* using log directory 'd:/Rcompile/CRANpkg/local/4.7/glossa.Rcheck' * using R Under development (unstable) (2026-08-17 r90424 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 14.3.0 GNU Fortran (GCC) 14.3.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * current time: 2026-08-18 16:36:41 UTC * checking for file 'glossa/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'glossa' version '1.2.4' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... INFO Package suggested but not available for checking: 'flexsdm' * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'glossa' can be installed ... OK * checking installed package size ... OK * 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 ... [4s] OK * checking whether the package can be loaded with stated dependencies ... [4s] OK * checking whether the package can be unloaded cleanly ... [4s] OK * checking whether the namespace can be loaded with stated dependencies ... [4s] OK * checking whether the namespace can be unloaded cleanly ... [4s] OK * checking loading without being on the library search path ... [4s] 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] OK * checking Rd files ... [1s] OK * checking Rd metadata ... 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 ... [5s] OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... [19s] ERROR Running 'testthat.R' [19s] Running the tests in 'tests/testthat.R' failed. Complete output: > library(testthat) > library(glossa) Loading required package: bs4Dash Attaching package: 'bs4Dash' The following object is masked from 'package:graphics': box Loading required package: shiny Attaching package: 'shiny' The following objects are masked from 'package:bs4Dash': actionButton, column, insertTab, navbarMenu, tabsetPanel > library(terra) terra 1.9.34 Attaching package: 'terra' The following objects are masked from 'package:testthat': compare, describe > library(sf) Linking to GEOS 3.14.1, GDAL 3.12.1, PROJ 9.7.1; sf_use_s2() is TRUE > > test_check("glossa") | | | 0% | |= | 2% | |=== | 4% | |==== | 6% | |====== | 8% | |======= | 10% | |======== | 12% | |========== | 14% | |=========== | 16% | |============= | 18% | |============== | 20% | |=============== | 22% | |================= | 24% | |================== | 26% | |==================== | 28% | |===================== | 30% | |====================== | 32% | |======================== | 34% | 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Spherical geometry (s2) switched off Spherical geometry (s2) switched on Spherical geometry (s2) switched off Spherical geometry (s2) switched on Saving _problems/test-cross_validate_model-118.R Saving _problems/test-cross_validate_model-158.R dist is assumed to be in decimal degrees (arc_degrees). dist is assumed to be in decimal degrees (arc_degrees). although coordinates are longitude/latitude, st_difference assumes that they are planar although coordinates are longitude/latitude, st_difference assumes that they are planar Running thinning with method 'precision' and thinning value 1 Running thinning with method 'precision' and thinning value 1 Running thinning with method 'distance' and thinning value 5e+05 Running thinning with method 'grid' and thinning value 0.05 Running thinning with method 'precision' and thinning value 3 [ FAIL 2 | WARN 0 | SKIP 12 | PASS 85 ] ══ Skipped tests (12) ══════════════════════════════════════════════════════════ • On CRAN (11): 'test-glossa_analysis.R:5:3', 'test-process_layers.R:5:3', 'test-process_polygon.R:5:3', 'test-read_validate_files.R:5:3', 'test-read_validate_files.R:18:3', 'test-read_validate_files.R:30:3', 'test-read_validate_files.R:42:3', 'test-read_validate_files.R:54:3', 'test-read_validate_files.R:78:3', 'test-read_validate_files.R:104:3', 'test-utils.R:4:3' • {flexsdm} is not installed (1): 'test-generate_pseudo_absences.R:98:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-cross_validate_model.R:118:3'): cross_validate_model runs ────── Error in `parse(text = deparse(RNGkind)[-1L])`: :1:22: unexpected ')' 1: binom.kind = NULL) ^ Backtrace: ▆ 1. └─glossa::cross_validate_model(...) at test-cross_validate_model.R:118:3 2. └─glossa::fit_bart_model(...) 3. └─dbarts::bart(...) 4. └─dbarts::dbartsControl(...) 5. └─methods::new(...) 6. ├─methods::initialize(value, ...) 7. └─dbarts (local) initialize(value, ...) 8. ├─methods::callNextMethod() 9. └─methods (local) .nextMethod(.Object = .Object, ... = ...) 10. └─methods::validObject(.Object) 11. ├─methods (local) anyStrings(validityMethod(object)) 12. │ └─base::isTRUE(x) 13. └─dbarts (local) validityMethod(object) 14. └─base::parse(text = deparse(RNGkind)[-1L]) ── Error ('test-cross_validate_model.R:158:3'): cross_validate_model is reproducible with seed ── Error in `parse(text = deparse(RNGkind)[-1L])`: :1:22: unexpected ')' 1: binom.kind = NULL) ^ Backtrace: ▆ 1. └─glossa::cross_validate_model(...) at test-cross_validate_model.R:158:3 2. └─glossa::fit_bart_model(...) 3. └─dbarts::bart(...) 4. └─dbarts::dbartsControl(...) 5. └─methods::new(...) 6. ├─methods::initialize(value, ...) 7. └─dbarts (local) initialize(value, ...) 8. ├─methods::callNextMethod() 9. └─methods (local) .nextMethod(.Object = .Object, ... = ...) 10. └─methods::validObject(.Object) 11. ├─methods (local) anyStrings(validityMethod(object)) 12. │ └─base::isTRUE(x) 13. └─dbarts (local) validityMethod(object) 14. └─base::parse(text = deparse(RNGkind)[-1L]) [ FAIL 2 | WARN 0 | SKIP 12 | PASS 85 ] Error: ! Test failures. Execution halted * checking PDF version of manual ... [21s] OK * checking HTML version of manual ... [2s] OK * DONE Status: 1 ERROR