2026-08-28T04:21:51.911091Z 00O Running with gitlab-runner 19.3.0 (9cbf0074)
2026-08-28T04:21:51.911109Z 00O   on k8s.saas-linux-medium-amd64.runners-manager.gitlab.com/default j8vTLRhES, system ID: r_5WiidVje7f0Y
2026-08-28T04:21:51.911115Z 00O   feature flags: FF_USE_FASTZIP:true, FF_USE_GIT_PROACTIVE_AUTH:true, FF_HASH_CACHE_KEYS:true
2026-08-28T04:21:51.911143Z 00O Resolving secrets
2026-08-28T04:21:51.911340Z 00O section_start:1787890911:prepare_executor

2026-08-28T04:21:51.911343Z 00O+Preparing the "docker+machine" executor
2026-08-28T04:21:52.073532Z 00O Using Docker executor with image registry.gitlab.com/rdatatable/dockerfiles/r-base ...
2026-08-28T04:21:52.074904Z 00O Using helper image:  registry.gitlab.com/gitlab-org/gitlab-runner/gitlab-runner-helper:x86_64-v19.3.0
2026-08-28T04:21:52.074920Z 00O Using effective pull policy of [always] for container registry.gitlab.com/gitlab-org/gitlab-runner/gitlab-runner-helper:x86_64-v19.3.0
2026-08-28T04:21:52.076189Z 00O Authenticating with credentials from job payload (GitLab Registry)
2026-08-28T04:21:52.076196Z 00O Pulling docker image registry.gitlab.com/gitlab-org/gitlab-runner/gitlab-runner-helper:x86_64-v19.3.0 ...
2026-08-28T04:21:53.583935Z 00O Using docker image sha256:c346e671eac589538f0d90fe3835e994540bf7d2bb7e8d857e616c1f4b0e1620 for registry.gitlab.com/gitlab-org/gitlab-runner/gitlab-runner-helper:x86_64-v19.3.0 with digest registry.gitlab.com/gitlab-org/gitlab-runner/gitlab-runner-helper@sha256:47b7976ad6aa1cf103ead2b453fdc67c13d16a2e3345d79f17f76b53bde50632 ...
2026-08-28T04:21:55.471250Z 00O Using effective pull policy of [always] for container registry.gitlab.com/rdatatable/dockerfiles/r-base
2026-08-28T04:21:55.472598Z 00O Authenticating with credentials from job payload (GitLab Registry)
2026-08-28T04:21:55.472612Z 00O Pulling docker image registry.gitlab.com/rdatatable/dockerfiles/r-base ...
2026-08-28T04:22:07.662876Z 00O Using docker image sha256:02effb957528a82923993d0dfe5945c03a2f9e25844af0e8471caad307239e23 for registry.gitlab.com/rdatatable/dockerfiles/r-base with digest registry.gitlab.com/rdatatable/dockerfiles/r-base@sha256:f5668901f25070b6a9c52510da0995a41a22acf73417481b293f7de9255902c6 ...
2026-08-28T04:22:07.662974Z 00O section_end:1787890927:prepare_executor

2026-08-28T04:22:07.663082Z 00O+section_start:1787890927:prepare_script

2026-08-28T04:22:07.663087Z 00O+Preparing environment
2026-08-28T04:22:07.664586Z 00O Using effective pull policy of [always] for container sha256:c346e671eac589538f0d90fe3835e994540bf7d2bb7e8d857e616c1f4b0e1620
2026-08-28T04:22:16.085193Z 01O Running on runner-j8vtlrhes-project-3622566-concurrent-0 via runner-j8vtlrhes-s-l-m-amd64-1787890817-b60a8124...
2026-08-28T04:22:16.271501Z 00O section_end:1787890936:prepare_script

2026-08-28T04:22:16.272186Z 00O+section_start:1787890936:get_sources

2026-08-28T04:22:16.272192Z 00O+Getting source from Git repository
2026-08-28T04:22:16.670128Z 01O Gitaly correlation ID: f907e72b6a9c4c84b53e8a0fe676f38b
2026-08-28T04:22:16.678479Z 01O Fetching changes...
2026-08-28T04:22:16.681910Z 01O Initialized empty Git repository in /builds/Rdatatable/data.table/.git/
2026-08-28T04:22:16.684991Z 01O Created fresh repository.
2026-08-28T04:22:23.125098Z 01O Checking out e26cf1b6 as detached HEAD (ref is master)...
2026-08-28T04:22:23.342505Z 01O 
2026-08-28T04:22:23.342511Z 01O Skipping Git submodules setup
2026-08-28T04:22:23.342524Z 01O $ git remote set-url origin "${CI_REPOSITORY_URL}" || echo 'Not a git repository; skipping'
2026-08-28T04:22:23.574038Z 00O section_end:1787890943:get_sources

