Last updated on 2025-06-20 18:49:12 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.1-3 | 7.62 | 59.58 | 67.20 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.1-3 | 5.38 | 45.17 | 50.55 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.1-3 | 110.69 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.1-3 | 106.69 | OK | |||
| r-devel-windows-x86_64 | 1.1-3 | 10.00 | 107.00 | 117.00 | OK | |
| r-patched-linux-x86_64 | 1.1-2 | 7.03 | 56.87 | 63.90 | ERROR | |
| r-release-linux-x86_64 | 1.1-2 | 7.13 | 57.09 | 64.22 | ERROR | |
| r-release-macos-arm64 | 1.1-3 | 43.00 | OK | |||
| r-release-macos-x86_64 | 1.1-3 | 66.00 | OK | |||
| r-release-windows-x86_64 | 1.1-3 | 10.00 | 101.00 | 111.00 | OK | |
| r-oldrel-macos-arm64 | 1.1-3 | 43.00 | OK | |||
| r-oldrel-macos-x86_64 | 1.1-3 | 74.00 | OK | |||
| r-oldrel-windows-x86_64 | 1.1-3 | 12.00 | 106.00 | 118.00 | OK |
Version: 1.1-2
Check: examples
Result: ERROR
Running examples in ‘betaper-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: adonis_pertables
> ### Title: Function to assess the efects of taxonomic uncertainty on
> ### permutational multivariate analysis of variance using distance
> ### matrices
> ### Aliases: adonis_pertables print.adonis_pertables plot.adonis_pertables
> ### Keywords: multivariate
>
> ### ** Examples
>
>
>
>
> data(Amazonia)
> data(soils)
>
> # Define a new index that includes the terms used in the \code{Amazonia} dataset to define
> # undetermined taxa at different taxonomic levels
>
> index.Amazon <- c(paste("sp.", rep(1:20), sep=""), "Indet.", "indet.")
>
> # Generate a pertables object (i.e. a list of biological data tables simulated from taxonomic
> # uncertainty)
> ## Not run:
> ##D Amazonia100 <- pertables(Amazonia, index=index.Amazon, nsim=100)
> ##D
> ##D # Assess the effects of taxonomic uncertainty on a PERMANOVA (i.e., adonis) test:
> ##D
> ##D Amazonia.adonis <- adonis_pertables(Amazonia100 ~ Ca + K + Mg + Na, data=soils)
> ##D
> ##D Amazonia.adonis
> ##D
> ##D plot(Amazonia.adonis)
> ## End(Not run)
> # Fast example for Rcheck
>
> Amazonia4.p2 <- pertables.p2(Amazonia[1:50,], index=index.Amazon, nsim=4, ncl=2, iseed=4)
> set.seed(2)
> Amazonia.adonis <- adonis_pertables(Amazonia4.p2 ~ Ca + K + Mg + Na, data=soils)
Error in adonis(formula = fmla, data = data, permutations = permutations, :
'adonis' is defunct.
Use 'adonis2' instead.
See help("Defunct") and help("vegan-defunct").
Calls: adonis_pertables -> adonis -> .Defunct
Execution halted
Flavors: r-patched-linux-x86_64, r-release-linux-x86_64