inst/testdata-raw/create-testdata-ploglik_cmodStd_r_psill_angle_geoR.R

In gear: Geostatistical Analysis in R

set.seed(55)
rpa_data = geoR::grf(25, cov.pars = c(1, 1), nugget = 0.1,
              messages = FALSE)
y = rpa_data$data
x = matrix(1, nrow = length(y))
coords = rpa_data$coords
d = ganiso_d(rpa_data$coords, coords2 = rpa_data$coords, 
             invert = TRUE)
geoR_ml = geoR::likfit(rpa_data, ini = c(1, 1), 
                       nugget = 0.1, psiA = pi/8,
                       psiR = 1.5, 
                       fix.nug = TRUE, fix.psiA = FALSE, 
                       messages = FALSE)
geoR_reml = geoR::likfit(rpa_data, ini = c(1, 1), 
                         nugget = 0.1, 
                         fix.nug = TRUE, messages = FALSE, 
                         fix.psiA = FALSE, psiA = pi/8,
                         psiR = 1.5, 
                         lik.method = "REML")

aniso_coords = geoR::coords.aniso(coords, aniso.pars = geoR_reml$aniso.pars)
rpa_data_noaniso = rpa_data
rpa_data_noaniso$coords = aniso_coords
geoR_reml_noaniso = geoR::likfit(rpa_data_noaniso, ini = c(1, 1),
                                 nugget = 0.1, fix.nug = TRUE,
                                 fix.psiA = TRUE,
                                 messages = FALSE,
                                 lik.method = "REML")

geoR_ml_loglik = geoR::loglik.GRF(rpa_data, obj.model = geoR_ml)
geoR_reml_loglik = geoR::loglik.GRF(rpa_data, obj.model = geoR_reml)
geoR_reml_noaniso_loglik = geoR::loglik.GRF(rpa_data_noaniso, obj.model = geoR_reml_noaniso)

kc_ml = geoR::krige.control(obj.model = geoR_ml)
geoR_out = geoR::output.control(messages = FALSE)
geoR_ml_beta = geoR::krige.conv(rpa_data, krige = kc_ml,
                                locations = cbind(1, 1),
                                output = geoR_out)$beta.est
kc_reml = geoR::krige.control(obj.model = geoR_reml)
geoR_reml_beta = geoR::krige.conv(rpa_data, krige = kc_reml,
                                  locations = cbind(1, 1),
                                  output = geoR_out)$beta.est

# save output
fpath = system.file("testdata",  package = "gear")
fname = paste(fpath, "/ploglik_cmodStd_r_psill_angle.rda", sep = "")
save(x, y, d, coords, geoR_ml, geoR_reml,
     geoR_ml_loglik, geoR_reml_loglik, geoR_reml_noaniso_loglik,
     geoR_ml_beta, geoR_reml_beta,
     compress = "bzip2",
     file = fname,
     version = 2)