Last updated on 2024-11-09 02:48:49 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.8 | 61.06 | 96.54 | 157.60 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.1.8 | 46.82 | 62.57 | 109.39 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.1.9 | 299.91 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1.9 | 310.87 | OK | |||
| r-devel-windows-x86_64 | 0.1.8 | 79.00 | 136.00 | 215.00 | OK | |
| r-patched-linux-x86_64 | 0.1.8 | 68.39 | 88.35 | 156.74 | ERROR | |
| r-release-linux-x86_64 | 0.1.8 | 69.40 | 87.51 | 156.91 | ERROR | |
| r-release-macos-arm64 | 0.1.9 | 77.00 | OK | |||
| r-release-macos-x86_64 | 0.1.9 | 141.00 | OK | |||
| r-release-windows-x86_64 | 0.1.8 | 75.00 | 133.00 | 208.00 | OK | |
| r-oldrel-macos-arm64 | 0.1.9 | 77.00 | OK | |||
| r-oldrel-macos-x86_64 | 0.1.9 | 158.00 | OK | |||
| r-oldrel-windows-x86_64 | 0.1.8 | 70.00 | 153.00 | 223.00 | OK |
Version: 0.1.8
Check: tests
Result: ERROR
Running ‘testthat.R’ [45s/69s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(filearray)
R CMD check mode. Using 2 threads.
>
> # Sys.setenv("FILEARRAY_SKIP_COLLAPSE" = "TRUE")
>
> cat(utils::capture.output({
+ print(Sys.getenv())
+ }), sep = "\n", file = stderr())
BIBINPUTS .:.:/home/hornik/tmp/R.check/r-devel-clang/Work/build/share/texmf/bibtex/bib::/home/hornik/tmp/R.check/r-devel-clang/Work/build/share/texmf/bibtex/bib:
BSTINPUTS .:.:/home/hornik/tmp/R.check/r-devel-clang/Work/build/share/texmf/bibtex/bst::/home/hornik/tmp/R.check/r-devel-clang/Work/build/share/texmf/bibtex/bst:
DISPLAY :110
EDITOR vi
FILEARRAY_NUM_THREADS 2
GITHUB_PAT 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
HOME /home/hornik
LANG C.UTF-8
LANGUAGE C
LC_COLLATE C
LD_LIBRARY_PATH /home/hornik/tmp/R.check/r-devel-clang/Work/build/lib:/usr/lib/llvm-19/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib:/usr/lib/llvm-19/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib:/usr/lib/llvm-19/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib:/usr/lib/llvm-19/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib:/usr/lib/llvm-19/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib:/usr/lib/llvm-19/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server
LN_S ln -s
LOGNAME hornik
MAILTO Kurt.Hornik@wu.ac.at
MAKE make
MAKEFLAGS
MAKELEVEL 1
MFLAGS -k -j42 --jobserver-auth=4,5
OLDPWD /home/hornik/tmp/R.check/r-devel-clang/Work
OMPI_MCA_btl_base_warn_component_unused
0
OMP_NUM_THREADS 3
OMP_THREAD_LIMIT 3
OPENBLAS_NUM_THREADS 1
PAGER /usr/bin/less
PATH /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/filearray.Rcheck/R_check_bin:/home/hornik/bin:/usr/local/bin:/usr/bin:/bin
PIP_DISABLE_PIP_VERSION_CHECK
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PIP_NO_CACHE_DIR false
