Simplify GLATOS dependencies, especially plyr

[jdpye]

In GitLab by @jdpye on Mar 18, 2020, 09:50

Ran a dependency analysis with pkgnet and discovered a whole bunch of dependencies. Some of this can be mitigated by dropping plyr wherever we're using it, but while we have this opportunity we should see what other packages we are hanging this one on and whether we can cut that down.

Version	0.4.1
Date	2020-02-18
Depends	R (>= 3.2.0)
Imports	av, cellranger, data.table, fasterize, fasttime, gdalUtils, gdistance, geosphere, jsonlite, knitr, lubridate, magrittr, methods, openxlsx (>= 4.0.0), PBSmapping, plotrix, plotly, plyr, purrr, raster, readxl, rgdal, rgeos, sf, sp, tibble, tidyr
Suggests	gganimate, gifsky, GISTools, png, rmarkdown, tint

NB: You can generate a report of your own, with an interactive node-tree diagram, as a HTML page set w/ pkgnet by running:

library(pkgnet)
report<- pkgnet::CreatePackageReport('glatos')

[mhpob]

Notes regarding this from working on #187:

• As outlined in 376cadb1227f20aa54abe5c2a04441765a0fb9a9, plotly seems to be unused and can be dropped
• tint also doesn't seem to be used (at least in main) and could be dropped
• knitr can move from Imports to Suggests (it's only used to build vignettes)
  • possible that rmarkdown can also be moved, but I'm not 100%
• fasttime was apparently removed in v0.3.0. lubridate still calls it, but it may not need to be in glatos dependencies
• magrittr dependency could be removed if depending on R >= 4.1.0 and using the native pipe |>. No dot functionality that magrittr allows over the native pipe is used, so it'd just be a matter of finding and replacing.

If you want to skip using pkgnet, you can see the dependencies (and their dependencies) a couple lines down the R-universe page: https://ocean-tracking-network.r-universe.dev/glatos

[mhpob]

zip is used in one place (position_heat_map). Purposefully introduced in https://github.com/ocean-tracking-network/glatos/commit/e93d5ed2f5fc0b3a41c4fa25dd2b28d5559eccce. Added to DESCRIPTION in https://github.com/ocean-tracking-network/glatos/pull/204/commits/c046cc51e598350b347417806188392a0ad08085

[mhpob]

unit is used in one place (vis-make_transition3). Added to DESCRIPTION in a50334a, seems to have been mistakenly removed in a merge conflict immediately after.

[mhpob]

gdalUtilities (gdalUtils here) is used in one place (vis-make_transition) and is warned for removal. gdalUtilities dependency can be removed with refactoring to sf::gdal_utils or final removal of make_transition; see #234.