Renaming function and variables

[rafnuss]

Renaming function and variables

[Rafnuss]

Brainstorm

pam

• pam (pressure-acceleration-magnetism)
• ✅ tag (https://www.movebank.org/cms/movebank-content/movebank-attribute-dictionary#tag_terms), but use data logger in the text
• gl used in paper
• gdl from gdl_id. seems to be mainly used by SOI.
• gls global location sensor
• dl for datalogger
• log, logger
• sensor

sta

Need to think of the elevation/alitutde/local period.

• keep sta
• ✅ stap
• sp
• stpe

GeoLight

Utilisation: solar, refracted, find_twilights, light2mat

• ✅ geolight_*
• gl_*

geopressure_*

• ✅ geopressure_*
• gp_*

geopressure_map()

• geopressure_mismatch_mask()
• geopressure_mse_mask()
• geopressure_error()
• ✅ geopressure_mismatch()

geopressure_prob_map()

• geopressure_ll()
• ✅ geopressure_likelihood()

geopressure_ts_*()

• ✅geopressure_timeseries()
• ✅geopressure_timeseries_path()

prob

• keep prob
• ✅ likelihood
• ~~L lh, ~~
• lm for likelihood map
• plm
• llhdor ll

graph

• ✅ keep graph
• trajectory
• hmm
• Static probability static_prob, grl$ps -> observation likelihood obs_likelihood grl$O
• grl$ps -> grl$likelihood (target likelihood and not source).
• thr_prob_percentile -> thr_likelihood
• thr_gs -> thr_gs

[Rafnuss]

Script to get all arguements

tmp <- do.call(rbind, lapply(ls("package:GeoPressureR"), function(fn_name){
  fn <- tryCatch(get(fn_name, mode = "function", envir = asNamespace('GeoPressureR')), error = function(e) NULL)
  tmp <- data.frame(
    arg = names(formals(fn))
  )
  tmp$fun <- fn_name
  return(tmp)
}))
write.csv(tmp, file = "~/Downloads/arg.csv")