PIP_NO_USER 1
PIP_NO_WARN_SCRIPT_LOCATION
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PIP_REQUIRE_VIRTUALENV
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POCL_KERNEL_CACHE 0
PWD /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/filearray.Rcheck/tests
RCPP_PARALLEL_NUM_THREADS
4
RETICULATE_MINICONDA_PATH
/home/hornik/tmp/scratch/check-CRAN-regular-hornik/data/R/reticulate/miniconda
RETICULATE_VIRTUALENV_ROOT
/home/hornik/tmp/scratch/check-CRAN-regular-hornik/.virtualenvs
R_ARCH
R_BATCH
R_BIOC_VERSION 3.20
R_BROWSER false
R_BZIPCMD /usr/bin/bzip2
R_CMD /home/hornik/tmp/R.check/r-devel-clang/Work/build/bin/Rcmd
R_DEFAULT_PACKAGES
R_DOC_DIR /home/hornik/tmp/R.check/r-devel-clang/Work/build/doc
R_ENVIRON
R_ENVIRON_USER
R_GC_MEM_GROW 2
R_GZIPCMD /usr/bin/gzip
R_HOME /home/hornik/tmp/R.check/r-devel-clang/Work/build
R_INCLUDE_DIR /home/hornik/tmp/R.check/r-devel-clang/Work/build/include
R_LIBS /home/hornik/tmp/scratch/RtmpFGvDAD/RLIBS_3eea5a4e9f7e3a
R_LIBS_SITE NULL
R_LIBS_USER NULL
R_MAKEVARS_USER /home/hornik/.R/Makevars-clang
R_OSTYPE unix
R_PAPERSIZE a4
R_PAPERSIZE_USER a4
R_PARALLEL_PORT random
R_PDFVIEWER false
R_PLATFORM x86_64-pc-linux-gnu
R_PRINTCMD lpr
R_PROFILE
R_PROFILE_USER
R_RD4PDF times,inconsolata,hyper
R_SESSION_TMPDIR /home/hornik/tmp/scratch/Rtmpk2t93Q
R_SHARE_DIR /home/hornik/tmp/R.check/r-devel-clang/Work/build/share
R_STRIP_SHARED_LIB strip --strip-unneeded
R_STRIP_STATIC_LIB strip --strip-debug
R_TESTS startup.Rs
R_TEXI2DVICMD /usr/bin/texi2dvi
R_UNZIPCMD /usr/bin/unzip
R_USER_CACHE_DIR /home/hornik/tmp/scratch/check-CRAN-regular-hornik/cache
R_USER_CONFIG_DIR /home/hornik/tmp/scratch/check-CRAN-regular-hornik/config
R_USER_DATA_DIR /home/hornik/tmp/scratch/check-CRAN-regular-hornik/data
R_VERSION 4.5.0
R_ZIPCMD /usr/bin/zip
SED /usr/bin/sed
SHELL /bin/sh
SHLVL 0
TAR /usr/bin/tar
TEXINPUTS .:.:/home/hornik/tmp/R.check/r-devel-clang/Work/build/share/texmf/tex/latex::/home/hornik/tmp/R.check/r-devel-clang/Work/build/share/texmf/tex/latex:
TMPDIR /home/hornik/tmp/scratch
XAUTHORITY /home/hornik/tmp/scratch/xvfb-run.Q4wJPA/Xauthority
_CHECK_CRAN_REGULAR_FLAVOR_
r-devel-clang
_CHECK_CRAN_REGULAR_LIBRARY_DIR_
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages
_CHECK_CRAN_REGULAR_REPOSITORIES_
CRAN=file:///srv/R/Repositories/CRAN;BioCsoft=file:///srv/R/Repositories/Bioconductor/3.20/bioc;BioCann=file:///srv/R/Repositories/Bioconductor/3.20/data/annotation;BioCexp=file:///srv/R/Repositories/Bioconductor/3.20/data/experiment
_R_BIND_S3_DISPATCH_FORCE_IDENTICAL_METHODS_
false
_R_CALLS_INVALID_NUMERIC_VERSION_
true
_R_CHECK_ALWAYS_LOG_VIGNETTE_OUTPUT_
true
_R_CHECK_AUTOCONF_ true
_R_CHECK_BOGUS_RETURN_
true
_R_CHECK_BROWSER_NONINTERACTIVE_
true
_R_CHECK_CODETOOLS_PROFILE_
suppressPartialMatchArgs=false
_R_CHECK_CODE_ASSIGN_TO_GLOBALENV_
true
_R_CHECK_CODE_ATTACH_ true
_R_CHECK_CODE_DATA_INTO_GLOBALENV_
true
_R_CHECK_CODE_USAGE_VIA_NAMESPACES_
true
_R_CHECK_CODE_USAGE_WITH_ONLY_BASE_ATTACHED_
true
_R_CHECK_COMPILATION_FLAGS_
true
_R_CHECK_COMPILATION_FLAGS_KNOWN_
-Wno-error=enum-constexpr-conversion
_R_CHECK_CRAN_INCOMING_CHECK_URLS_IN_PARALLEL_
true
_R_CHECK_DEPENDS_ONLY_DATA_
true
_R_CHECK_DEPRECATED_DEFUNCT_
true
_R_CHECK_DOC_SIZES2_ true
_R_CHECK_DOTCODE_RETVAL_
true
_R_CHECK_DOT_FIRSTLIB_
true
_R_CHECK_EXAMPLE_TIMING_CPU_TO_ELAPSED_THRESHOLD_
2.5
_R_CHECK_EXECUTABLES_EXCLUSIONS_
false
_R_CHECK_FORCE_SUGGESTS_
false
_R_CHECK_FUTURE_FILE_TIMESTAMPS_
true
_R_CHECK_FUTURE_FILE_TIMESTAMPS_LEEWAY_
6h
_R_CHECK_INSTALL_DEPENDS_
true
_R_CHECK_INSTALL_TIMING_CPU_TO_ELAPSED_THRESHOLD_
2.5
_R_CHECK_INTERNALS2_ 1
_R_CHECK_LENGTH_1_CONDITION_
package:_R_CHECK_PACKAGE_NAME_,verbose
_R_CHECK_LICENSE_ TRUE
_R_CHECK_LIMIT_CORES_ true
_R_CHECK_LOG_USE_INFO_
true
_R_CHECK_MATRIX_DATA_ true
_R_CHECK_MBCS_CONVERSION_FAILURE_
true
_R_CHECK_NO_RECOMMENDED_
true
_R_CHECK_NO_STOP_ON_TEST_ERROR_
true
_R_CHECK_OVERWRITE_REGISTERED_S3_METHODS_
true
_R_CHECK_PACKAGES_USED_IGNORE_UNUSED_IMPORTS_
true
_R_CHECK_PACKAGES_USED_IN_TESTS_USE_SUBDIRS_
true
_R_CHECK_PACKAGE_DATASETS_SUPPRESS_NOTES_
true
_R_CHECK_PACKAGE_NAME_
filearray
_R_CHECK_PKG_SIZES_ false
_R_CHECK_PRAGMAS_ true
_R_CHECK_RD_LINE_WIDTHS_
true
_R_CHECK_RD_MATH_RENDERING_
true
_R_CHECK_RD_NOTE_LOST_BRACES_
true
_R_CHECK_RD_VALIDATE_RD2HTML_
true
_R_CHECK_REPLACING_IMPORTS_
true
_R_CHECK_R_DEPENDS_ true
_R_CHECK_R_ON_PATH_ true
_R_CHECK_SCREEN_DEVICE_
stop
_R_CHECK_SERIALIZATION_
true
_R_CHECK_SHLIB_OPENMP_FLAGS_
true
_R_CHECK_SRC_MINUS_W_IMPLICIT_
true
_R_CHECK_STOP_ON_INVALID_NUMERIC_VERSION_INPUTS_
true
_R_CHECK_SUGGESTS_ONLY_
true
_R_CHECK_SUPPRESS_RANDR_MESSAGE_
true
_R_CHECK_SYSTEM_CLOCK_
false
_R_CHECK_TESTS_NLINES_
0
_R_CHECK_TEST_TIMING_ yes
_R_CHECK_TEST_TIMING_CPU_TO_ELAPSED_THRESHOLD_
2.5
_R_CHECK_THINGS_IN_CHECK_DIR_
true
_R_CHECK_THINGS_IN_TEMP_DIR_EXCLUDE_
^(ompi|pmix-gds-shmem|pulse|runtime-)
_R_CHECK_TIMINGS_ 0
_R_CHECK_TOPLEVEL_FILES_
true
_R_CHECK_VALIDATE_UTF8_
true
_R_CHECK_VC_DIRS_ true
_R_CHECK_VIGNETTES_NLINES_
10000
_R_CHECK_VIGNETTES_SKIP_RUN_MAYBE_
true
_R_CHECK_VIGNETTE_TIMING_
yes
_R_CHECK_VIGNETTE_TIMING_CPU_TO_ELAPSED_THRESHOLD_
2.5
_R_CHECK_VIGNETTE_TITLES_
true
_R_CHECK_XREFS_NOTE_MISSING_PACKAGE_ANCHORS_
true
_R_CHECK_XREFS_USE_ALIASES_FROM_CRAN_
true
_R_CXX_USE_NO_REMAP_ false
_R_GC_FAIL_ON_ERROR_ true
_R_NCOL_NULL_IS_ZERO_ true
_R_SHLIB_BUILD_OBJECTS_SYMBOL_TABLES_
true
_R_USE_STRICT_R_HEADERS_
false
__R_CHECK_DOC_FILES_NOTE_IF_ALL_SPECIAL__
TRUE
>
> test_check("filearray")
[ FAIL 1 | WARN 0 | SKIP 3 | PASS 933 ]
══ Skipped tests (3) ═══════════════════════════════════════════════════════════
• On CRAN (3): 'test-collapse.R:85:5', 'test-collapse.R:196:5',
'test-collapse.R:308:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-cpp.R:53:5'): C++: Utils ───────────────────────────────────────
<packageNotFoundError/error/condition>
Error in `loadNamespace(x)`: there is no package called 'bit64'
Backtrace:
▆
1. ├─testthat::expect_equal(loc2idx(locs, dim), as_int64(re1)) at test-cpp.R:53:5
2. │ └─testthat:::expect_waldo_equal("equal", act, exp, info, ..., tolerance = tolerance)
3. │ └─testthat:::waldo_compare(...)
4. │ └─waldo::compare(x, y, ..., x_arg = x_arg, y_arg = y_arg)
5. │ └─waldo:::compare_structure(x, y, paths = c(x_arg, y_arg), opts = opts)
6. │ └─waldo:::compare_vector(x, y, paths = paths, opts = opts)
7. │ └─waldo:::num_equal(x, y, opts$tolerance)
8. └─base::loadNamespace(x)
9. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
10. └─base (local) withOneRestart(expr, restarts[[1L]])
11. └─base (local) doWithOneRestart(return(expr), restart)
[ FAIL 1 | WARN 0 | SKIP 3 | PASS 933 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.1.8
Check: tests
Result: ERROR
Running ‘testthat.R’ [41s/61s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(filearray)
R CMD check mode. Using 2 threads.
>
> # Sys.setenv("FILEARRAY_SKIP_COLLAPSE" = "TRUE")
>
> cat(utils::capture.output({
+ print(Sys.getenv())
+ }), sep = "\n", file = stderr())
BIBINPUTS .:.:/home/hornik/tmp/R.check/r-patched-gcc/Work/build/share/texmf/bibtex/bib::/home/hornik/tmp/R.check/r-patched-gcc/Work/build/share/texmf/bibtex/bib:
BSTINPUTS .:.:/home/hornik/tmp/R.check/r-patched-gcc/Work/build/share/texmf/bibtex/bst::/home/hornik/tmp/R.check/r-patched-gcc/Work/build/share/texmf/bibtex/bst:
DISPLAY :102
EDITOR vi
FILEARRAY_NUM_THREADS 2
GITHUB_PAT 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
HOME /home/hornik
LANG C.UTF-8
LANGUAGE C
LC_COLLATE C
LD_LIBRARY_PATH /home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server
LN_S ln -s
LOGNAME hornik
MAILTO Kurt.Hornik@wu.ac.at
MAKE make
MAKEFLAGS
MAKELEVEL 1
MFLAGS -k -j42 --jobserver-auth=4,5
OLDPWD /home/hornik/tmp/R.check/r-patched-gcc/Work
OMPI_MCA_btl_base_warn_component_unused
0
OMP_NUM_THREADS 3
OMP_THREAD_LIMIT 3
OPENBLAS_NUM_THREADS 1
PAGER /usr/bin/less
PATH /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/filearray.Rcheck/R_check_bin:/home/hornik/bin:/usr/local/bin:/usr/bin:/bin
PIP_DISABLE_PIP_VERSION_CHECK
true
PIP_NO_CACHE_DIR false
PIP_NO_USER 1
PIP_NO_WARN_SCRIPT_LOCATION
false
PIP_REQUIRE_VIRTUALENV
true
POCL_KERNEL_CACHE 0
PWD /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/filearray.Rcheck/tests
RCPP_PARALLEL_NUM_THREADS
4
RETICULATE_MINICONDA_PATH
/home/hornik/tmp/scratch/check-CRAN-regular-hornik/data/R/reticulate/miniconda
RETICULATE_VIRTUALENV_ROOT
/home/hornik/tmp/scratch/check-CRAN-regular-hornik/.virtualenvs
R_ARCH
R_BATCH
R_BIOC_VERSION 3.20
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R_BZIPCMD /usr/bin/bzip2
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R_DOC_DIR /home/hornik/tmp/R.check/r-patched-gcc/Work/build/doc
R_ENVIRON
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R_SESSION_TMPDIR /home/hornik/tmp/scratch/RtmpEiO0J2
R_SHARE_DIR /home/hornik/tmp/R.check/r-patched-gcc/Work/build/share
R_STRIP_SHARED_LIB strip --strip-unneeded
R_STRIP_STATIC_LIB strip --strip-debug
R_TESTS startup.Rs
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R_UNZIPCMD /usr/bin/unzip
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TEXINPUTS .:.:/home/hornik/tmp/R.check/r-patched-gcc/Work/build/share/texmf/tex/latex::/home/hornik/tmp/R.check/r-patched-gcc/Work/build/share/texmf/tex/latex:
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_R_CHECK_SUPPRESS_RANDR_MESSAGE_
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_R_CHECK_SYSTEM_CLOCK_
false
_R_CHECK_TESTS_NLINES_
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_R_CHECK_TEST_TIMING_ yes
_R_CHECK_TEST_TIMING_CPU_TO_ELAPSED_THRESHOLD_
2.5
_R_CHECK_THINGS_IN_CHECK_DIR_
true
_R_CHECK_THINGS_IN_TEMP_DIR_EXCLUDE_
^(ompi|pmix-gds-shmem|pulse|runtime-)
_R_CHECK_TIMINGS_ 0
_R_CHECK_TOPLEVEL_FILES_
true
_R_CHECK_VALIDATE_UTF8_
true
_R_CHECK_VC_DIRS_ true
_R_CHECK_VIGNETTES_NLINES_
10000
_R_CHECK_VIGNETTES_SKIP_RUN_MAYBE_
true
_R_CHECK_VIGNETTE_TIMING_
yes
_R_CHECK_VIGNETTE_TIMING_CPU_TO_ELAPSED_THRESHOLD_
2.5
_R_CHECK_VIGNETTE_TITLES_
true
_R_CHECK_XREFS_NOTE_MISSING_PACKAGE_ANCHORS_
true
_R_CHECK_XREFS_USE_ALIASES_FROM_CRAN_
true
_R_CXX_USE_NO_REMAP_ false
_R_GC_FAIL_ON_ERROR_ true
_R_NCOL_NULL_IS_ZERO_ true
_R_SHLIB_BUILD_OBJECTS_SYMBOL_TABLES_
true
_R_USE_STRICT_R_HEADERS_
false
__R_CHECK_DOC_FILES_NOTE_IF_ALL_SPECIAL__
TRUE
>
> test_check("filearray")
[ FAIL 1 | WARN 0 | SKIP 3 | PASS 933 ]
══ Skipped tests (3) ═══════════════════════════════════════════════════════════
• On CRAN (3): 'test-collapse.R:85:5', 'test-collapse.R:196:5',
'test-collapse.R:308:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-cpp.R:53:5'): C++: Utils ───────────────────────────────────────
<packageNotFoundError/error/condition>
Error in `loadNamespace(x)`: there is no package called 'bit64'
Backtrace:
▆
1. ├─testthat::expect_equal(loc2idx(locs, dim), as_int64(re1)) at test-cpp.R:53:5
2. │ └─testthat:::expect_waldo_equal("equal", act, exp, info, ..., tolerance = tolerance)
3. │ └─testthat:::waldo_compare(...)
4. │ └─waldo::compare(x, y, ..., x_arg = x_arg, y_arg = y_arg)
5. │ └─waldo:::compare_structure(x, y, paths = c(x_arg, y_arg), opts = opts)
6. │ └─waldo:::compare_vector(x, y, paths = paths, opts = opts)
7. │ └─waldo:::num_equal(x, y, opts$tolerance)
8. └─base::loadNamespace(x)
9. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
10. └─base (local) withOneRestart(expr, restarts[[1L]])
11. └─base (local) doWithOneRestart(return(expr), restart)
[ FAIL 1 | WARN 0 | SKIP 3 | PASS 933 ]
Error: Test failures
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.1.8
Check: tests
Result: ERROR
Running ‘testthat.R’ [40s/59s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(filearray)
R CMD check mode. Using 2 threads.
>
> # Sys.setenv("FILEARRAY_SKIP_COLLAPSE" = "TRUE")
>
> cat(utils::capture.output({
+ print(Sys.getenv())
+ }), sep = "\n", file = stderr())
BIBINPUTS .:.:/home/hornik/tmp/R.check/r-release-gcc/Work/build/share/texmf/bibtex/bib::/home/hornik/tmp/R.check/r-release-gcc/Work/build/share/texmf/bibtex/bib:
BSTINPUTS .:.:/home/hornik/tmp/R.check/r-release-gcc/Work/build/share/texmf/bibtex/bst::/home/hornik/tmp/R.check/r-release-gcc/Work/build/share/texmf/bibtex/bst:
DISPLAY :109
EDITOR vi
FILEARRAY_NUM_THREADS 2
GITHUB_PAT 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
HOME /home/hornik
LANG C.UTF-8
LANGUAGE C
LC_COLLATE C
LD_LIBRARY_PATH /home/hornik/tmp/R.check/r-release-gcc/Work/build/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-release-gcc/Work/build/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-release-gcc/Work/build/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-release-gcc/Work/build/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-release-gcc/Work/build/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server:/home/hornik/tmp/R.check/r-release-gcc/Work/build/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/java-21-openjdk-amd64/lib/server
LN_S ln -s
LOGNAME hornik
MAILTO Kurt.Hornik@wu.ac.at
MAKE make
MAKEFLAGS
MAKELEVEL 1
MFLAGS -k -j42 --jobserver-auth=4,5
OLDPWD /home/hornik/tmp/R.check/r-release-gcc/Work
OMPI_MCA_btl_base_warn_component_unused
0
OMP_NUM_THREADS 3
OMP_THREAD_LIMIT 3
OPENBLAS_NUM_THREADS 1
PAGER /usr/bin/less
PATH /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/filearray.Rcheck/R_check_bin:/home/hornik/bin:/usr/local/bin:/usr/bin:/bin
PIP_DISABLE_PIP_VERSION_CHECK
true
PIP_NO_CACHE_DIR false
PIP_NO_USER 1
PIP_NO_WARN_SCRIPT_LOCATION
false
PIP_REQUIRE_VIRTUALENV
true
POCL_KERNEL_CACHE 0
PWD /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/filearray.Rcheck/tests
RCPP_PARALLEL_NUM_THREADS
4
