CRAN Package Check Results for Package ade4

Last updated on 2015-04-18 19:51:13.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.7-2 8.99 138.85 147.84 NOTE
r-devel-linux-x86_64-debian-gcc 1.7-2 9.63 140.71 150.34 NOTE
r-devel-linux-x86_64-fedora-clang 1.7-2 282.03 NOTE
r-devel-linux-x86_64-fedora-gcc 1.7-2 267.83 NOTE
r-devel-osx-x86_64-clang 1.7-2 220.31 NOTE
r-patched-linux-x86_64 1.7-2 10.12 136.00 146.13 NOTE
r-patched-solaris-sparc 1.7-2 1615.30 NOTE
r-patched-solaris-x86 1.7-2 286.80 NOTE
r-release-linux-x86_64 1.7-2 9.89 138.38 148.26 NOTE
r-release-osx-x86_64-mavericks 1.7-2 NOTE
r-release-osx-x86_64-snowleopard 1.7-2 NOTE
r-release-windows-ix86+x86_64 1.7-2 26.00 339.00 365.00 NOTE
r-oldrel-windows-ix86+x86_64 1.7-2 26.00 248.00 274.00 ERROR

Check Details

Version: 1.7-2
Check: installed package size
Result: NOTE
     installed size is 5.8Mb
     sub-directories of 1Mb or more:
     data 1.9Mb
     pictures 2.1Mb
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-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.7-2
Check: package dependencies
Result: NOTE
    Packages suggested but not available for checking:
     ‘spdep’ ‘deldir’ ‘adegraphics’
Flavor: r-release-osx-x86_64-mavericks

Version: 1.7-2
Check: Rd cross-references
Result: NOTE
    Package unavailable to check Rd xrefs: ‘spdep’
Flavors: r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard

Version: 1.7-2
Check: package dependencies
Result: NOTE
    Packages suggested but not available for checking: ‘spdep’ ‘adegraphics’
Flavor: r-release-osx-x86_64-snowleopard

Version: 1.7-2
Check: running examples for arch 'i386'
Result: ERROR
    Running examples in 'ade4-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: westafrica
    > ### Title: Freshwater fish zoogeography in west Africa
    > ### Aliases: westafrica
    > ### Keywords: datasets
    >
    > ### ** Examples
    >
    > data(westafrica)
    >
    > if(!adegraphicsLoaded()) {
    + s.label(westafrica$cadre, xlim = c(30, 500), ylim = c(50, 290),
    + cpoi = 0, clab = 0, grid = FALSE, addax = 0)
    + old.par <- par(no.readonly = TRUE)
    + par(mar = c(0.1, 0.1, 0.1, 0.1))
    + rect(30, 0, 500, 290)
    + polygon(westafrica$atlantic, col = "lightblue")
    + points(westafrica$riv.xy, pch = 20, cex = 1.5)
    + apply(westafrica$lines, 1, function(x) segments(x[1], x[2], x[3], x[4], lwd = 1))
    + apply(westafrica$riv.xy,1, function(x) segments(x[1], x[2], x[3], x[4], lwd = 1))
    + text(c(175, 260, 460, 420), c(275, 200, 250, 100), c("Senegal", "Niger", "Niger", "Volta"))
    + par(srt = 270)
    + text(westafrica$riv.xy$x2, westafrica$riv.xy$y2-10, westafrica$riv.names, adj = 0, cex = 0.75)
    + par(old.par)
    + rm(old.par)
    + }
    >
    > # multivariate analysis
    > afri.w <- data.frame(t(westafrica$tab))
    > afri.dist <- dist.binary(afri.w,1)
    > afri.pco <- dudi.pco(afri.dist, scan = FALSE, nf = 3)
    > if(adegraphicsLoaded()) {
    + G1 <- s1d.barchart(afri.pco$li[, 1:3], p1d.hori = F, plab.cex = 0)
    + } else {
    + par(mfrow = c(3, 1))
    + barplot(afri.pco$li[, 1])
    + barplot(afri.pco$li[, 2])
    + barplot(afri.pco$li[, 3])
    + }
    >
    > if(requireNamespace("spdep", quiet = TRUE)) {
    + # multivariate spatial analysis
    + afri.neig <- neig(n.line = 33)
    + afri.nb <- neig2nb(afri.neig)
    + afri.listw <- nb2listw(afri.nb)
    + afri.ms <- multispati(afri.pco, afri.listw, scan = FALSE, nfposi = 6, nfnega = 0)
    +
    + if(adegraphicsLoaded()) {
    + G2 <- s1d.barchart(afri.ms$li[, 1:3], p1d.hori = F, plab.cex = 0)
    +
    + g31 <- s.label(afri.ms$li, plab.cex = 0.75, ppoi.cex = 0, nb = afri.nb, plot = F)
    + g32 <- s.value(afri.ms$li, afri.ms$li[, 3], plot = F)
    + g33 <- s.value(afri.ms$li, afri.ms$li[, 4], plot = F)
    + g34 <- s.value(afri.ms$li, afri.ms$li[, 5], plot = F)
    + G3 <- ADEgS(list(g31, g32, g33, g34), layout = c(2, 2))
    +
    + } else {
    + par(mfrow = c(3, 1))
    + barplot(afri.ms$li[, 1])
    + barplot(afri.ms$li[, 2])
    + barplot(afri.ms$li[, 3])
    +
    + par(mfrow = c(2, 2))
    + s.label(afri.ms$li, clab = 0.75, cpoi = 0, neig = afri.neig, cneig = 1.5)
    + s.value(afri.ms$li, afri.ms$li[, 3])
    + s.value(afri.ms$li, afri.ms$li[, 4])
    + s.value(afri.ms$li, afri.ms$li[, 5])
    + }
    + summary(afri.ms)
    + }
    Loading required namespace: spdep
    Failed with error: 'unused argument (quiet = TRUE)'
    >
    > par(mfrow = c(1, 1))
    > plot(hclust(afri.dist, "ward.D"), h = -0.2)
    Error in hclust(afri.dist, "ward.D") : invalid clustering method
    Calls: plot -> hclust
    Execution halted
Flavor: r-oldrel-windows-ix86+x86_64

Version: 1.7-2
Check: running examples for arch 'x64'
Result: ERROR
    Running examples in 'ade4-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: westafrica
    > ### Title: Freshwater fish zoogeography in west Africa
    > ### Aliases: westafrica
    > ### Keywords: datasets
    >
    > ### ** Examples
    >
    > data(westafrica)
    >
    > if(!adegraphicsLoaded()) {
    + s.label(westafrica$cadre, xlim = c(30, 500), ylim = c(50, 290),
    + cpoi = 0, clab = 0, grid = FALSE, addax = 0)
    + old.par <- par(no.readonly = TRUE)
    + par(mar = c(0.1, 0.1, 0.1, 0.1))
    + rect(30, 0, 500, 290)
    + polygon(westafrica$atlantic, col = "lightblue")
    + points(westafrica$riv.xy, pch = 20, cex = 1.5)
    + apply(westafrica$lines, 1, function(x) segments(x[1], x[2], x[3], x[4], lwd = 1))
    + apply(westafrica$riv.xy,1, function(x) segments(x[1], x[2], x[3], x[4], lwd = 1))
    + text(c(175, 260, 460, 420), c(275, 200, 250, 100), c("Senegal", "Niger", "Niger", "Volta"))
    + par(srt = 270)
    + text(westafrica$riv.xy$x2, westafrica$riv.xy$y2-10, westafrica$riv.names, adj = 0, cex = 0.75)
    + par(old.par)
    + rm(old.par)
    + }
    >
    > # multivariate analysis
    > afri.w <- data.frame(t(westafrica$tab))
    > afri.dist <- dist.binary(afri.w,1)
    > afri.pco <- dudi.pco(afri.dist, scan = FALSE, nf = 3)
    > if(adegraphicsLoaded()) {
    + G1 <- s1d.barchart(afri.pco$li[, 1:3], p1d.hori = F, plab.cex = 0)
    + } else {
    + par(mfrow = c(3, 1))
    + barplot(afri.pco$li[, 1])
    + barplot(afri.pco$li[, 2])
    + barplot(afri.pco$li[, 3])
    + }
    >
    > if(requireNamespace("spdep", quiet = TRUE)) {
    + # multivariate spatial analysis
    + afri.neig <- neig(n.line = 33)
    + afri.nb <- neig2nb(afri.neig)
    + afri.listw <- nb2listw(afri.nb)
    + afri.ms <- multispati(afri.pco, afri.listw, scan = FALSE, nfposi = 6, nfnega = 0)
    +
    + if(adegraphicsLoaded()) {
    + G2 <- s1d.barchart(afri.ms$li[, 1:3], p1d.hori = F, plab.cex = 0)
    +
    + g31 <- s.label(afri.ms$li, plab.cex = 0.75, ppoi.cex = 0, nb = afri.nb, plot = F)
    + g32 <- s.value(afri.ms$li, afri.ms$li[, 3], plot = F)
    + g33 <- s.value(afri.ms$li, afri.ms$li[, 4], plot = F)
    + g34 <- s.value(afri.ms$li, afri.ms$li[, 5], plot = F)
    + G3 <- ADEgS(list(g31, g32, g33, g34), layout = c(2, 2))
    +
    + } else {
    + par(mfrow = c(3, 1))
    + barplot(afri.ms$li[, 1])
    + barplot(afri.ms$li[, 2])
    + barplot(afri.ms$li[, 3])
    +
    + par(mfrow = c(2, 2))
    + s.label(afri.ms$li, clab = 0.75, cpoi = 0, neig = afri.neig, cneig = 1.5)
    + s.value(afri.ms$li, afri.ms$li[, 3])
    + s.value(afri.ms$li, afri.ms$li[, 4])
    + s.value(afri.ms$li, afri.ms$li[, 5])
    + }
    + summary(afri.ms)
    + }
    Loading required namespace: spdep
    Failed with error: 'unused argument (quiet = TRUE)'
    >
    > par(mfrow = c(1, 1))
    > plot(hclust(afri.dist, "ward.D"), h = -0.2)
    Error in hclust(afri.dist, "ward.D") : invalid clustering method
    Calls: plot -> hclust
    Execution halted
Flavor: r-oldrel-windows-ix86+x86_64