* using log directory ‘/data/localhost/ripley/R/packages/tests-donttest/personalr.Rcheck’ * using R Under development (unstable) (2026-08-25 r90447) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2) GNU Fortran (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2) * running under: Fedora Linux 44 (Server Edition) * using session charset: UTF-8 * current time: 2026-08-25 19:13:06 UTC * checking for file ‘personalr/DESCRIPTION’ ... OK * this is package ‘personalr’ version ‘1.0.3’ * 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 ‘personalr’ can be installed ... 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 ... 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 ... 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 examples with --run-donttest ... [53s/65s] ERROR Running examples in ‘personalr-Ex.R’ failed The error most likely occurred in: > ### Name: setup_package > ### Title: Setup Personal Package > ### Aliases: setup_package > > ### ** Examples > > ## No test: > # create package "mypackage" in temporary directory with > # the core packages dplyr, glue and purrr > withr::with_tempdir({ + install.packages( + c("dplyr", "glue", "purrr"), + repos = "http://cran.us.r-project.org" + ) + setup_package( + path = tempdir(), + packagename = "mypackage", + core = c("dplyr", "glue", "purrr") + ) + }) Installing packages into ‘/data/localhost/ripley/R/packages/tests-donttest/personalr.Rcheck’ (as ‘lib’ is unspecified) trying URL 'http://cran.us.r-project.org/src/contrib/dplyr_1.2.1.tar.gz' trying URL 'http://cran.us.r-project.org/src/contrib/glue_1.8.1.tar.gz' trying URL 'http://cran.us.r-project.org/src/contrib/purrr_1.2.2.tar.gz' * installing *source* package ‘glue’ ... ** this is package ‘glue’ version ‘1.8.1’ ** package ‘glue’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc (GCC) 16.2.1 20260819 (Red Hat 16.2.1-2)’ make[2]: Entering directory '/tmp/Rtmpq01gdw/working_dir/Rtmp2jaKx7/R.INSTALL2f073952ab1935/glue/src' gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c glue.c -o glue.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c init.c -o init.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c trim.c -o trim.o gcc -shared -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -fpic -L/usr/local/lib64 -o glue.so glue.o init.o trim.o make[2]: Leaving directory '/tmp/Rtmpq01gdw/working_dir/Rtmp2jaKx7/R.INSTALL2f073952ab1935/glue/src' make[2]: Entering directory '/tmp/Rtmpq01gdw/working_dir/Rtmp2jaKx7/R.INSTALL2f073952ab1935/glue/src' make[2]: Leaving directory '/tmp/Rtmpq01gdw/working_dir/Rtmp2jaKx7/R.INSTALL2f073952ab1935/glue/src' installing to /data/localhost/ripley/R/packages/tests-donttest/personalr.Rcheck/00LOCK-glue/00new/glue/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (glue) * installing *source* package ‘purrr’ ... ** this is package ‘purrr’ version ‘1.2.2’ ** package ‘purrr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc (GCC) 16.2.1 20260819 (Red Hat 16.2.1-2)’ make[2]: Entering directory '/tmp/Rtmpq01gdw/working_dir/RtmpHgrPJI/R.INSTALL2f09f02fb64872/purrr/src' gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/cli/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c backports.c -o backports.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/cli/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c cleancall.c -o cleancall.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/cli/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c coerce.c -o coerce.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/cli/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c conditions.c -o conditions.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/cli/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c every-some-none.c -o every-some-none.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/cli/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c flatten.c -o flatten.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/cli/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c init.c -o init.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/cli/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c map.c -o map.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/cli/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c pluck.c -o pluck.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/cli/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c transpose.c -o transpose.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/cli/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c utils.c -o utils.o gcc -shared -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -fpic -L/usr/local/lib64 -o purrr.so backports.o cleancall.o coerce.o conditions.o every-some-none.o flatten.o init.o map.o pluck.o transpose.o utils.o make[2]: Leaving directory '/tmp/Rtmpq01gdw/working_dir/RtmpHgrPJI/R.INSTALL2f09f02fb64872/purrr/src' make[2]: Entering directory '/tmp/Rtmpq01gdw/working_dir/RtmpHgrPJI/R.INSTALL2f09f02fb64872/purrr/src' make[2]: Leaving directory '/tmp/Rtmpq01gdw/working_dir/RtmpHgrPJI/R.INSTALL2f09f02fb64872/purrr/src' installing to /data/localhost/ripley/R/packages/tests-donttest/personalr.Rcheck/00LOCK-purrr/00new/purrr/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (purrr) * installing *source* package ‘dplyr’ ... ** this is package ‘dplyr’ version ‘1.2.1’ ** package ‘dplyr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++ (GCC) 16.2.1 20260819 (Red Hat 16.2.1-2)’ make[2]: Entering directory '/tmp/Rtmpq01gdw/working_dir/RtmpPvMH9w/R.INSTALL2f0fac19ca6dc6/dplyr/src' g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c chop.cpp -o chop.o