Running with gitlab-runner 17.4.0~pre.110.g27400594 (27400594)  on green-2.saas-linux-medium-amd64.runners-manager.gitlab.com/default XC_pLo7y, system ID: s_e492edf4e5ae Resolving secrets section_start:1728015475:prepare_executor Preparing the "docker+machine" executor Using Docker executor with image registry.gitlab.com/jangorecki/dockerfiles/r-base-gcc ... Authenticating with credentials from job payload (GitLab Registry) Pulling docker image registry.gitlab.com/jangorecki/dockerfiles/r-base-gcc ... Using docker image sha256:407678219fe65c5960b45d872620428be701ed793a08b22765a7763b93d03334 for registry.gitlab.com/jangorecki/dockerfiles/r-base-gcc with digest registry.gitlab.com/jangorecki/dockerfiles/r-base-gcc@sha256:c8a98cbe4561fb4faa9d454acf507bdb436dc21b4f5242775361dd8d71743eda ... section_end:1728015484:prepare_executor section_start:1728015484:prepare_script Preparing environment Running on runner-xcplo7y-project-3622566-concurrent-0 via runner-xcplo7y-s-l-m-amd64-1728015290-dfdeb10d... section_end:1728015489:prepare_script section_start:1728015489:get_sources Getting source from Git repository Fetching changes... Initialized empty Git repository in /builds/Rdatatable/data.table/.git/ Created fresh repository. Checking out b4538a0a as detached HEAD (ref is master)... Skipping Git submodules setup $ git remote set-url origin "${CI_REPOSITORY_URL}" section_end:1728015495:get_sources section_start:1728015495:download_artifacts Downloading artifacts Downloading artifacts for build (7991672318)... Downloading artifacts from coordinator... ok  host=storage.googleapis.com id=7991672318 responseStatus=200 OK token=glcbt-66 Downloading artifacts for mirror-packages (7991672274)... Downloading artifacts from coordinator... ok  host=storage.googleapis.com id=7991672274 responseStatus=200 OK token=glcbt-66 section_end:1728015497:download_artifacts section_start:1728015497:step_script Executing "step_script" stage of the job script Using docker image sha256:407678219fe65c5960b45d872620428be701ed793a08b22765a7763b93d03334 for registry.gitlab.com/jangorecki/dockerfiles/r-base-gcc with digest registry.gitlab.com/jangorecki/dockerfiles/r-base-gcc@sha256:c8a98cbe4561fb4faa9d454acf507bdb436dc21b4f5242775361dd8d71743eda ... $ 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 4.3.2 (2023-10-31) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by gcc (Debian 13.2.0-6) 13.2.0 GNU Fortran (Debian 13.2.0-6) 13.2.0 * running under: Debian GNU/Linux trixie/sid * using session charset: ASCII * using options '--no-manual --ignore-vignettes' * checking for file 'data.table/DESCRIPTION' ... OK * this is package 'data.table' version '1.16.99' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... NOTE 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 13.2.0-5) 13.2.0' * checking installed package size ... NOTE installed size is 6.2Mb sub-directories of 1Mb or more: libs 1.1Mb po 1.3Mb tests 1.9Mb * 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 R 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 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 ... NOTE 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 ... OK * 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 '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 produced 0 errors but expected 1 Expected: Internal error.