gbif-europe/nordic_oikos_2018_r

Scientific reuse of openly published biodiversity information: Programmatic access to and analysis of primary biodiversity information using R. Nordic Oikos 2018, pre-conference R workshop. Venue: 18. feb. 2018 10:00 - 19. feb. 2018 16:00, Trondheim

nordic_oikos_2018_r's Issues

Improvements for next course

Simple list of issues / improvements noted during Nordic OIKOS Workshop

Please feel free to amend or comment on the list so that we have something to grab hold of when keeping this course next time.

• There was quite a lot of time spent on getting the technicalities working. Either technicalities like working with git or github and installing various packages. Working through a cloud service like https://rstudio.cloud/ may speed up things. Docker is also a possibility, but would require students to install this first (maybe high user threshold?)

• Make sure the scripts (to as large extent as possible) are system agnostic, i.e. works on both windows, mac and linux.

• A gentle introduction to standards (DwC, EML) at the start of the course may help users faster recognize the data and data-structures.

polygon filtering in occ_download

I can't (for some reason) don't get my head around using polygons as filtering in occ_download (probably just a stupid error somewhere).

occ_download('taxonKey = 2346633,2366645','hasCoordinate = TRUE',
                             'hasGeospatialIssue = FALSE',
                             'country = NO',
                             'geometry = POLYGON((9.33 62.80,9.33 64.20,12.13,64.20,12.13,62.80,9.33 62.80))',
                             type="and")

This will return "Error: Bad Request (HTTP 400)". (with the line 'geometry..." hashed out it works fine).
Full example in the "Search and request download key" section of async_download_gbif.Rmd