• using R Under development (unstable) (2025-02-15 r87723)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)     GNU Fortran (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)
• running under: Fedora Linux 40 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• 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 ... [10s/13s] OK See the install log for details.
• checking package directory ... 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 ... OK
• checking whether the package can be loaded with stated dependencies ... OK
• checking whether the package can be unloaded cleanly ... OK
• checking whether the namespace can be loaded with stated dependencies ... OK
• checking whether the namespace can be unloaded cleanly ... OK
• checking loading without being on the library search path ... 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 ... [15s/19s] OK
• checking Rd files ... 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 ... OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [231s/310s] ERROR   Running ‘testthat.R’ [230s/309s] 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     `/data/gannet/ripley/R/packages/tests-devel/wallace.Rcheck/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     `/data/gannet/ripley/R/packages/tests-devel/wallace.Rcheck/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     `/data/gannet/ripley/R/packages/tests-devel/wallace.Rcheck/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     `/data/gannet/ripley/R/packages/tests-devel/wallace.Rcheck/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     `/data/gannet/ripley/R/packages/tests-devel/wallace.Rcheck/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     `/data/gannet/ripley/R/packages/tests-devel/wallace.Rcheck/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 192 ]      ══ Skipped tests (5) ═══════════════════════════════════════════════════════════   • 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'      ══ Failed tests ════════════════════════════════════════════════════════════════   ── 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:       ▆    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:       ▆    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:       ▆    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:       ▆    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 192 ]   Error: Test failures   Execution halted
• checking PDF version of manual ... [9s/12s] OK
• checking HTML version of manual ... OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 1 ERROR