2026-08-28T04:22:23.574903Z 00O+section_start:1787890943:download_artifacts

2026-08-28T04:22:23.574909Z 00O+Downloading artifacts
2026-08-28T04:22:24.014128Z 01O Downloading artifacts for build (16161768334)...
2026-08-28T04:22:24.245304Z 01E Direct download from storage.googleapis.com         correlation_id=ee3e76010acc4142b392eab12ad8e42b id=16161768334 status=302 token=72_4bdSfN
2026-08-28T04:22:24.475319Z 01E Downloading artifacts from coordinator... ok        correlation_id=ee3e76010acc4142b392eab12ad8e42b id=16161768334 status=302 token=72_4bdSfN
2026-08-28T04:22:24.489394Z 01O Downloading artifacts for mirror-packages (16161768333)...
2026-08-28T04:22:24.781212Z 01E Direct download from storage.googleapis.com         correlation_id=a3776e80495744dc87ec229f4cb7bc32 id=16161768333 status=302 token=72_4bdSfN
2026-08-28T04:22:25.565559Z 01E Downloading artifacts from coordinator... ok        correlation_id=a3776e80495744dc87ec229f4cb7bc32 id=16161768333 status=302 token=72_4bdSfN
2026-08-28T04:22:26.615753Z 00O section_end:1787890946:download_artifacts

