Running with gitlab-runner 18.4.0~pre.115.gb2218bab (b2218bab)  on green-2.saas-linux-medium-amd64.runners-manager.gitlab.com/default XC_pLo7y6, system ID: s_e492edf4e5ae Resolving secrets section_start:1759551701:prepare_executor Preparing the "docker+machine" executor Using Docker executor with image registry.gitlab.com/rdatatable/dockerfiles/r-base-gcc ... Using effective pull policy of [always] for container registry.gitlab.com/rdatatable/dockerfiles/r-base-gcc Authenticating with credentials from job payload (GitLab Registry) Pulling docker image registry.gitlab.com/rdatatable/dockerfiles/r-base-gcc ... Using docker image sha256:05486d84e95d4d70547d0bb3e732294245b404c4e2624002c6f13db39f2cdd99 for registry.gitlab.com/rdatatable/dockerfiles/r-base-gcc with digest registry.gitlab.com/rdatatable/dockerfiles/r-base-gcc@sha256:bc45a2d6cddb7e89961403726c94b09489c50ad919510a3b8d0f578ca45ec9f0 ... section_end:1759551712:prepare_executor section_start:1759551712:prepare_script Preparing environment Using effective pull policy of [always] for container sha256:e0588e92a9fadd9257a96e5dad42040c004fa0b90985e7996edb90d6363f7bb1 Running on runner-xcplo7y6-project-3622566-concurrent-0 via runner-xcplo7y6-s-l-m-amd64-1759551591-82e5c99b... section_end:1759551717:prepare_script section_start:1759551717:get_sources Getting source from Git repository Gitaly correlation ID: 9941d6dafb774be890daa2505d2f95cf Fetching changes... Initialized empty Git repository in /builds/Rdatatable/data.table/.git/ Created fresh repository. Checking out c5e81521 as detached HEAD (ref is master)... Skipping Git submodules setup $ git remote set-url origin "${CI_REPOSITORY_URL}" || echo 'Not a git repository; skipping' section_end:1759551724:get_sources section_start:1759551724:download_artifacts Downloading artifacts Downloading artifacts for mirror-packages (11600638862)... Downloading artifacts from coordinator... ok  correlation_id=d8f0f783f9a84cea9ee9517045045bbb host=storage.googleapis.com id=11600638862 responseStatus=200 OK token=6a_H4bAps Downloading artifacts for build (11600638869)... Downloading artifacts from coordinator... ok  correlation_id=faee7af8f41f46eb9b986d2a249f294e host=storage.googleapis.com id=11600638869 responseStatus=200 OK token=6a_H4bAps section_end:1759551727:download_artifacts section_start:1759551727:step_script Executing "step_script" stage of the job script Using effective pull policy of [always] for container registry.gitlab.com/rdatatable/dockerfiles/r-base-gcc Using docker image sha256:05486d84e95d4d70547d0bb3e732294245b404c4e2624002c6f13db39f2cdd99 for registry.gitlab.com/rdatatable/dockerfiles/r-base-gcc with digest registry.gitlab.com/rdatatable/dockerfiles/r-base-gcc@sha256:bc45a2d6cddb7e89961403726c94b09489c50ad919510a3b8d0f578ca45ec9f0 ... $ cp $(ls -1t bus/build/data.table_*.tar.gz | head -n 1) . $ mkdir -p ~/.R $ echo 'CFLAGS=-g -O0 -fno-openmp -Wall -Wvla -pedantic -fstack-protector-strong -D_FORTIFY_SOURCE=2' > ~/.R/Makevars $ echo 'CXXFLAGS=-g -O0 -fno-openmp -Wall -Wvla -pedantic -fstack-protector-strong -D_FORTIFY_SOURCE=2' >> ~/.R/Makevars $ R CMD check --no-manual --ignore-vignettes $(ls -1t data.table_*.tar.gz | head -n 1) * using log directory '/builds/Rdatatable/data.table/data.table.Rcheck' * using R version 4.5.0 (2025-04-11) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Debian 14.2.0-19) 14.2.0 GNU Fortran (Debian 14.2.0-19) 14.2.0 * running under: Debian GNU/Linux 13 (trixie) * using session charset: ASCII * using options '--no-manual --ignore-vignettes' * checking for file 'data.table/DESCRIPTION' ... OK * this is package 'data.table' version '1.17.99' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... INFO Packages suggested but not available for checking: 'bit64', 'bit', 'R.utils', 'xts', 'zoo', 'yaml', 'knitr', 'markdown' * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for .dll and .exe 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 'data.table' can be installed ... OK * used C compiler: 'gcc (Debian 14.2.0-19) 14.2.0' * checking installed package size ... INFO installed size is 7.3Mb sub-directories of 1Mb or more: doc 1.0Mb libs 1.2Mb po 1.6Mb tests 2.1Mb * 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 ... WARNING Warning in Sys.setlocale("LC_CTYPE", "en_US.UTF-8") : OS reports request to set locale to "en_US.UTF-8" cannot be honored * 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 whether startup messages can be suppressed ... 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 cross-references ... INFO Packages unavailable to check Rd xrefs: 'bit64', 'yaml' * 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 line endings in shell scripts ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking compilation flags in Makevars ... OK * checking for GNU extensions in Makefiles ... OK * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking compiled code ... NOTE File 'data.table/libs/data_table.so': Found non-API calls to R: 'SETLENGTH', 'SET_GROWABLE_BIT', 'SET_TRUELENGTH', 'TRUELENGTH' Compiled code should not call non-API entry points in R. See 'Writing portable packages' in the 'Writing R Extensions' manual, and section 'Moving into C API compliance' for issues with the use of non-API entry points. * checking installed files from 'inst/doc' ... OK * checking files in 'vignettes' ... SKIPPED * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'S4.R' Running 'autoprint.R' Comparing 'autoprint.Rout' to 'autoprint.Rout.save' ... OK Running 'froll.R' Running 'knitr.R' Comparing 'knitr.Rout' to 'knitr.Rout.save' ... OK Running 'main.R' Running 'mergelist.R' Running 'nafill.R' Running 'other.R' Running 'programming.R' Running 'types.R' ERROR Running the tests in 'tests/main.R' failed. Complete output: > require(data.table) Loading required package: data.table > > test.data.table() # runs the main test suite of 5,000+ tests in /inst/tests/tests.Rraw getDTthreads(verbose=TRUE): This installation of data.table has not been compiled with OpenMP support. omp_get_num_procs() 1 R_DATATABLE_NUM_PROCS_PERCENT unset (default 50) R_DATATABLE_NUM_THREADS unset R_DATATABLE_THROTTLE unset (default 1024) omp_get_thread_limit() 1 omp_get_max_threads() 1 OMP_THREAD_LIMIT unset OMP_NUM_THREADS unset RestoreAfterFork true data.table is using 1 threads with throttle==1024. See ?setDTthreads. test.data.table() running: /builds/Rdatatable/data.table/data.table.Rcheck/data.table/tests/tests.Rraw **** Suggested package bit64 is not installed or has dependencies missing. Tests using it will be skipped. **** Suggested package R.utils is not installed or has dependencies missing. Tests using it will be skipped. Test 2194.7 skipped because it needs a UTF-8 locale. Tests 2253* skipped because they need a UTF-8 locale. Tests 2266* skipped. n-tilde cannot be represented in the native encoding on this system. Please report to the data.table issue tracker. Tests 2298.* skipped because they need a UTF-8 locale. V1 1 V1 0,1 0,2 a,b a Sat Oct 4 04:24:52 2025 endian==little, sizeof(long double)==16, capabilities('long.double')==TRUE, longdouble.digits==64, sizeof(pointer)==8, TZ=='UTC', Sys.timezone()=='UTC', Sys.getlocale()=='C', l10n_info()=='MBCS=FALSE; UTF-8=FALSE; Latin-1=FALSE; codeset=ANSI_X3.4-1968', getDTthreads()=='This installation of data.table has not been compiled with OpenMP support.; omp_get_num_procs()==1; R_DATATABLE_NUM_PROCS_PERCENT==unset (default 50); R_DATATABLE_NUM_THREADS==unset; R_DATATABLE_THROTTLE==unset (default 1024); omp_get_thread_limit()==1; omp_get_max_threads()==1; OMP_THREAD_LIMIT==unset; OMP_NUM_THREADS==unset; RestoreAfterFork==true; data.table is using 1 threads with throttle==1024. See ?setDTthreads.', .libPaths()=='/builds/Rdatatable/data.table/data.table.Rcheck','/usr/local/lib/R/site-library','/usr/lib/R/site-library','/usr/lib/R/library', zlib