Check results for 'biomod2'

using R Under development (unstable) (2026-03-01 r89506)
using platform: aarch64-apple-darwin23
R was compiled by Apple clang version 17.0.0 (clang-1700.3.19.1) GNU Fortran (GCC) 14.2.0
running under: macOS Sequoia 15.7.1
using session charset: UTF-8 * current time: 2026-03-12 12:06:43 UTC
checking for file ‘biomod2/DESCRIPTION’ ... OK
checking extension type ... Package
this is package ‘biomod2’ version ‘4.3-4-5’
package encoding: UTF-8
checking package namespace information ... OK
checking package dependencies ... INFO Package suggested but not available for checking: ‘ENMeval’
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checking whether package ‘biomod2’ can be installed ... [15s/17s] OK See the install log for details.
checking installed package size ... OK
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checking ‘build’ directory ... OK
checking DESCRIPTION meta-information ... OK
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checking dependencies in R code ... OK
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checking R code for possible problems ... [9s/9s] OK
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checking Rd cross-references ... INFO Package unavailable to check Rd xrefs: ‘ENMeval’
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checking contents of ‘data’ directory ... OK
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checking R/sysdata.rda ... OK
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checking files in ‘vignettes’ ... OK
checking examples ... [13s/13s] ERROR Running examples in ‘biomod2-Ex.R’ failed The error most likely occurred in: > ### Name: bm_CrossValidation > ### Title: Build cross-validation table > ### Aliases: bm_CrossValidation bm_CrossValidation_user.defined > ### bm_CrossValidation_user.defined,BIOMOD.formated.data-method > ### bm_CrossValidation_user.defined,BIOMOD.formated.data.PA-method > ### bm_CrossValidation_random > ### bm_CrossValidation_random,BIOMOD.formated.data-method > ### bm_CrossValidation_random,BIOMOD.formated.data.PA-method > ### bm_CrossValidation_kfold > ### bm_CrossValidation_kfold,BIOMOD.formated.data-method > ### bm_CrossValidation_kfold,BIOMOD.formated.data.PA-method > ### bm_CrossValidation_block > ### bm_CrossValidation_block,BIOMOD.formated.data-method > ### bm_CrossValidation_block,BIOMOD.formated.data.PA-method > ### bm_CrossValidation_strat > ### bm_CrossValidation_strat,BIOMOD.formated.data-method > ### bm_CrossValidation_strat,BIOMOD.formated.data.PA-method > ### bm_CrossValidation_env > ### bm_CrossValidation_env,BIOMOD.formated.data-method > ### bm_CrossValidation_env,BIOMOD.formated.data.PA-method > > ### ** Examples > > library(terra) terra 1.9.1 Attaching package: ‘terra’ The following object is masked from ‘package:plotrix’: rescale > > # Load species occurrences (6 species available) > data(DataSpecies) > head(DataSpecies) X_WGS84 Y_WGS84 ConnochaetesGnou GuloGulo PantheraOnca PteropusGiganteus 1 -94.5 82.00001 0 0 0 0 2 -91.5 82.00001 0 1 0 0 3 -88.5 82.00001 0 1 0 0 4 -85.5 82.00001 0 1 0 0 5 -82.5 82.00001 0 1 0 0 6 -79.5 82.00001 0 1 0 0 TenrecEcaudatus VulpesVulpes 1 0 0 2 0 0 3 0 0 4 0 0 5 0 0 6 0 0 > > # Select the name of the studied species > myRespName <- 'GuloGulo' > > # Get corresponding presence/absence data > myResp <- as.numeric(DataSpecies[, myRespName]) > > # Get corresponding XY coordinates > myRespXY <- DataSpecies[, c('X_WGS84', 'Y_WGS84')] > > # Load environmental variables extracted from BIOCLIM (bio_3, bio_4, bio_7, bio_11 & bio_12) > data(bioclim_current) > myExpl <- terra::rast(bioclim_current) > > ## Don't show: > myExtent <- terra::ext(0,30,45,70) > myExpl <- terra::crop(myExpl, myExtent) > ## End(Don't show) > > # --------------------------------------------------------------- # > # Format Data with true absences > myBiomodData <- BIOMOD_FormatingData(resp.name = myRespName, + resp.var = myResp, + resp.xy = myRespXY, + expl.var = myExpl) -=-=-=-=-=-=-=-=-=-=-=-=-=-= GuloGulo Data Formating -=-=-=-=-=-=-=-=-=-=-=-=-=-= !!! Some data are located in the same raster cell. Please set `filter.raster = TRUE` if you want an automatic filtering. ! Some NAs have been automatically removed from your data -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-= Done -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-= > > # --------------------------------------------------------------- # > # Create the different validation datasets > > # random selection > cv.r <- bm_CrossValidation(bm.format = myBiomodData, + strategy = "random", + nb.rep = 3, + k = 0.8) Checking Cross-Validation arguments... > Random cross-validation selection > > # k-fold selection > cv.k <- bm_CrossValidation(bm.format = myBiomodData, + strategy = "kfold", + nb.rep = 2, + k = 3) Checking Cross-Validation arguments... > k-fold cross-validation selection > > # block selection > cv.b <- bm_CrossValidation(bm.format = myBiomodData, + strategy = "block") Checking Cross-Validation arguments... > Block cross-validation selectionError in .local(bm.format, ...) : Package 'ENMeval' not found Calls: bm_CrossValidation ... bm_CrossValidation_block -> bm_CrossValidation_block -> .local Execution halted
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DONE Status: 1 ERROR
using check arguments '--no-clean-on-error '