2026-08-28T04:22:26.616157Z 00O+section_start:1787890946:step_script

2026-08-28T04:22:26.616163Z 00O+Executing "step_script" stage of the job script
2026-08-28T04:22:26.616175Z 00O Using effective pull policy of [always] for container registry.gitlab.com/rdatatable/dockerfiles/r-base
2026-08-28T04:22:26.617793Z 00O Using docker image sha256:02effb957528a82923993d0dfe5945c03a2f9e25844af0e8471caad307239e23 for registry.gitlab.com/rdatatable/dockerfiles/r-base with digest registry.gitlab.com/rdatatable/dockerfiles/r-base@sha256:f5668901f25070b6a9c52510da0995a41a22acf73417481b293f7de9255902c6 ...
2026-08-28T04:22:27.038622Z 01O $ cp $(ls -1t bus/build/data.table_*.tar.gz | head -n 1) .
2026-08-28T04:22:27.050803Z 01O $ mkdir -p ~/.R
2026-08-28T04:22:27.053038Z 01O $ Rscript -e 'source(".ci/ci.R"); install.packages(dcf.dependencies("DESCRIPTION", which="all"), repos=file.path("file:", normalizePath("bus/mirror-packages/cran", mustWork=FALSE)), quiet=TRUE)'
2026-08-28T04:22:27.334017Z 01E also installing the dependencies ‘bit’, ‘R.oo’, ‘R.methodsS3’, ‘commonmark’, ‘evaluate’, ‘highr’
2026-08-28T04:22:27.334024Z 01E 
2026-08-28T04:23:43.853656Z 01O $ echo 'CFLAGS=-g -O2 -fopenmp -Wall -pedantic -fstack-protector-strong -D_FORTIFY_SOURCE=2' > ~/.R/Makevars
2026-08-28T04:23:43.853669Z 01O $ echo 'CXXFLAGS=-g -O2 -fopenmp -Wall -pedantic -fstack-protector-strong -D_FORTIFY_SOURCE=2' >> ~/.R/Makevars
2026-08-28T04:23:43.853712Z 01O $ res1=0; R CMD check --as-cran $(ls -1t data.table_*.tar.gz | head -n 1) || res1=$? # collapsed multi-line command
2026-08-28T04:23:44.061769Z 01O * using log directory ‘/builds/Rdatatable/data.table/data.table.Rcheck’
2026-08-28T04:23:44.061943Z 01O * using R version 4.5.0 (2025-04-11)
2026-08-28T04:23:44.062193Z 01O * using platform: x86_64-pc-linux-gnu
2026-08-28T04:23:44.062692Z 01O * R was compiled by
2026-08-28T04:23:44.062703Z 01O     gcc (Debian 14.2.0-19) 14.2.0
2026-08-28T04:23:44.062705Z 01O     GNU Fortran (Debian 14.2.0-19) 14.2.0
2026-08-28T04:23:44.062916Z 01O * running under: Debian GNU/Linux 13 (trixie)
2026-08-28T04:23:44.063108Z 01O * using session charset: UTF-8
2026-08-28T04:23:44.939638Z 01O * using option ‘--as-cran’
2026-08-28T04:23:44.939963Z 01O * checking for file ‘data.table/DESCRIPTION’ ... OK
2026-08-28T04:23:44.942621Z 01O * this is package ‘data.table’ version ‘1.18.99’
2026-08-28T04:23:44.942982Z 01O * package encoding: UTF-8
2026-08-28T04:23:44.942987Z 01O * checking CRAN incoming feasibility ... NOTE
2026-08-28T04:23:45.578627Z 01O Maintainer: ‘Tyson Barrett <t.barrett88@gmail.com>’
2026-08-28T04:23:45.578631Z 01O 
2026-08-28T04:23:45.578631Z 01O Authors@R field should be a call to person(), or combine such calls.
2026-08-28T04:23:45.578841Z 01O * checking package namespace information ... OK
2026-08-28T04:23:45.588050Z 01O * checking package dependencies ... OK
2026-08-28T04:23:46.739978Z 01O * checking if this is a source package ... OK
2026-08-28T04:23:46.743469Z 01O * checking if there is a namespace ... OK
2026-08-28T04:23:46.749161Z 01O * checking for .dll and .exe files ... OK
2026-08-28T04:23:46.749626Z 01O * checking for hidden files and directories ... OK
2026-08-28T04:23:46.752788Z 01O * checking for portable file names ... OK
2026-08-28T04:23:46.757746Z 01O * checking for sufficient/correct file permissions ... OK
2026-08-28T04:23:46.762445Z 01O * checking whether package ‘data.table’ can be installed ... [28s/28s] OK
2026-08-28T04:24:15.072860Z 01O * used C compiler: ‘gcc (Debian 14.2.0-19) 14.2.0’
2026-08-28T04:24:15.073888Z 01O * checking installed package size ... OK
2026-08-28T04:24:15.092206Z 01O * checking package directory ... OK
2026-08-28T04:24:15.092683Z 01O * checking for future file timestamps ... OK
2026-08-28T04:24:15.093311Z 01O * checking ‘build’ directory ... OK
2026-08-28T04:24:15.094389Z 01O * checking DESCRIPTION meta-information ... OK
2026-08-28T04:24:16.085533Z 01O * checking top-level files ... OK
2026-08-28T04:24:17.790127Z 01O * checking for left-over files ... OK
2026-08-28T04:24:17.793804Z 01O * checking index information ... OK
2026-08-28T04:24:17.980499Z 01O * checking package subdirectories ... OK
2026-08-28T04:24:18.407694Z 01O * checking code files for non-ASCII characters ... OK
2026-08-28T04:24:18.465250Z 01O * checking R files for syntax errors ... OK
2026-08-28T04:24:18.556090Z 01O * checking whether the package can be loaded ... OK
2026-08-28T04:24:18.775438Z 01O * checking whether the package can be loaded with stated dependencies ... OK
2026-08-28T04:24:18.953779Z 01O * checking whether the package can be unloaded cleanly ... OK
2026-08-28T04:24:19.132552Z 01O * checking whether the namespace can be loaded with stated dependencies ... OK
2026-08-28T04:24:19.321019Z 01O * checking whether the namespace can be unloaded cleanly ... OK
2026-08-28T04:24:19.554017Z 01O * checking loading without being on the library search path ... OK
2026-08-28T04:24:20.009402Z 01O * checking whether startup messages can be suppressed ... OK
2026-08-28T04:24:20.248365Z 01O * checking use of S3 registration ... OK
2026-08-28T04:24:21.481631Z 01O * checking dependencies in R code ... OK
2026-08-28T04:24:22.619320Z 01O * checking S3 generic/method consistency ... OK
