* using log directory ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/wallace.Rcheck’ * using R version 4.4.3 RC (2025-02-20 r87814) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc-14 (Debian 14.2.0-16) 14.2.0 GNU Fortran (Debian 14.2.0-16) 14.2.0 * running under: Debian GNU/Linux trixie/sid * using session charset: UTF-8 * checking for file ‘wallace/DESCRIPTION’ ... OK * this is package ‘wallace’ version ‘2.1.3’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘wallace’ can be installed ... OK See 'https://www.r-project.org/nosvn/R.check/r-patched-linux-x86_64/wallace-00install.html' for details. * checking package directory ... OK * checking for future file timestamps ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... [1s/1s] OK * checking whether the package can be loaded with stated dependencies ... [1s/1s] OK * checking whether the package can be unloaded cleanly ... [1s/1s] OK * checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK * checking whether the namespace can be unloaded cleanly ... [1s/1s] OK * checking loading without being on the library search path ... [1s/1s] OK * checking use of S3 registration ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [11s/14s] OK * checking Rd files ... [1s/1s] OK * checking Rd metadata ... OK * checking Rd line widths ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... [4s/5s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [143s/217s] ERROR Running ‘testthat.R’ [143s/217s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > Sys.setenv("R_TEST" = "") > library(testthat) > library(wallace) Loading required package: shiny Loading required package: leaflet > > test_check("wallace") trying URL 'https://www.dropbox.com/sh/kijh17ehg8v3uv8/AADWJOs0_8zQmhc0XJxJE9a2a/bio%20%23baseline_Modern%281950-1999%29%23%20CCSM_LGM%2821ka%29.txt?dl=1' Content type 'application/binary' length 86163749 bytes (82.2 MB) ================================================== downloaded 82.2 MB trying URL 'https://geodata.ucdavis.edu/climate/worldclim/2_1/base/wc2.1_10m_bio.zip' Content type 'application/zip' length 49869449 bytes (47.6 MB) ================================================== downloaded 47.6 MB Reading layer `Bassaricyon_neblina' from data source `/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/wallace/extdata/shp/Bassaricyon_neblina.shp' using driver `ESRI Shapefile' Simple feature collection with 1 feature and 1 field Geometry type: POLYGON Dimension: XY Bounding box: xmin: -79.47486 ymin: -1.15418 xmax: -74.50839 ymax: 6.83333 CRS: NA Reading layer `Bassaricyon_neblina' from data source `/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/wallace/extdata/shp/Bassaricyon_neblina.shp' using driver `ESRI Shapefile' Simple feature collection with 1 feature and 1 field Geometry type: POLYGON Dimension: XY Bounding box: xmin: -79.47486 ymin: -1.15418 xmax: -74.50839 ymax: 6.83333 CRS: NA Reading layer `Bassaricyon_neblina' from data source `/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/wallace/extdata/shp/Bassaricyon_neblina.shp' using driver `ESRI Shapefile' Simple feature collection with 1 feature and 1 field Geometry type: POLYGON Dimension: XY Bounding box: xmin: -79.47486 ymin: -1.15418 xmax: -74.50839 ymax: 6.83333 CRS: NA Reading layer `Bassaricyon_neblina' from data source `/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/wallace/extdata/shp/Bassaricyon_neblina.shp' using driver `ESRI Shapefile' Simple feature collection with 1 feature and 1 field Geometry type: POLYGON Dimension: XY Bounding box: xmin: -79.47486 ymin: -1.15418 xmax: -74.50839 ymax: 6.83333 CRS: NA Reading layer `Bassaricyon_neblina' from data source `/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/wallace/extdata/shp/Bassaricyon_neblina.shp' using driver `ESRI Shapefile' Simple feature collection with 1 feature and 1 field Geometry type: POLYGON Dimension: XY Bounding box: xmin: -79.47486 ymin: -1.15418 xmax: -74.50839 ymax: 6.83333 CRS: NA Reading layer `Bassaricyon_neblina' from data source `/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/wallace/extdata/shp/Bassaricyon_neblina.shp' using driver `ESRI Shapefile' Simple feature collection with 1 feature and 1 field Geometry type: POLYGON Dimension: XY Bounding box: xmin: -79.47486 ymin: -1.15418 xmax: -74.50839 ymax: 6.83333 CRS: NA [ FAIL 4 | WARN 1 | SKIP 5 | PASS 191 ] â•â• Skipped tests (5) â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â• • On CRAN (5): 'test_envs_ecoClimate.R:23:3', 'test_envs_ecoClimate.R:46:3', 'test_envs_worldclim.R:27:3', 'test_occs_queryDb.R:85:3', 'test_occs_queryDb.R:85:3' â•â• Failed tests â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â• ── Error ('test_model_bioclim.R:17:1'): (code run outside of `test_that()`) ──── Error in `ENMeval::ENMevaluate(occs = occs.xy, envs = bgMsk, bg = bg.xy, algorithm = "bioclim", partitions = "user", user.grp = user.grp)`: From this version of ENMeval, the package will only use "terra" raster data types. Please convert from "raster" to "terra" with terra::rast(r), where r is a RasterStack. Backtrace: â–† 1. └─wallace::model_bioclim(occs, bg, partblock, envs) at test_model_bioclim.R:17:1 2. ├─wallace::smartProgress(...) 3. └─ENMeval::ENMevaluate(...) ── Error ('test_model_maxent.R:49:3'): (code run outside of `test_that()`) ───── Error in `ENMeval::ENMevaluate(occs = as.data.frame(occs.xy), bg = as.data.frame(bg.xy), partitions = "user", user.grp = user.grp, envs = bgMsk, tune.args = tune.args, doClamp = clampSel, algorithm = algMaxent, categoricals = catEnvs, parallel = parallel, numCores = numCores, parallelType = "doSNOW", updateProgress = updateProgress, quiet = FALSE)`: unused argument (parallelType = "doSNOW") Backtrace: â–† 1. └─wallace::model_maxent(...) at test_model_maxent.R:49:3 ── Error ('test_part_partitionOccs.R:45:1'): (code run outside of `test_that()`) ── Error: [spatSample] not yet implemented for these strata Backtrace: â–† 1. └─wallace::part_partitionOccs(...) at test_part_partitionOccs.R:45:1 2. ├─wallace::smartProgress(...) 3. └─ENMeval::get.checkerboard1(occs.xy, bgMask, bg.xy, aggFact) 4. └─ENMeval::get.checkerboard(...) 5. ├─terra::spatSample(...) 6. └─terra::spatSample(...) 7. └─terra (local) .local(x, ...) 8. └─terra:::error("spatSample", "not yet implemented for these strata") ── Error ('test_vis_bioclimPlot.R:19:1'): (code run outside of `test_that()`) ── Error in `ENMeval::ENMevaluate(occs = occs.xy, envs = bgMsk, bg = bg.xy, algorithm = "bioclim", partitions = "user", user.grp = user.grp)`: From this version of ENMeval, the package will only use "terra" raster data types. Please convert from "raster" to "terra" with terra::rast(r), where r is a RasterStack. Backtrace: â–† 1. └─wallace::model_bioclim(occs, bg, partblock, envs) at test_vis_bioclimPlot.R:19:1 2. ├─wallace::smartProgress(...) 3. └─ENMeval::ENMevaluate(...) [ FAIL 4 | WARN 1 | SKIP 5 | PASS 191 ] Error: Test failures Execution halted * checking PDF version of manual ... [6s/8s] OK * checking HTML version of manual ... [2s/3s] OK * checking for non-standard things in the check directory ... OK * DONE Status: 1 ERROR