CRAN Package Check Results for Maintainer ‘Andrea Manica <am315 at cam.ac.uk>’

Last updated on 2025-09-04 05:51:18 CEST.

Package	ERROR	NOTE	OK
pastclim			13
tidypopgen	1	3	9
tidysdm		2	11

Package pastclim

Current CRAN status: OK: 13

Package tidypopgen

Current CRAN status: ERROR: 1, NOTE: 3, OK: 9

Version: 0.3.2
Check: tests
Result: ERROR Running 'spelling.R' [0s] Running 'testthat.R' [139s] Running the tests in 'tests/testthat.R' failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(tidypopgen) Loading required package: dplyr Attaching package: 'dplyr' The following object is masked from 'package:testthat': matches The following objects are masked from 'package:stats': filter, lag The following objects are masked from 'package:base': intersect, setdiff, setequal, union Loading required package: tibble > > test_check("tidypopgen") Creating directory "D:/temp/2025_09_02_09_03_13_2588/RtmpgHP" which didn't exist.. Adding missing grouping variables: `population` /usr/bin/which: no admixture in (/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/d/RCompile/recent/R-4.5.1/bin/x64:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:.:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/c/Program Files/MiKTeX/miktex/bin/x64:/c/Program Files/gs/gs/bin:/d/compiler/qpdf/bin:/d/RCompile/CRANpkg/extralibs/localsolver_4_0/bin:/d/RCompile/CRANpkg/extralibs/MARK:/c/Program Files/7-Zip:/d/Compiler/gretl:/c/Program Files/Quarto/bin:/d/compiler/Ruby/bin:/c/Program Files/Microsoft MPI/Bin:/c/Program Files/Python/Scripts:/c/Program Files/Python:/c/Windows/system32:/c/Windows:/c/Windows/System32/Wbem:/c/Windows/System32/WindowsPowerShell/v1.0:/c/Windows/System32/OpenSSH:/c/Program Files/PuTTY:/c/Program Files (x86)/WinSCP:/c/Program Files/Pandoc:/c/Program Files/MiKTeX/miktex/bin/x64:/c/Program Files (x86)/Windows Kits/10/Windows Performance Toolkit:/c/Program Files/gs/gs/bin:/c/Program Files/jdk-11.0.18.10-hotspot/bin:/d/compiler/perl/c/bin:/d/compiler/perl/perl/site/bin:/d/compiler/perl/perl/bin:/c/Users/CRAN/.cargo/bin:/c/Users/CRAN/AppData/Local/Microsoft/WindowsApps:/usr/bin:/c/Program Files/Julia/bin:/c/Users/CRAN/.cargo/bin:/d/compiler/LDC/bin:/d/RCompile/recent/R-4.5.1/bin/x64/) /usr/bin/which: no admixture in (/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/d/RCompile/recent/R-4.5.1/bin/x64:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:.:/usr/bin:/x86_64-w64-mingw32.static.posix/bin:/c/Program Files/MiKTeX/miktex/bin/x64:/c/Program Files/gs/gs/bin:/d/compiler/qpdf/bin:/d/RCompile/CRANpkg/extralibs/localsolver_4_0/bin:/d/RCompile/CRANpkg/extralibs/MARK:/c/Program Files/7-Zip:/d/Compiler/gretl:/c/Program Files/Quarto/bin:/d/compiler/Ruby/bin:/c/Program Files/Microsoft MPI/Bin:/c/Program Files/Python/Scripts:/c/Program Files/Python:/c/Windows/system32:/c/Windows:/c/Windows/System32/Wbem:/c/Windows/System32/WindowsPowerShell/v1.0:/c/Windows/System32/OpenSSH:/c/Program Files/PuTTY:/c/Program Files (x86)/WinSCP:/c/Program Files/Pandoc:/c/Program Files/MiKTeX/miktex/bin/x64:/c/Program Files (x86)/Windows Kits/10/Windows Performance Toolkit:/c/Program Files/gs/gs/bin:/c/Program