a data dictionary for VegCSV and eventually VegBIEN (using mappings/VegCSV-VegBIEN.specimens.csv). Note that many SALVIAS terms exist only in the live database, as they are not part of the export format documented in the data dictionary.
mappings/VegX-VegCSV.stems.csv: Source VegBank terms directly from the appropriate VegBank data dictionary page, to provide an automatic link to the description of the term. Having these direct links will also assist in creating a data dictionary for VegCSV and eventually VegBIEN (using mappings/VegCSV-VegBIEN.specimens.csv).
mappings/VegX-VegCSV.stems.csv: Mapped VegX relativePlotPosition terms
maps with Order column: Renamed Order column to Order within table for clarity
maps with Source column: Added original column name to source URLs, so that source name is completely specified. For official DwC terms, this also allows linking directly to the term. Fixed nimoy phpMyAdmin links so that going to the link in a browser would take you straight there after login.
mappings/VegX-VegCSV.stems.csv: Corrected SALVIAS stem diameter terms to place original name (before expansion for clarity) in the Comments column instead of appending it to the source URL, because the source URL should point just to the table the term is in. The actual term is identified directly by its order # and indirectly by the name of the VegCSV term, which should be similar (if not, the original term should be listed in the comments).
mappings/VegX-VegCSV.stems.csv: Mapped SALVIAS stem diameter terms
mappings/VegX-VegCSV.stems.csv: Mapped VegX project terms
mappings/VegX-VegCSV.stems.csv: VegX plot terms: Added order
mappings/VegX-VegCSV.stems.csv: Mapped non-user-defined height XPath
mappings/VegX-VegCSV.stems.csv: Changed source of height to VegX, because there is a VegX height field
mappings/VegX-VegCSV.stems.csv: Mapped VegX plot terms except unique keys
mappings/VegX-VegCSV.stems.csv: Mapped remaining sourceAccessionCode user-defined terms to <VegX-table>.uniqueID
mappings/VegX-VegCSV.stems.csv: Corrected sources of VegX names to point to the appropriate element in veg.xsd, rather than the appropriate type, because the names we used actually came from veg.xsd's top-level elements rather than from the type names
mappings/VegX-VegCSV.stems.csv: Changed plantObservation.sourceAccessionCode to individualOrganismObservation.uniqueID, to be consistent with VegX names. (*source*AccessionCode only applies to an aggregate DB that preserves info from its inputs. accessionCode made less sense, because this field is for the datasource's primary key, which it may or may not consider an accession code.)
mappings/VegX-VegCSV.stems.csv: Mapped aggregateOrganismObservation terms
mappings/VegX-VegCSV.stems.csv: Changed base back to baseSaturation to distinguish this pH-related concept from other meanings of base, and to match VegBank
mappings/VegX-VegCSV.stems.csv: Removed no longer applicable comments, which were from the very first NY/SALVIAS->VegX/VegBank mapping and had been preserved by the map spreadsheet transformation scripts
mappings/VegX-VegCSV.stems.csv: Mapped individualOrganismObservation user-defined terms
mappings/VegX-VegCSV.stems.csv: Mapped VegBank and SALVIAS abioticObservation terms
mappings/VegX-VegCSV.stems.csv: Resolved ambiguous terms that appeared twice on the output side
mappings/VegX-VegCSV.stems.csv: Mapped VegX abioticObservation terms
mappings/VegX-VegCSV.stems.csv: Mapped standard DwC terms
mappings/DwC2-VegBIEN.specimens.csv, DwC1-DwC2.specimens.csv: Sources: Replaced DwC with http://rs.tdwg.org/dwc/terms/, because DwC terms can come from many places but the DwC source referred specifically to this web page
mappings/VegX-VegCSV.stems.csv: Added "computer." before taxonomic terms whose VegX mapping used the "computer" role. (This is useful for datasources that supply separate determinations in the same row, such as SALVIAS.)
mappings/DwC2-VegBIEN.specimens.csv: Added Source column containing "DwC" for every field with a an entry in the Order column, so that the source of the term can be tracked once we start combining DwC and VegCSV
Added mappings/VegX-VegCSV.stems.csv. The initial version is autogenerated by joining the simplified VegBIEN XPaths of related maps.
