Check results for 'geoR'

using R Under development (unstable) (2013-04-22 r62639)
using platform: x86_64-unknown-linux-gnu (64-bit)
using session charset: UTF-8
checking for file ‘geoR/DESCRIPTION’ ... OK
this is package ‘geoR’ version ‘1.7-4’
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 whether package ‘geoR’ can be installed ... OK
checking installed package size ... 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 for unstated 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 ... NOTE
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/likOLD.R’:
assign(".temp.list", list(z = z, xmat = xmat, txmat = txmat,
fixtau = fixtau, ftau = ftau, method = method, kappa = kappa,
cov.model = cov.model, beta.size = beta.size, lower.phi = lower.phi,
dists.lowertri = dists.vec, var.z = var.z, fix.lambda = fix.lambda,
n = n, minimisation.function = minimisation.function), pos = 1)
assign(".temp.lower", c(0, lower.phi), pos = 1)
assign(".temp.lower", c(0, lower.phi), pos = 1)
assign(".ind.prof.phi", 2, pos = 1)
assign(".temp.lower", c(0, lower.phi), pos = 1)
assign(".temp.lower.lambda", -2, pos = 1)
assign(".temp.upper.lambda", 2, pos = 1)
assign(".ind.prof.phi", 2, pos = 1)
assign(".temp.lower", c(0, lower.phi), pos = 1)
assign(".ind.prof.phi", 2, pos = 1)
assign(".temp.lower", c(0, lower.phi), pos = 1)
assign(".temp.lower.lambda", -2, pos = 1)
assign(".temp.upper.lambda", 2, pos = 1)
assign(".ind.prof.phi", 2, pos = 1)
assign(".temp.lower.phi", lower.phi, pos = 1)
assign(".ind.prof.phi", 1, pos = 1)
assign(".temp.lower.phi", lower.phi, pos = 1)
assign(".temp.lower.lambda", -2, pos = 1)
assign(".temp.upper.lambda", 2, pos = 1)
assign(".temp.lower.phi", lower.phi, pos = 1)
assign(".ind.prof.phi", 1, pos = 1)
assign(".temp.lower.phi", lower.phi, pos = 1)
assign(".temp.lower.lambda", -2, pos = 1)
assign(".temp.upper.lambda", 2, pos = 1)
assign(".ind.prof.phi", 1, pos = 1)
assign(".temp.sill", theta[1], pos = 1)
assign(".temp.phi", theta[2], pos = 1)
assign(".temp.lambda", lambda, pos = 1)
assign(".temp.lambda", lambda, pos = 1)
assign(".temp.lambda", lambda, pos = 1)
assign(".temp.lambda", lambda, pos = 1)
assign(".temp.nugget", theta[1], pos = 1)
assign(".temp.phi", theta[2], pos = 1)
assign(".temp.lambda", lambda, pos = 1)
assign(".temp.lambda", lambda, pos = 1)
assign(".temp.phi", phi, pos = 1)
assign(".temp.lambda", lambda, pos = 1)
assign(".temp.lambda", lambda, 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)
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)
checking Rd files ... OK
checking Rd metadata ... 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 line endings in Makefiles ... OK
checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
checking compiled code ... OK
checking installed files from ‘inst/doc’ ... OK
checking examples ... [20s/20s] OK
checking PDF version of manual ... OK
NOTE: There was 1 note.
See
‘/data/blackswan/ripley/R/packages/tests-devel/geoR.Rcheck/00check.log’
for details.