CRAN Package Check Results for Package geoR

Last updated on 2016-12-05 12:51:30.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.7-5.2 4.27 88.15 92.41 NOTE
r-devel-linux-x86_64-debian-gcc 1.7-5.2 4.08 88.93 93.01 NOTE
r-devel-linux-x86_64-fedora-clang 1.7-5.2 156.21 NOTE --no-stop-on-test-error
r-devel-linux-x86_64-fedora-gcc 1.7-5.2 152.40 NOTE --no-stop-on-test-error
r-devel-macos-x86_64-clang 1.7-5.2 127.87 NOTE
r-devel-windows-ix86+x86_64 1.7-5.2 14.00 205.00 219.00 NOTE
r-patched-linux-x86_64 1.7-5.2 3.78 78.24 82.02 NOTE
r-patched-solaris-sparc 1.7-5.2 14.60 ERROR
r-patched-solaris-x86 1.7-5.2 3.00 ERROR
r-release-linux-x86_64 1.7-5.2 4.30 78.20 82.50 NOTE
r-release-osx-x86_64-mavericks 1.7-5.2 WARN
r-release-windows-ix86+x86_64 1.7-5.2 16.00 136.00 152.00 NOTE
r-oldrel-windows-ix86+x86_64 1.7-5.2 17.00 144.00 161.00 OK

Memtest notes: valgrind

Check Details

Version: 1.7-5.2
Check: R code for possible problems
Result: 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’.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64

Version: 1.7-5.2
Flags: --no-stop-on-test-error
Check: R code for possible problems
Result: 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)
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 1.7-5.2
Flags: --no-stop-on-test-error
Check: R code for possible problems
Result: 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.
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 1.7-5.2
Check: R code for possible problems
Result: 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)
Flavor: r-devel-macos-x86_64-clang

Version: 1.7-5.2
Check: R code for possible problems
Result: 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.
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64

Version: 1.7-5.2
Check: package dependencies
Result: ERROR
    Package required but not available: ‘RandomFields’
    
    Package suggested but not available for checking: ‘geoRglm’
    
    See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
    manual.
Flavors: r-patched-solaris-sparc, r-patched-solaris-x86

Version: 1.7-5.2
Check: dependencies in R code
Result: NOTE
    Invalid MIT-MAGIC-COOKIE-1 key
Flavor: r-release-osx-x86_64-mavericks

Version: 1.7-5.2
Check: S3 generic/method consistency
Result: WARN
    Invalid MIT-MAGIC-COOKIE-1 key
    See section ‘Generic functions and methods’ in the ‘Writing R
    Extensions’ manual.
Flavor: r-release-osx-x86_64-mavericks

Version: 1.7-5.2
Check: replacement functions
Result: WARN
    Invalid MIT-MAGIC-COOKIE-1 key
    The argument of a replacement function which corresponds to the right
    hand side must be named ‘value’.
Flavor: r-release-osx-x86_64-mavericks

Version: 1.7-5.2
Check: foreign function calls
Result: NOTE
    Invalid MIT-MAGIC-COOKIE-1 key
    See chapter ‘System and foreign language interfaces’ in the ‘Writing R
    Extensions’ manual.
Flavor: r-release-osx-x86_64-mavericks

Version: 1.7-5.2
Check: R code for possible problems
Result: NOTE
    Invalid MIT-MAGIC-COOKIE-1 key.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.
Flavor: r-release-osx-x86_64-mavericks

Version: 1.7-5.2
Check: for missing documentation entries
Result: WARN
    Invalid MIT-MAGIC-COOKIE-1 key
    All user-level objects in a package should have documentation entries.
    See chapter ‘Writing R documentation files’ in the ‘Writing R
    Extensions’ manual.
Flavor: r-release-osx-x86_64-mavericks

Version: 1.7-5.2
Check: for code/documentation mismatches
Result: WARN
    Invalid MIT-MAGIC-COOKIE-1 key
    Invalid MIT-MAGIC-COOKIE-1 key
    Invalid MIT-MAGIC-COOKIE-1 key
Flavor: r-release-osx-x86_64-mavericks

Version: 1.7-5.2
Check: Rd \usage sections
Result: NOTE
    Invalid MIT-MAGIC-COOKIE-1 key
    The \usage entries for S3 methods should use the \method markup and not
    their full name.
    See chapter ‘Writing R documentation files’ in the ‘Writing R
    Extensions’ manual.
Flavor: r-release-osx-x86_64-mavericks