CRAN Package Check Results for Package R2BayesX

Last updated on 2014-04-25 05:47:22.

Check Details

Version: 0.3-1
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘BayesXsrc’ ‘colorspace’ ‘mgcv’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
    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-osx-x86_64-gcc, 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: 0.3-1
Check: package dependencies
Result: NOTE
    Packages suggested but not available for checking: ‘maptools’ ‘spdep’
Flavor: r-devel-osx-x86_64-gcc

Version: 0.3-1
Check: R code for possible problems
Result: NOTE
    plotmap: no visible global function definition for ‘gpclibPermit’
    plotmap: no visible global function definition for
     ‘unionSpatialPolygons’
Flavors: r-devel-osx-x86_64-gcc, r-release-osx-x86_64-mavericks

Version: 0.3-1
Check: Rd cross-references
Result: NOTE
    Package unavailable to check Rd xrefs: ‘fields’
Flavor: r-devel-osx-x86_64-gcc

Version: 0.3-1
Check: examples
Result: ERROR
    Running examples in ‘R2BayesX-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: plot3d
    > ### Title: 3D Effect Plot
    > ### Aliases: plot3d plotsurf
    > ### Keywords: hplot
    >
    > ### ** Examples
    >
    > ## generate some data
    > set.seed(111)
    > n <- 500
    >
    > ## regressors
    > dat <- data.frame(z = runif(n, -3, 3), w = runif(n, 0, 6))
    >
    > ## response
    > dat$y <- with(dat, 1.5 + cos(z) * sin(w) + rnorm(n, sd = 0.6))
    >
    > ## Not run:
    > ##D ## estimate model
    > ##D b <- bayesx(y ~ sx(z, w, bs = "te", knots = 5), data = dat, method = "REML")
    > ##D summary(b)
    > ##D
    > ##D ## plot estimated effect
    > ##D plot(b, term = "sx(z,w)")
    > ##D
    > ##D ## extract fitted effects
    > ##D f <- fitted(b, term = "sx(z,w)")
    > ##D
    > ##D ## now use plot3d
    > ##D plot3d(f)
    > ##D plot3d(f, swap = TRUE)
    > ##D plot3d(f, residuals = TRUE)
    > ##D plot3d(f, resid = TRUE, cex.resid = 0.1)
    > ##D plot3d(f, resid = TRUE, pch = 2, col.resid = "green3")
    > ##D plot3d(f, resid = TRUE, c.select = 95, cex.resid = 0.1)
    > ##D plot3d(f, resid = TRUE, c.select = 80, cex.resid = 0.1)
    > ##D plot3d(f, grid = 100, border = NA)
    > ##D plot3d(f, c.select = 95, border = c("red", NA, "green"),
    > ##D col.surface = c(1, NA, 1), resid = TRUE, cex.resid = 0.2)
    > ##D
    > ##D ## now some image and contour
    > ##D plot3d(f, image = TRUE, legend = FALSE)
    > ##D plot3d(f, image = TRUE, legend = TRUE)
    > ##D plot3d(f, image = TRUE, contour = TRUE)
    > ##D plot3d(f, image = TRUE, contour = TRUE, swap = TRUE)
    > ##D plot3d(f, image = TRUE, contour = TRUE, col.contour = "white")
    > ##D plot3d(f, contour = TRUE)
    > ##D op <- par(no.readonly = TRUE)
    > ##D par(mfrow = c(1, 3))
    > ##D plot3d(f, image = TRUE, contour = TRUE, c.select = 3)
    > ##D plot3d(f, image = TRUE, contour = TRUE, c.select = "Estimate")
    > ##D plot3d(f, image = TRUE, contour = TRUE, c.select = "97.5##D
    > ##D par(op)
    > ## End(Not run)
    >
    > ## another variation
    > dat$f1 <- with(dat, sin(z) * cos(w))
    > plot3d(cbind(z = dat$z, w = dat$w, f1 = dat$f1))
    Loading required package: akima
    NOTE: Package 'akima' has an ACM license that restricts applications to non-commercial usage.
    NOTE: akima::interp() is designed for irregular data points, the coordinates will be slightly jittered to obtain irregular spaced points.
    Warning in min(x) : no non-missing arguments to min; returning Inf
    Warning in max(x) : no non-missing arguments to max; returning -Inf
    Warning in min(x) : no non-missing arguments to min; returning Inf
    Warning in max(x) : no non-missing arguments to max; returning -Inf
    Error in seq.default(range[1L], range[2L], length.out = ncol + 1L) :
     'from' cannot be NA, NaN or infinite
    Calls: plot3d -> make_pal -> seq -> seq.default
    Execution halted
Flavor: r-patched-solaris-x86

Version: 0.3-1
Check: package dependencies
Result: NOTE
    Packages suggested but not available for checking: ‘maptools’ ‘MBA’ ‘spdep’
Flavor: r-release-osx-x86_64-mavericks

Version: 0.3-1
Check: Rd cross-references
Result: NOTE
    Package unavailable to check Rd xrefs: ‘MBA’
Flavor: r-release-osx-x86_64-mavericks

Version: 0.3-1
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)
    
    3fb98e0/Rd2.tex:8: ==> Fatal error occurred, no output PDF file produced!
Flavor: r-release-osx-x86_64-mavericks

Version: 0.3-1
Check: package dependencies
Result: NOTE
    Packages suggested but not available for checking: ‘parallel’ ‘splines’
Flavor: r-release-osx-x86_64-snowleopard

Version: 0.3-1
Check: whether package can be installed
Result: ERROR
    Installation failed.
    See ‘/Volumes/XT3/Builds/R-dev-web/QA/Simon/packages/snowleopard-x86_64/results/3.1/R2BayesX.Rcheck/00install.out’ for details.
Flavor: r-release-osx-x86_64-snowleopard