Last updated on 2025-12-06 00:48:54 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2025.11.12 | 25.22 | 163.45 | 188.67 | OK | |
| r-devel-linux-x86_64-debian-gcc | 2025.11.12 | 15.84 | 85.99 | 101.83 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 2025.11.12 | 48.00 | 239.40 | 287.40 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 2025.11.12 | 51.00 | 210.04 | 261.04 | OK | |
| r-devel-windows-x86_64 | 2025.11.12 | 25.00 | 185.00 | 210.00 | OK | |
| r-patched-linux-x86_64 | 2025.11.12 | 27.58 | 144.01 | 171.59 | OK | |
| r-release-linux-x86_64 | 2025.11.12 | 23.73 | 149.08 | 172.81 | OK | |
| r-release-macos-arm64 | 2025.11.12 | OK | ||||
| r-release-macos-x86_64 | 2025.11.12 | 27.00 | 111.00 | 138.00 | OK | |
| r-release-windows-x86_64 | 2025.11.12 | 26.00 | 176.00 | 202.00 | OK | |
| r-oldrel-macos-arm64 | 2025.11.12 | OK | ||||
| r-oldrel-macos-x86_64 | 2025.11.12 | 45.00 | 146.00 | 191.00 | OK | |
| r-oldrel-windows-x86_64 | 2025.11.12 | 35.00 | 216.00 | 251.00 | OK |
Version: 2025.11.12
Check: examples
Result: ERROR
Running examples in ‘phenology-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: map_phenology
> ### Title: Generate a likelihood map varying Phi and Delta.
> ### Aliases: map_phenology
>
> ### ** Examples
>
> library("phenology")
> # Read a file with data
> data(Gratiot)
> # Generate a formatted list nammed data_Gratiot
> data_Gratiot <- add_phenology(Gratiot, name = "Complete",
+ reference = as.Date("2001-01-01"), format = "%d/%m/%Y")
The columns with rookery name does not exist; I create one
Site: Complete
Reference date: 2001-01-01
> # Generate initial points for the optimisation
> parg <- par_init(data_Gratiot, fixed.parameters = NULL)
> # Run the optimisation
> ## Not run:
> ##D result_Gratiot <- fit_phenology(data = data_Gratiot,
> ##D fitted.parameters = parg, fixed.parameters = NULL)
> ## End(Not run)
> data(result_Gratiot)
> # Extract the fitted parameters
> parg1 <- extract_result(result_Gratiot)
> # Add constant Alpha and Tau values
> # [day d amplitude=(Alpha+Nd*Beta)^Tau with Nd being the number of counts for day d]
> pfixed <- c(parg1, Alpha=0, Tau=1)
> pfixed <- pfixed[-which(names(pfixed)=="Theta")]
> # The only fitted parameter will be Beta
> parg2 <- c(Beta=0.5, parg1["Theta"])
> # Generate a likelihood map
> # [default Phi=seq(from=0.1, to=20, length.out=100) but it is very long]
> # Take care, it takes 20 hours ! The data map_Gratiot has the result
> ## Not run:
> ##D library(phenology)
> ##D map_Gratiot <- map_phenology(data = data_Gratiot,
> ##D Phi = seq(from=0.1, to=30, length.out=100),
> ##D fitted.parameters = parg2,
> ##D fixed.parameters = pfixed)
> ## End(Not run)
> data(map_Gratiot)
> # Plot the map
> plot(map_Gratiot, col = heat.colors(128))
Error in plot.phenologymap(map_Gratiot, col = heat.colors(128)) :
fields package is required for this function; Please install it first
Calls: plot -> plot.phenologymap
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc