CRAN Package Check Results for Package geoR

Last updated on 2017-12-20 00:46:53 CET.

Flavor	Version	T_install	T_check	T_total	Status
r-devel-linux-x86_64-debian-clang	1.7-5.2	5.11	108.61	113.72	NOTE
r-devel-linux-x86_64-debian-gcc	1.7-5.2				NOTE
r-devel-linux-x86_64-fedora-clang	1.7-5.2			139.81	NOTE
r-devel-linux-x86_64-fedora-gcc	1.7-5.2			140.14	NOTE
r-devel-windows-ix86+x86_64	1.7-5.2	17.00	161.00	178.00	NOTE
r-patched-linux-x86_64	1.7-5.2	5.29	130.62	135.91	NOTE
r-patched-solaris-x86	1.7-5.2			192.20	NOTE
r-release-linux-x86_64	1.7-5.2	5.14	127.62	132.76	NOTE
r-release-windows-ix86+x86_64	1.7-5.2	12.00	218.00	230.00	NOTE
r-release-osx-x86_64	1.7-5.2				NOTE
r-oldrel-windows-ix86+x86_64	1.7-5.2	9.00	172.00	181.00	NOTE
r-oldrel-osx-x86_64	1.7-5.2				WARN

Additional issues

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
Check: compiled code
Result: 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.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-linux-x86_64, r-release-linux-x86_64

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

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-oldrel-osx-x86_64

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-oldrel-osx-x86_64

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-oldrel-osx-x86_64

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-oldrel-osx-x86_64

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-oldrel-osx-x86_64

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-oldrel-osx-x86_64

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-oldrel-osx-x86_64