g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c filter.cpp -o filter.o g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c funs.cpp -o funs.o g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c group_by.cpp -o group_by.o g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c group_data.cpp -o group_data.o g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c imports.cpp -o imports.o g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c init.cpp -o init.o g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c mask.cpp -o mask.o g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c mutate.cpp -o mutate.o g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c reconstruct.cpp -o reconstruct.o g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c slice.cpp -o slice.o g++ -std=gnu++20 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c summarise.cpp -o summarise.o g++ -std=gnu++20 -shared -L/usr/local/lib64 -o dplyr.so chop.o filter.o funs.o group_by.o group_data.o imports.o init.o mask.o mutate.o reconstruct.o slice.o summarise.o make[2]: Leaving directory '/tmp/Rtmpq01gdw/working_dir/RtmpPvMH9w/R.INSTALL2f0fac19ca6dc6/dplyr/src' make[2]: Entering directory '/tmp/Rtmpq01gdw/working_dir/RtmpPvMH9w/R.INSTALL2f0fac19ca6dc6/dplyr/src' make[2]: Leaving directory '/tmp/Rtmpq01gdw/working_dir/RtmpPvMH9w/R.INSTALL2f0fac19ca6dc6/dplyr/src' installing to /data/localhost/ripley/R/packages/tests-donttest/personalr.Rcheck/00LOCK-dplyr/00new/dplyr/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (dplyr) The downloaded source packages are in ‘/tmp/Rtmpq01gdw/working_dir/Rtmpeq5EfQ/downloaded_packages’ ✔ Creating '/tmp/Rtmpq01gdw/working_dir/Rtmpeq5EfQ/mypackage/'. ✔ Setting active project to "/tmp/Rtmpq01gdw/working_dir/Rtmpeq5EfQ/mypackage". ✔ Creating 'R/'. ✔ Writing 'DESCRIPTION'. Package: mypackage Title: What the Package Does (One Line, Title Case) Version: 1.0.0 Authors@R (parsed): * First Last [aut, cre] Description: What the package does (one paragraph). License: `use_mit_license()`, `use_gpl3_license()` or friends to pick a license Encoding: UTF-8 Roxygen: list(markdown = TRUE) RoxygenNote: 8.1.0 ✔ Writing 'NAMESPACE'. ✔ Setting active project to "". ✔ Setting active project to "/tmp/Rtmpq01gdw/working_dir/Rtmpeq5EfQ/mypackage". ✔ Writing 'R/mypackage-package.R'. ✔ Writing 'README.md'. ✔ Adding 'dplyr' to Imports field in DESCRIPTION ✔ Adding 'glue' to Imports field in DESCRIPTION ✔ Adding 'purrr' to Imports field in DESCRIPTION ✔ Adding 'cli' to Imports field in DESCRIPTION ✔ Adding 'crayon' to Imports field in DESCRIPTION ✔ Adding 'rstudioapi' to Imports field in DESCRIPTION ✔ Writing 'R/core.R'. ✔ Writing 'R/attach.R'. ✔ Writing 'R/conflicts.R'. ✔ Writing 'R/pipe.R'. ✔ Writing 'R/utils.R'. ✔ Writing 'R/zzz.R'. • Updating documentation and installing mypackage... ℹ Setting Config/roxygen2/version to "8.1.0" Writing 'NAMESPACE' ℹ Loading mypackage ── Attaching packages ─────────────────────────────────────── mypackage 1.0.0 ── ✔ dplyr 1.2.1 ✔ purrr 1.2.2 ✔ glue 1.8.1 ──────────────────────────────────────────────────────────────── Ready to go! ── ✖ conflicts.R:51: S3 method `print.mypackage_conflicts` needs @export or @exportS3Method tag. Writing 'NAMESPACE' Writing 'mypackage-package.Rd' Writing 'pipe.Rd' Warning: The `force` argument of `install()` is deprecated as of devtools 2.5.0. ℹ The deprecated feature was likely used in the personalr package. Please report the issue at . ── pak::local_install_deps() ─────────────────────────────────────────────────── Error: ! error in pak subprocess Caused by error in `get_user_cache_dir()`: ! R_USER_CACHE_DIR env var not set during package check, see https://github.com/r-lib/pkgcache#README --- Backtrace: 1. withr::with_tempdir({ … 2. withr::with_dir(tmp, code) 3. base::force(code) 4. personalr::setup_package(path = tempdir(), packagename = "mypackage", core = c("dplyr… 5. devtools::install(pkg = path, reload = FALSE, build = FALSE, … 6. (function() { … 7. pak::local_install_deps(pkg$path, lib = .libPaths(), upgrade = upgrade, … 8. pak:::remote(function(...) get("local_install_make_plan", asNamespace("pak"))(..… 9. err$throw(res$error) --- Subprocess backtrace: 1. base::withCallingHandlers(cli_message = function(msg) { … 2. get("local_install_make_plan", asNamespace("pak"))(...) 3. pak:::pkg_install_make_plan(pkg, lib, upgrade, ask, start, dependencies, … 4. pkgdepends::new_pkg_installation_proposal(pkg, config = list(library = lib… 5. pkg_installation_proposal$new(refs, config = config, ...) 6. local initialize(...) 7. pkg_plan$new(refs, config = config, remote_types = remote_types) 8. local initialize(...) 9. pkgdepends:::pkgplan_init(self, private, refs, config, remote_types, lockfile) 10. pkgcache::cranlike_metadata_cache$new(replica_path = private$config$get("m… 11. local initialize(...) 12. pkgcache:::cmc_init(self, private, primary_path, replica_path, platforms, … 13. primary_path %||% get_user_cache_dir()$root 14. pkgcache:::get_user_cache_dir() 15. base::stop("R_USER_CACHE_DIR env var not set during package check, ", … 16. | base::.handleSimpleError(function (e) … 17. global h(simpleError(msg, call)) ✔ Setting active project to "". Execution halted * checking PDF version of manual ... OK * checking HTML version of manual ... OK * checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘dplyr’ ‘glue’ ‘purrr’ * checking for detritus in the temp directory ... OK * checking for new files in some other directories ... OK * DONE Status: 1 ERROR, 1 NOTE See ‘/data/localhost/ripley/R/packages/tests-donttest/personalr.Rcheck/00check.log’ for details. Command exited with non-zero status 1 Time 2:11.77, 81.28 + 28.02