Files/jdk-11.0.18.10-hotspot/bin:/d/compiler/perl/c/bin:/d/compiler/perl/perl/site/bin:/d/compiler/perl/perl/bin:/c/Users/CRAN/.cargo/bin:/c/Users/CRAN/AppData/Local/Microsoft/WindowsApps:/usr/bin:/c/Program Files/Julia/bin:/c/Users/CRAN/.cargo/bin:/d/compiler/LDC/bin:/d/RCompile/recent/R-4.5.1/bin/x64/) [ FAIL 5 | WARN 1 | SKIP 4 | PASS 974 ] ══ Skipped tests (4) ═══════════════════════════════════════════════════════════ • (system2("which", args = "admixture", stdout = NULL) != 0) && (2): 'test_gt_admix_methods.R:2:1', 'test_gt_admixture.R:2:1' • On CRAN (1): 'test_gt_pca.R:348:1' • {admixtools} is not installed (1): 'test_gt_extract_f2.R:1:1' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_gen_tibble_versioning.R:39:3'): versioning updates correctly through gt_order_loci ── dir.exists(tempfile_dir) is not TRUE `actual`: FALSE `expected`: TRUE ── Failure ('test_gen_tibble_versioning.R:59:3'): versioning updates correctly through gt_order_loci ── gt_get_file_names(test_gt)[1] (`actual`) not equal to paste0(file, "_v3.rds") (`expected`). actual vs expected - "D:\\temp\\2025_09_02_09_03_13_2588\\RtmpgHP\\file2e39016e2da5_v2.rds" + "D:\\temp\\2025_09_02_09_03_13_2588\\RtmpgHP\\file2e39016e2da5_v3.rds" ── Failure ('test_gen_tibble_versioning.R:60:3'): versioning updates correctly through gt_order_loci ── gt_get_file_names(test_gt)[2] (`actual`) not equal to paste0(file, "_v3.bk") (`expected`). actual vs expected - "D:\\temp\\2025_09_02_09_03_13_2588\\RtmpgHP\\file2e39016e2da5_v2.bk" + "D:\\temp\\2025_09_02_09_03_13_2588\\RtmpgHP\\file2e39016e2da5_v3.bk" ── Failure ('test_gen_tibble_versioning.R:120:3'): versioning if .bk already exists ── new_files[2] (`actual`) not equal to paste0(file, "_v2.bk") (`expected`). actual vs expected - "D:\\temp\\2025_09_02_09_03_13_2588\\RtmpgHP\\file2e39077606bb7.bk" + "D:\\temp\\2025_09_02_09_03_13_2588\\RtmpgHP\\file2e39077606bb7_v2.bk" ── Failure ('test_gen_tibble_versioning.R:137:3'): versioning if .bk already exists ── new_version_files[2] (`actual`) not equal to paste0(file, "_v3.bk") (`expected`). actual vs expected - "D:\\temp\\2025_09_02_09_03_13_2588\\RtmpgHP\\file2e39077606bb7_v2.bk" + "D:\\temp\\2025_09_02_09_03_13_2588\\RtmpgHP\\file2e39077606bb7_v3.bk" [ FAIL 5 | WARN 1 | SKIP 4 | PASS 974 ] Error: Test failures Execution halted Flavor: r-release-windows-x86_64

Version: 0.3.2
Check: package dependencies
Result: NOTE Packages suggested but not available for checking: 'admixtools', 'LEA' Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Version: 0.3.2
Check: installed package size
Result: NOTE installed size is 8.8Mb sub-directories of 1Mb or more: doc 1.2Mb libs 5.7Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Version: 0.3.2
Check: package dependencies
Result: NOTE Package suggested but not available for checking: 'admixtools' Flavor: r-oldrel-windows-x86_64

Package tidysdm

Current CRAN status: NOTE: 2, OK: 11

Version: 1.0.2
Check: dependencies in R code
Result: NOTE Namespace in Imports field not imported from: ‘xgboost’ All declared Imports should be used. Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc