• using R version 3.5.0 (2018-04-23)
• using platform: x86_64-pc-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘geoR/DESCRIPTION’ ... OK
• this is package ‘geoR’ version ‘1.7-5.2’
• checking package namespace information ... OK
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking for executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking serialization versions ... OK
• checking whether package ‘geoR’ can be installed ... OK
• checking package directory ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level files ... OK
• checking for left-over files ... OK
• checking index information ... OK
• checking package subdirectories ... OK
• checking R files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... OK
• checking whether the package can be loaded with stated dependencies ... OK
• checking whether the package can be unloaded cleanly ... OK
• checking whether the namespace can be loaded with stated dependencies ... OK
• checking whether the namespace can be unloaded cleanly ... OK
• checking loading without being on the library search path ... OK
• checking use of S3 registration ... OK
• checking dependencies in R code ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... [51s/62s] NOTE
  .ldots.set: no visible global function definition for ‘getS3method’
  grf: no visible global function definition for ‘chull’
  image.grf: no visible global function definition for ‘heat.colors’
  image.krige.bayes: no visible global function definition for
    ‘heat.colors’
  legend.krige: no visible global function definition for ‘heat.colors’
  points.geodata: no visible global function definition for
    ‘terrain.colors’
  points.geodata: no visible global function definition for ‘gray’
  read.geodata: no visible global function definition for ‘read.table’
  Undefined global functions or variables:
    chull getS3method gray heat.colors read.table terrain.colors
  Consider adding
    importFrom("grDevices", "chull", "gray", "heat.colors",
               "terrain.colors")
    importFrom("utils", "getS3method", "read.table")
  to your NAMESPACE file.
  
  Found the following assignments to the global environment:
  File ‘geoR/R/auxiliar.R’:
    assign(".objfuncQQ", objfunc, pos = 1)
    assign(".bounds.list", .bounds.list, pos = 1)
    assign("madtonormalQQ", madtonormalQQ, pos = 1)
  File ‘geoR/R/likGRF.R’:
    assign(".likGRF.dists.vec", lapply(split(as.data.frame(coords),
      realisations), vecdist), pos = 1)
    assign(".likGRF.dists.vec", lapply(split(as.data.frame(coords),
      realisations), vecdist), pos = 1)
    assign(".likGRF.dists.vec", lapply(split(as.data.frame(coords.c),
      temp.list$realisations), vecdist), pos = 1)
    assign(".temp.lower.lambda", -2, pos = 1)
    assign(".temp.upper.lambda", 2, pos = 1)
  File ‘geoR/R/profiles.R’:
    assign(".temp.list", list(n = n, z = data, beta.size = dim(trend)[2],
      kappa = obj.likfit$kappa, xmat = trend, method.lik = obj.likfit$method.lik,
      dists.lowertri = dists.vec, cov.model = obj.likfit$cov.model,
      fix.lambda = obj.likfit$transform.info$fix.lambda, lambda = obj.likfit$lambda,
      lower.phi = lower.phi, upper.phi = upper.phi, lower.sigmasq = lower.sigmasq,
      phi.est = phi, tausq.rel.est = tausq.rel, tausq.est = tausq,
      sigmasq.est = sigmasq), pos = 1)
    assign(".temp.temp.list", get(".temp.list", pos = 1), pos = 1)
    assign(".temp.list", .temp.temp.list, pos = 1)
    assign(".temp.lambda", lambda, pos = 1)
    assign(".temp.lambda", lambda, pos = 1)
  File ‘geoR/R/simul.R’:
    assign("setRF", geoR2RF(cov.model = cov.model, cov.pars = cov.pars,
      nugget = nugget, kappa = kappa, aniso.pars = aniso.pars),
      pos = 1)
  File ‘geoR/R/variofit.R’:
    assign(".temp.theta", NULL, pos = 1)
    assign(".temp.theta", theta, pos = 1)
    assign(".IND.geoR.variog.model.env", TRUE, pos = 1)
  File ‘geoR/R/variogram.R’:
    assign(".variog4.nomessage", TRUE, pos = 1)
  
  Found the following calls to attach():
  File ‘geoR/R/auxiliar.R’:
    attach(geodata, pos = 2, warn.conflicts = FALSE)
    attach(geodata$covariate, pos = 3, warn.conflicts = FALSE)
  File ‘geoR/R/geobayes.R’:
    attach(x, pos = 2, warn.conflicts = FALSE)
    attach(x, pos = 2, warn.conflicts = FALSE)
    attach(x, pos = 2, warn.conflicts = FALSE)
  File ‘geoR/R/geodata.R’:
    attach(x, pos = 2, warn.conflicts = FALSE)
    attach(x, pos = 2, warn.conflicts = FALSE)
  File ‘geoR/R/kriging.R’:
    attach(x, pos = 2, warn.conflicts = FALSE)
    attach(x, pos = 2, warn.conflicts = FALSE)
    attach(x, pos = 2, warn.conflicts = FALSE)
  See section ‘Good practice’ in ‘?attach’.
• checking Rd files ... OK
• checking Rd metadata ... OK
• checking Rd line widths ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking contents of ‘data’ directory ... OK
• checking data for non-ASCII characters ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking line endings in C/C++/Fortran sources/headers ... OK
• checking pragmas in C/C++ headers and code ... OK
• checking compilation flags used ... OK
• checking compiled code ... NOTE
  File ‘geoR/libs/geoR.so’:
    Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
  
  It is good practice to register native routines and to disable symbol
  search.
  
  See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
• checking installed files from ‘inst/doc’ ... OK
• checking examples ... ERROR
  Running examples in ‘geoR-Ex.R’ failed
  The error most likely occurred in:
  
  > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
  > ### Name: lines.variogram.envelope
  > ### Title: Adds Envelopes Lines to a Variogram Plot
  > ### Aliases: lines.variogram.envelope
  > ### Keywords: spatial aplot
  >
  > ### ** Examples
  >
  > s100.vario <- variog(s100, max.dist = 1)
  variog: computing omnidirectional variogram
  > s100.ml <- likfit(s100, ini=c(.5, .5))
  ---------------------------------------------------------------
  likfit: likelihood maximisation using the function optim.
  likfit: Use control() to pass additional
           arguments for the maximisation function.
          For further details see documentation for optim.
  likfit: It is highly advisable to run this function several
          times with different initial values for the parameters.
  likfit: WARNING: This step can be time demanding!
  ---------------------------------------------------------------
  likfit: end of numerical maximisation.
  > s100.mod.env <- variog.model.env(s100, obj.variog = s100.vario,
  + model = s100.ml)
  Error in if (class(model.pars) == "eyefit") { :
    the condition has length > 1
  Calls: variog.model.env
  Execution halted
• checking PDF version of manual ... OK
• DONE

Status: 1 ERROR, 2 NOTEs