Review files

[peterdesmet]

This PR builds upon functionality created by @damianooldoni in get_taxa_populate_spreadsheet branch, with major revisions.

get_taxa.Rmd

Reviewed + outputs ALL checklist taxa, with validDistribution column.

Output:

• data/raw/checklists.csv
• data/raw/taxa.csv

get_information.Rmd

Replaces standardize_save_unified_checklist.Rmd (I think) and queries related information for taxa that have a valid distribution.

Output:

• data/raw/distributions.csv
• data/raw/speciesprofiles.csv
• data/raw/descriptions.csv

verify_taxa.Rmd

Renamed verify_synonyms.Rmd, but otherwise untouched. Should be updated in next step.

unify_information.Rmd

Replaces unify_info_from_checklists.Rmd and uses a simplified way of unifying the information (first within checklist, than across checklist for all related information), but generally still follows the description of the Google Doc.

Output:

• data/unified/distributions.csv
• data/unified/speciesprofiles.csv
• data/unified/descriptions.csv

Further

• Unused or renamed data files have been removed
• Some data directories need cleanup still
• Added a test directory
• The verify_taxa.Rmd step is skipped for now (unify_information.Rmd unifies on bb_key)
• taxa.csv itself is not yet unified
• DwC data can be build from information in data/unified