2026-08-28T04:24:23.057737Z 01O * checking replacement functions ... OK
2026-08-28T04:24:23.323776Z 01O * checking foreign function calls ... OK
2026-08-28T04:24:24.251875Z 01O * checking R code for possible problems ... [19s/19s] OK
2026-08-28T04:24:43.205215Z 01O * checking Rd files ... OK
2026-08-28T04:24:43.856742Z 01O * checking Rd metadata ... OK
2026-08-28T04:24:43.907326Z 01O * checking Rd line widths ... NOTE
2026-08-28T04:24:44.259053Z 01O Rd file 'nafill.Rd':
2026-08-28T04:24:44.259054Z 01O   \usage lines wider than 90 characters:
2026-08-28T04:24:44.259055Z 01O      setnafill(x, type=c("const", "locf", "nocb"), fill=NA, nan=NA, cols=seq_along(x), limit=Inf)
2026-08-28T04:24:44.259056Z 01O 
2026-08-28T04:24:44.259390Z 01O These lines will be truncated in the PDF manual.
2026-08-28T04:24:44.259570Z 01O * checking Rd cross-references ... OK
2026-08-28T04:24:45.076830Z 01O * checking for missing documentation entries ... OK
2026-08-28T04:24:45.329305Z 01O * checking for code/documentation mismatches ... OK
2026-08-28T04:24:46.440736Z 01O * checking Rd \usage sections ... OK
2026-08-28T04:24:47.499042Z 01O * checking Rd contents ... OK
2026-08-28T04:24:48.039064Z 01O * checking for unstated dependencies in examples ... OK
2026-08-28T04:24:48.634023Z 01O * checking line endings in shell scripts ... OK
2026-08-28T04:24:48.634681Z 01O * checking line endings in C/C++/Fortran sources/headers ... OK
2026-08-28T04:24:48.658794Z 01O * checking line endings in Makefiles ... OK
2026-08-28T04:24:48.659288Z 01O * checking compilation flags in Makevars ... OK
2026-08-28T04:24:48.724886Z 01O * checking for GNU extensions in Makefiles ... OK
2026-08-28T04:24:48.725756Z 01O * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
2026-08-28T04:24:48.727207Z 01O * checking use of PKG_*FLAGS in Makefiles ... OK
2026-08-28T04:24:48.731794Z 01O * checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
2026-08-28T04:24:48.739276Z 01O * checking pragmas in C/C++ headers and code ... OK
2026-08-28T04:24:48.763422Z 01O * checking compilation flags used ... OK
2026-08-28T04:24:48.765029Z 01O * checking compiled code ... NOTE
2026-08-28T04:24:48.858758Z 01O File ‘data.table/libs/data.table.so’:
2026-08-28T04:24:48.858796Z 01O   Found non-API calls to R: ‘IS_GROWABLE’, ‘LEVELS’, ‘R_GetConnection’,
2026-08-28T04:24:48.858797Z 01O     ‘R_ReadConnection’, ‘SETLENGTH’, ‘SET_GROWABLE_BIT’,
2026-08-28T04:24:48.858798Z 01O     ‘SET_TRUELENGTH’, ‘TRUELENGTH’, ‘XTRUELENGTH’
2026-08-28T04:24:48.859472Z 01O 
2026-08-28T04:24:48.859474Z 01O Compiled code should not call non-API entry points in R.
2026-08-28T04:24:48.859475Z 01O 
2026-08-28T04:24:48.859476Z 01O See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
2026-08-28T04:24:48.859477Z 01O and section ‘Moving into C API compliance’ for issues with the use of
2026-08-28T04:24:48.859478Z 01O non-API entry points.
2026-08-28T04:24:48.860847Z 01O * checking installed files from ‘inst/doc’ ... OK
2026-08-28T04:24:49.092424Z 01O * checking files in ‘vignettes’ ... OK
2026-08-28T04:24:49.314362Z 01O * checking examples ... OK
2026-08-28T04:24:58.074250Z 01O * checking examples with --run-donttest ... [10s/10s] OK
2026-08-28T04:25:09.071192Z 01O * checking for unstated dependencies in ‘tests’ ... OK
2026-08-28T04:25:09.142629Z 01O * checking tests ...
2026-08-28T04:25:09.290345Z 01E   Running ‘autoprint.R’
2026-08-28T04:25:09.552284Z 01E   Comparing ‘autoprint.Rout’ to ‘autoprint.Rout.save’ ... OK
2026-08-28T04:25:09.560355Z 01E   Running ‘froll.R’ [499s/477s]
2026-08-28T04:33:06.353348Z 01E   Running ‘litedown.R’
2026-08-28T04:33:06.716917Z 01E   Running ‘main.R’ [56s/51s]
2026-08-28T04:33:58.212014Z 01E   Running ‘mergelist.R’
2026-08-28T04:33:59.943968Z 01E   Running ‘nafill.R’
2026-08-28T04:34:00.547116Z 01E   Running ‘optimize.R’
2026-08-28T04:34:02.343329Z 01E   Running ‘other.R’
2026-08-28T04:34:02.588180Z 01E   Running ‘programming.R’
2026-08-28T04:34:03.308154Z 01E   Running ‘S4.R’
2026-08-28T04:34:03.678509Z 01E   Running ‘self.R’
2026-08-28T04:34:03.949530Z 01E   Running ‘types.R’
2026-08-28T04:34:04.232719Z 01O  [562s/535s] OK
2026-08-28T04:34:04.315309Z 01O * checking for unstated dependencies in vignettes ... OK
2026-08-28T04:34:04.622640Z 01O * checking package vignettes ... OK
2026-08-28T04:34:05.349772Z 01O * checking re-building of vignette outputs ... [32s/33s] OK
2026-08-28T04:34:38.113083Z 01O * checking PDF version of manual ... OK
2026-08-28T04:34:45.275038Z 01O * checking HTML version of manual ... OK
2026-08-28T04:34:49.047550Z 01O * checking for non-standard things in the check directory ... OK
2026-08-28T04:34:49.048073Z 01O * checking for detritus in the temp directory ... OK
2026-08-28T04:34:49.048809Z 01O * DONE
2026-08-28T04:34:49.049216Z 01E 
2026-08-28T04:34:49.049306Z 01O Status: 3 NOTEs
2026-08-28T04:34:49.049516Z 01E See
2026-08-28T04:34:49.049518Z 01E   ‘/builds/Rdatatable/data.table/data.table.Rcheck/00check.log’
2026-08-28T04:34:49.049519Z 01E for details.
2026-08-28T04:34:49.049933Z 01E 
2026-08-28T04:34:49.233916Z 01E Error: Last line of '00check.log' is not 'Status: 1 NOTE' (non-API) but 'Status: 3 NOTEs'
2026-08-28T04:34:49.233923Z 01E Execution halted
2026-08-28T04:34:49.424142Z 00O section_end:1787891689:step_script

