CRAN Package Check Results for Package geoR

Last updated on 2014-04-24 15:50:38.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.7-4 3.82 82.50 86.32 NOTE
r-devel-linux-x86_64-debian-gcc 1.7-4 3.97 81.97 85.94 NOTE
r-devel-linux-x86_64-fedora-clang 1.7-4 163.98 NOTE
r-devel-linux-x86_64-fedora-gcc 1.7-4 159.70 NOTE
r-devel-osx-x86_64-clang 1.7-4 128.60 NOTE
r-devel-osx-x86_64-gcc 1.7-4 ERROR
r-devel-windows-ix86+x86_64 1.7-4 11.00 121.00 132.00 NOTE
r-patched-linux-x86_64 1.7-4 3.88 83.09 86.97 NOTE
r-patched-solaris-sparc 1.7-4 899.40 NOTE
r-patched-solaris-x86 1.7-4 193.60 NOTE
r-release-linux-ix86 1.7-4 7.00 119.00 126.00 NOTE
r-release-linux-x86_64 1.7-4 4.04 82.13 86.17 NOTE
r-release-osx-x86_64-mavericks 1.7-4 WARN
r-release-windows-ix86+x86_64 1.7-4 11.00 129.00 140.00 NOTE
r-oldrel-windows-ix86+x86_64 1.7-4 12.00 127.00 139.00 NOTE

Memtest notes: valgrind

Check Details

Version: 1.7-4
Check: dependencies in R code
Result: NOTE
    ':::' call which should be '::': ‘scatterplot3d:::scatterplot3d’
     See the note in ?`:::` about the use of this operator.
    There are ::: calls to the package's namespace in its code. A package
     almost never needs to use ::: for its own objects:
     ‘.check.cov.model’
    See the information on DESCRIPTION files in the chapter ‘Creating R
    packages’ of 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-devel-osx-x86_64-clang, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-ix86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.7-4
Check: foreign function calls
Result: NOTE
    Calls with DUP = FALSE:
     .C("cor_diag", as.double(coords[, 1]), as.double(coords[, 2]),
     as.integer(nc), as.integer(.cor.number(cov.model)), as.double(phi),
     as.double(kappa), out, DUP = FALSE, PACKAGE = "geoR")
     .C("distdiag", as.double(coords[, 1]), as.double(coords[, 2]),
     as.integer(nc), out, DUP = FALSE, PACKAGE = "geoR")
     .C("loccoords", as.double(as.vector(locations[, 1])), as.double(as.vector(locations[,
     2])), as.double(as.vector(coords[, 1])), as.double(as.vector(coords[,
     2])), as.integer(nl), as.integer(nc), out, DUP = FALSE, PACKAGE = "geoR")
    DUP = FALSE is deprecated and may be disabled in future versions of R.
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-devel-osx-x86_64-clang, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-ix86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64

Version: 1.7-4
Check: R code for possible problems
Result: 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)
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-osx-x86_64-clang, r-patched-linux-x86_64, r-release-linux-ix86, r-release-linux-x86_64

Version: 1.7-4
Check: Rd line widths
Result: NOTE
    Rd file 'coords2coords.Rd':
     \examples lines wider than 100 characters:
     legend("topleft", c("foo", "foo1 (zoom.coords)", "foo2 (coords2coords)"), lty=c(1,2,1), lwd=c(1,1,2))
     r1dn <- zoom.coords(r1d, 1.7, xlim.o=range(r1b[,1],na.rm=TRUE), ylim.o=range(r1b[,2],na.rm=TRUE), xoff=90, yoff=-90)
    
    Rd file 'sample.prior.Rd':
     \examples lines wider than 100 characters:
     sample.prior(50, prior=prior.control(beta.prior = "normal", beta = .5, beta.var.std=0.1, sigmasq.prior="sc", sigmasq=1.2, df.sigmasq= 2 ... [TRUNCATED]
    
    Rd file 'subarea.Rd':
     \examples lines wider than 100 characters:
     legend("topleft", c("foo", "foo1 (zoom.coords)", "foo2 (coords2coords)"), lty=c(1,2,1), lwd=c(1,1,2))
     r1dn <- zoom.coords(r1d, 1.7, xlim.o=range(r1b[,1],na.rm=TRUE), ylim.o=range(r1b[,2],na.rm=TRUE), xoff=90, yoff=-90)
    
    These lines will be truncated in the PDF manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 1.7-4
Check: package dependencies
Result: ERROR
    Package required but not available: ‘RandomFields’
    
    Package suggested but not available for checking: ‘geoRglm’
    
    See the information on DESCRIPTION files in the chapter ‘Creating R
    packages’ of the ‘Writing R Extensions’ manual.
Flavor: r-devel-osx-x86_64-gcc

Version: 1.7-4
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘geoRglm’
Flavor: r-release-osx-x86_64-mavericks

Version: 1.7-4
Check: PDF version of manual
Result: WARNING
    LaTeX errors when creating PDF version.
    This typically indicates Rd problems.
    LaTeX errors found:
    ! LaTeX Error: File `upquote.sty' not found.
    
    Type X to quit or <RETURN> to proceed,
    or enter new name. (Default extension: sty)
    
    3b142b87/Rd2.tex:8: ==> Fatal error occurred, no output PDF file produced!
Flavor: r-release-osx-x86_64-mavericks