*types or lengths incorrect Observed: Test 2253.01 did not produce correct output: Expected: <> Observed: << V1\n1: aaaa>> Expected (raw): <<61 cc 81 61 cc 81 61 cc 81 61 cc 81>> Observed (raw): <<20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 56 31 0a 31 3a 20 61 3c 55 2b 30 33 30 31 3e 61 3c 55 2b 30 33 30 31 3e 61 3c 55 2b 30 33 30 31 3e 61 3c 55 2b 30 33 30 31 3e>> Test 2253.02 did not produce correct output: Expected: <> Observed: << V1\n1: a> Expected (raw): <<61 cc 81 61 cc 81 61 cc 81 2e 2e 2e>> Observed (raw): <<20 20 20 20 20 20 20 56 31 0a 31 3a 20 61 3c 55 2e 2e 2e>> Test 2253.03 did not produce correct output: Expected: <> Observed: << V1\n1: a...>> Expected (raw): <<61 cc 81 2e 2e 2e>> Observed (raw): <<20 20 20 20 20 56 31 0a 31 3a 20 61 2e 2e 2e>> Test 2253.04 did not produce correct output: Expected: <<\u4e00\u4e00\u4e00\u4e00>> Observed: << V1\n1: >> Expected (raw): <> Observed (raw): <<20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 56 31 0a 31 3a 20 3c 55 2b 34 45 30 30 3e 3c 55 2b 34 45 30 30 3e 3c 55 2b 34 45 30 30 3e 3c 55 2b 34 45 30 30 3e>> Test 2253.05 did not produce correct output: Expected: <<\u4e00\u4e00\u4e00...>> Observed: << V1\n1: > Expected (raw): <> Observed (raw): <<20 20 20 20 20 20 20 20 20 20 56 31 0a 31 3a 20 3c 55 2b 34 45 30 2e 2e 2e>> Test 2253.06 did not produce correct output: Expected: <<\u4e00...>> Observed: << V1\n1: > Expected (raw): <> Observed (raw): <<20 20 20 20 20 20 56 31 0a 31 3a 20 3c 55 2e 2e 2e>> Test 2253.07 ran without errors but failed check that x equals y: > x = gsub(clean_regex, "", capture.output(print(DT))[-1L]) First 4 of 4 (type 'character'): [1] "a" [2] "aa" [3] "aaa" [4] "aaaa" > y = strrep(accented_a, 1:4L) First 4 of 4 (type 'character'): [1] "a" "aa" [3] "aaa" "aaaa" Non-ASCII string detected, raw representation: [[1]] [1] 61 cc 81 [[2]] [1] 61 cc 81 61 cc 81 [[3]] [1] 61 cc 81 61 cc 81 61 cc 81 [[4]] [1] 61 cc 81 61 cc 81 61 cc 81 61 cc 81 4 string mismatches Test 2253.08 ran without errors but failed check that x equals y: > x = gsub(clean_regex, "", capture.output(print(DT))[-1L]) First 4 of 4 (type 'character'): [1] "a" "aa" [3] "aaa" "a y = c(strrep(accented_a, 1:3), paste0(strrep(accented_a, 3L), dots)) First 4 of 4 (type 'character'): [1] "a" "aa" [3] "aaa" "aaa..." Non-ASCII string detected, raw representation: [[1]] [1] 61 cc 81 [[2]] [1] 61 cc 81 61 cc 81 [[3]] [1] 61 cc 81 61 cc 81 61 cc 81 [[4]] [1] 61 cc 81 61 cc 81 61 cc 81 2e 2e 2e 4 string mismatches Test 2253.09 ran without errors but failed check that x equals y: > x = gsub(clean_regex, "", capture.output(print(DT))[-1L]) First 4 of 4 (type 'character'): [1] "a" "a..." "a..." "a..." > y = c(accented_a, rep(paste0(accented_a, dots), 3L)) First 4 of 4 (type 'character'): [1] "a" "a..." "a..." "a..." Non-ASCII string detected, raw representation: [[1]] [1] 61 cc 81 [[2]] [1] 61 cc 81 2e 2e 2e [[3]] [1] 61 cc 81 2e 2e 2e [[4]] [1] 61 cc 81 2e 2e 2e 4 string mismatches Test 2253.1 ran without errors but failed check that x equals y: > x = gsub(clean_regex, "", capture.output(print(DT))[-1L]) First 4 of 4 (type 'character'): [1] "" "" [3] "" "" > y = strrep(ja_ichi, 1:4L) First 4 of 4 (type 'character'): [1] "" "" [3] "" "" Non-ASCII string detected, raw representation: [[1]] [1] e4 b8 80 [[2]] [1] e4 b8 80 e4 b8 80 [[3]] [1] e4 b8 80 e4 b8 80 e4 b8 80 [[4]] [1] e4 b8 80 e4 b8 80 e4 b8 80 e4 b8 80 4 string mismatches Test 2253.11 ran without errors but failed check that x equals y: > x = gsub(clean_regex, "", capture.output(print(DT))[-1L]) First 4 of 4 (type 'character'): [1] "" "" [3] "" " y = c(strrep(ja_ichi, 1:3), paste0(strrep(ja_ichi, 3L), dots)) First 4 of 4 (type 'character'): [1] "" "" "" [4] "..." Non-ASCII string detected, raw representation: [[1]] [1] e4 b8 80 [[2]] [1] e4 b8 80 e4 b8 80 [[3]] [1] e4 b8 80 e4 b8 80 e4 b8 80 [[4]] [1] e4 b8 80 e4 b8 80 e4 b8 80 2e 2e 2e 4 string mismatches Test 2253.12 ran without errors but failed check that x equals y: > x = gsub(clean_regex, "", capture.output(print(DT))[-1L]) First 4 of 4 (type 'character'): [1] "" " y = c(ja_ichi, rep(paste0(ja_ichi, dots), 3L)) First 4 of 4 (type 'character'): [1] "" "..." "..." "..." Non-ASCII string detected, raw representation: [[1]] [1] e4 b8 80 [[2]] [1] e4 b8 80 2e 2e 2e [[3]] [1] e4 b8 80 2e 2e 2e [[4]] [1] e4 b8 80 2e 2e 2e 4 string mismatches Test 2253.13 ran without errors but failed check that x equals y: > x = capture.output(print(DT))[-1L] First 1 of 1 (type 'character'): [1] "1: aa aaa" > y = paste("1:", ja_ichi, strrep(ja_ni, 2L), strrep(ja_ko, 3L), strrep(accented_a, 2L), "aaa") First 1 of 1 (type 'character'): [1] "1: aa aaa" Non-ASCII string detected, raw representation: [[1]] [1] 31 3a 20 e4 b8 80 20 e4 ba 8c e4 ba 8c 20 e3 81 93 e3 81 93 e3 81 93 20 61 [26] cc 81 61 cc 81 20 61 61 61 1 string mismatch Test 2253.14 ran without errors but failed check that x equals y: > x = capture.output(print(DT))[-1L] First 1 of 1 (type 'character'): [1] "1: aa aaa" > y = paste("1:", ja_ichi, strrep(ja_ni, 2L), strrep(ja_ko, 3L), strrep(accented_a, 2L), "aaa") First 1 of 1 (type 'character'): [1] "1: aa aaa" Non-ASCII string detected, raw representation: [[1]] [1] 31 3a 20 e4 b8 80 20 e4 ba 8c e4 ba 8c 20 e3 81 93 e3 81 93 e3 81 93 20 61 [26] cc 81 61 cc 81 20 61 61 61 1 string mismatch Test 2253.15 ran without errors but failed check that x equals y: > x = capture.output(print(DT))[-1L] First 1 of 1 (type 'character'): [1] "1: a aa..." > y = paste("1:", ja_ichi, strrep(ja_ni, 2), paste0(strrep(ja_ko, 2), dots), strrep(accented_a, 2), "aa...") First 1 of 1 (type 'character'): [1] "1: ... aa aa..." Non-ASCII string detected, raw representation: [[1]] [1] 31 3a 20 e4 b8 80 20 e4 ba 8c e4 ba 8c 20 e3 81 93 e3 81 93 2e 2e 2e 20 61 [26] cc 81 61 cc 81 20 61 61 2e 2e 2e 1 string mismatch Test 2253.16 ran without errors but failed check that x equals y: > x = capture.output(print(DT))[-1L] First 1 of 1 (type 'character'): [1] "1: y = paste("1:", ja_ichi, paste0(ja_ni, dots), paste0(ja_ko, dots), paste0(accented_a, dots), "a...") First 1 of 1 (type 'character'): [1] "1: ... ... a... a..." Non-ASCII string detected, raw representation: [[1]] [1] 31 3a 20 e4 b8 80 20 e4 ba 8c 2e 2e 2e 20 e3 81 93 2e 2e 2e 20 61 cc 81 2e [26] 2e 2e 20 61 2e 2e 2e 1 string mismatch Test 2253.17 ran without errors but failed check that x equals y: > x = gsub(clean_regex, "", capture.output(print(DT))[-1L]) First 6 of 7 (type 'character'): [1] " " [2] " " [3] " " [4] " V3" [5] "aaa" [6] "aaa" > y = c(paste0(ja_ko, " ", strrep(ja_n, 2L), " ", strrep(accented_a, 3L)), paste0(strrep(ja_ko, 2L), " ", strrep(ja_n, 3L), " ", strrep(accented_a, 3L)), paste(strrep(ja_ko, 3L), strrep(ja_n, 4L), strrep(accented_a, 3L))) First 3 of 3 (type 'character'): [1] " aaa" [2] " aaa" [3] " aaa" Non-ASCII string detected, raw representation: [[1]] [1] e3 81 93 20 20 20 20 20 e3 82 93 e3 82 93 20 61 cc 81 61 cc 81 61 cc 81 [[2]] [1] e3 81 93 e3 81 93 20 20 20 e3 82 93 e3 82 93 e3 82 93 20 61 cc 81 61 cc 81 [26] 61 cc 81 [[3]] [1] e3 81 93 e3 81 93 e3 81 93 20 e3 82 93 e3 82 93 e3 82 93 e3 82 93 20 61 cc [26] 81 61 cc 81 61 cc 81 Lengths (7, 3) differ (string compare on first 3) 3 string mismatches Test 2253.18 ran without errors but failed check that x equals y: > x = gsub(clean_regex, "", capture.output(print(DT))[-1L]) First 6 of 7 (type 'character'): [1] " " [2] " " [3] " aa" [6] "aaa" > y = c(paste0(ja_ko, " ", strrep(ja_n, 2L), " ", strrep(accented_a, 3L)), paste0(strrep(ja_ko, 2L), " ", strrep(ja_n, 3L), " ", strrep(accented_a, 3L)), paste(strrep(ja_ko, 3L), paste0(strrep(ja_n, 3L), dots), strrep(accented_a, 3L))) First 3 of 3 (type 'character'): [1] " aaa" [2] " aaa" [3] " ... aaa" Non-ASCII string detected, raw representation: [[1]] [1] e3 81 93 20 20 20 20 20 20 e3 82 93 e3 82 93 20 61 cc 81 61 cc 81 61 cc 81 [[2]] [1] e3 81 93 e3 81 93 20 20 20 20 e3 82 93 e3 82 93 e3 82 93 20 61 cc 81 61 cc [26] 81 61 cc 81 [[3]] [1] e3 81 93 e3 81 93 e3 81 93 20 e3 82 93 e3 82 93 e3 82 93 2e 2e 2e 20 61 cc [26] 81 61 cc 81 61 cc 81 Lengths (7, 3) differ (string compare on first 3) 3 string mismatches Test 2253.19 ran without errors but failed check that x equals y: > x = gsub(clean_regex, "", capture.output(print(DT))[-1L]) First 3 of 3 (type 'character'): [1] " y = c(paste0(ja_ko, " ", paste0(ja_n, dots), " ", paste0(accented_a, dots)), paste0(c(ja_ko, ja_n, accented_a), dots, collapse = " "), paste0(c(ja_ko, ja_n, accented_a), dots, collapse = " ")) First 3 of 3 (type 'character'): [1] " ... a..." "... ... a..." [3] "... ... a..." Non-ASCII string detected, raw representation: [[1]] [1] e3 81 93 20 e3 82 93 2e 2e 2e 20 61 cc 81 2e 2e 2e [[2]] [1] e3 81 93 2e 2e 2e 20 e3 82 93 2e 2e 2e 20 61 cc 81 2e 2e 2e [[3]] [1] e3 81 93 2e 2e 2e 20 e3 82 93 2e 2e 2e 20 61 cc 81 2e 2e 2e 3 string mismatches Tests 2266* skipped. n-tilde cannot be represented in the native encoding on this system. Please report to the data.table issue tracker. Fri Oct 4 04:19:23 2024 endian==little, sizeof(long double)==16, 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 Error in test.data.table() : 20 errors out of 10557. Search tests/tests.Rraw for test numbers 2194.7, 2253.01, 2253.02, 2253.03, 2253.04, 2253.05, 2253.06, 2253.07, 2253.08, 2253.09, 2253.1, 2253.11, 2253.12, 2253.13, 2253.14, 2253.15, 2253.16, 2253.17, 2253.18, 2253.19. Duration: 26.8s elapsed (26.5s cpu). Calls: test.data.table -> stopf -> raise_condition -> signal In addition: Warning messages: 1: In readLines(testDir("issue_563_fread.txt")) : invalid input found on input connection '/builds/Rdatatable/data.table/data.table.Rcheck/data.table/tests/issue_563_fread.txt' 2: In Sys.setlocale("LC_CTYPE", "en_US.UTF-8") : OS reports request to set locale to "en_US.UTF-8" cannot be honored Execution halted * DONE Status: 1 ERROR, 1 WARNING, 3 NOTEs See '/builds/Rdatatable/data.table/data.table.Rcheck/00check.log' for details. section_end:1728015565:step_script section_start:1728015565: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:1728015566:after_script section_start:1728015566:upload_artifacts_on_failure Uploading artifacts for failed job Uploading artifacts... bus/test-lin-rel-vanilla: found 602 matching artifact files and directories WARNING: Upload request redirected  location=https://gitlab.com/api/v4/jobs/7991672458/artifacts?artifact_format=zip&artifact_type=archive&expire_in=2+weeks new-url=https://gitlab.com WARNING: Retrying...  context=artifacts-uploader error=request redirected Uploading artifacts as "archive" to coordinator... 201 Created id=7991672458 responseStatus=201 Created token=glcbt-66 section_end:1728015570:upload_artifacts_on_failure section_start:1728015570:cleanup_file_variables Cleaning up project directory and file based variables section_end:1728015570:cleanup_file_variables ERROR: Job failed: exit code 1