2026-08-28T04:34:49.424598Z 00O+section_start:1787891689:after_script

2026-08-28T04:34:49.424603Z 00O+Running after_script
2026-08-28T04:34:49.796247Z 01O Running after script...
2026-08-28T04:34:49.796288Z 01O $ mkdir -p bus/$CI_JOB_NAME
2026-08-28T04:34:49.797753Z 01O $ echo $CI_JOB_ID > bus/$CI_JOB_NAME/id
2026-08-28T04:34:49.797766Z 01O $ echo $CI_JOB_STATUS > bus/$CI_JOB_NAME/status
2026-08-28T04:34:49.797957Z 01O $ echo $CI_JOB_IMAGE > bus/$CI_JOB_NAME/image
2026-08-28T04:34:49.797962Z 01O $ [ -d data.table.Rcheck ] && mv data.table.Rcheck bus/$CI_JOB_NAME/
2026-08-28T04:34:49.977733Z 00O section_end:1787891689:after_script

2026-08-28T04:34:49.978747Z 00O+section_start:1787891689:upload_artifacts_on_failure

2026-08-28T04:34:49.978754Z 00O+Uploading artifacts for failed job
2026-08-28T04:34:50.414778Z 01O Uploading artifacts...
2026-08-28T04:34:50.482102Z 01E bus/test-lin-rel-cran: found 720 matching artifact files and directories 
2026-08-28T04:34:51.796383Z 01E Uploading artifacts as "archive" to coordinator... 201 Created  correlation_id=d2089e61144d4b51af66a7d245d0bafc id=16161768337 status=201 token=72_4bdSfN
2026-08-28T04:34:51.980208Z 00O section_end:1787891691:upload_artifacts_on_failure

2026-08-28T04:34:51.980879Z 00O+section_start:1787891691:cleanup_file_variables

2026-08-28T04:34:51.980887Z 00O+Cleaning up project directory and file based variables
2026-08-28T04:34:52.541062Z 00O section_end:1787891692:cleanup_file_variables

2026-08-28T04:34:52.588212Z 00O ERROR: Job failed: exit code 1