header files were not found when data.table was compiled Caught 13 warnings outside the test() calls: after test 1: -1.0 2: -1.0 3: -1.0 4: -1.0 5: -1.0 6: -1.0 7: -1.0 8: -1.0 9: -1.0 10: -1.0 11: -1.0 12: -1.0 13: 2194.6 warning 1: unable to translate '' to native encoding 2: unable to translate '' to native encoding 3: unable to translate '' to native encoding 4: unable to translate '' to native encoding 5: unable to translate '' to native encoding 6: unable to translate '' to native encoding 7: unable to translate '' to native encoding 8: unable to translate '' to native encoding 9: unable to translate '' to native encoding 10: unable to translate '' to native encoding 11: unable to translate '' to native encoding 12: unable to translate '' to native encoding 13: invalid input found on input connection '/builds/Rdatatable/data.table/data.table.Rcheck/data.table/tests/issue_563_fread.txt' calls 1: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> parse -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... 2: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> parse -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... 3: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> parse -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... 4: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> parse -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... 5: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> parse -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... 6: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> parse -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... 7: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> parse -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... 8: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> parse -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... 9: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> parse -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... 10: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> parse -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... 11: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> parse -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... 12: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> parse -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... 13: test.data.table -> try -> tryCatch -> tryCatchList -> tryCatchOne -> doTryCatch -> withCallingHandlers -> sys.source -> eval -> eval -> readLines -> .signalSimpleWarning -> withRestarts -> withOneRestart -> doWithOneRestart -> ... Error in test.data.table() : Tests succeeded, but non-test code caused warnings. Search tests/tests.Rraw for tests shown above. Calls: test.data.table -> stopf -> raise_condition -> signal Execution halted * DONE Status: 1 ERROR, 1 WARNING, 1 NOTE See '/builds/Rdatatable/data.table/data.table.Rcheck/00check.log' for details. section_end:1759551895:step_script section_start:1759551895:after_script Running after_script Running after script... $ mkdir -p bus/$CI_JOB_NAME $ echo $CI_JOB_ID > bus/$CI_JOB_NAME/id $ echo $CI_JOB_STATUS > bus/$CI_JOB_NAME/status $ echo $CI_JOB_IMAGE > bus/$CI_JOB_NAME/image $ [ -d data.table.Rcheck ] && mv data.table.Rcheck bus/$CI_JOB_NAME/ section_end:1759551896:after_script section_start:1759551896:upload_artifacts_on_failure Uploading artifacts for failed job Uploading artifacts... bus/test-lin-rel-vanilla: found 668 matching artifact files and directories Uploading artifacts as "archive" to coordinator... 201 Created correlation_id=1d4af3fd664740b2b549c16336371528 id=11600638877 responseStatus=201 Created token=6a_H4bAps section_end:1759551899:upload_artifacts_on_failure section_start:1759551899:cleanup_file_variables Cleaning up project directory and file based variables section_end:1759551900:cleanup_file_variables ERROR: Job failed: exit code 1