RETICULATE_MINICONDA_PATH
/home/hornik/tmp/scratch/check-CRAN-regular-hornik/data/R/reticulate/miniconda
RETICULATE_VIRTUALENV_ROOT
/home/hornik/tmp/scratch/check-CRAN-regular-hornik/.virtualenvs
R_ARCH
R_BATCH
R_BIOC_VERSION 3.20
R_BROWSER false
R_BZIPCMD /usr/bin/bzip2
R_CMD /home/hornik/tmp/R.check/r-release-gcc/Work/build/bin/Rcmd
R_DEFAULT_PACKAGES
R_DOC_DIR /home/hornik/tmp/R.check/r-release-gcc/Work/build/doc
R_ENVIRON
R_ENVIRON_USER
R_GC_MEM_GROW 2
R_GZIPCMD /usr/bin/gzip
R_HOME /home/hornik/tmp/R.check/r-release-gcc/Work/build
R_INCLUDE_DIR /home/hornik/tmp/R.check/r-release-gcc/Work/build/include
R_LIBS /home/hornik/tmp/scratch/RtmpPWtSs3/RLIBS_2c7ef3495af4e2
R_LIBS_SITE NULL
R_LIBS_USER NULL
R_MAKEVARS_USER /home/hornik/.R/Makevars-gcc
R_OSTYPE unix
R_PAPERSIZE a4
R_PAPERSIZE_USER a4
R_PARALLEL_PORT random
R_PDFVIEWER false
R_PLATFORM x86_64-pc-linux-gnu
R_PRINTCMD lpr
R_PROFILE
R_PROFILE_USER
R_RD4PDF times,inconsolata,hyper
R_SESSION_TMPDIR /home/hornik/tmp/scratch/RtmpXRwWap
R_SHARE_DIR /home/hornik/tmp/R.check/r-release-gcc/Work/build/share
R_STRIP_SHARED_LIB strip --strip-unneeded
R_STRIP_STATIC_LIB strip --strip-debug
R_TESTS startup.Rs
R_TEXI2DVICMD /usr/bin/texi2dvi
R_UNZIPCMD /usr/bin/unzip
R_USER_CACHE_DIR /home/hornik/tmp/scratch/check-CRAN-regular-hornik/cache
R_USER_CONFIG_DIR /home/hornik/tmp/scratch/check-CRAN-regular-hornik/config
R_USER_DATA_DIR /home/hornik/tmp/scratch/check-CRAN-regular-hornik/data
R_VERSION 4.4.2
R_ZIPCMD /usr/bin/zip
SED /usr/bin/sed
SHELL /bin/sh
SHLVL 0
TAR /usr/bin/tar
TEXINPUTS .:.:/home/hornik/tmp/R.check/r-release-gcc/Work/build/share/texmf/tex/latex::/home/hornik/tmp/R.check/r-release-gcc/Work/build/share/texmf/tex/latex:
TMPDIR /home/hornik/tmp/scratch
XAUTHORITY /home/hornik/tmp/scratch/xvfb-run.AnJ9ks/Xauthority
_CHECK_CRAN_REGULAR_FLAVOR_
r-release-gcc
_CHECK_CRAN_REGULAR_LIBRARY_DIR_
/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages
_CHECK_CRAN_REGULAR_REPOSITORIES_
CRAN=file:///srv/R/Repositories/CRAN;BioCsoft=file:///srv/R/Repositories/Bioconductor/3.20/bioc;BioCann=file:///srv/R/Repositories/Bioconductor/3.20/data/annotation;BioCexp=file:///srv/R/Repositories/Bioconductor/3.20/data/experiment
_R_BIND_S3_DISPATCH_FORCE_IDENTICAL_METHODS_
false
_R_CALLS_INVALID_NUMERIC_VERSION_
true
_R_CHECK_ALWAYS_LOG_VIGNETTE_OUTPUT_
true
_R_CHECK_AUTOCONF_ true
_R_CHECK_BOGUS_RETURN_
true
_R_CHECK_BROWSER_NONINTERACTIVE_
true
_R_CHECK_CODETOOLS_PROFILE_
suppressPartialMatchArgs=false
_R_CHECK_CODE_ASSIGN_TO_GLOBALENV_
true
_R_CHECK_CODE_ATTACH_ true
_R_CHECK_CODE_DATA_INTO_GLOBALENV_
true
_R_CHECK_CODE_USAGE_VIA_NAMESPACES_
true
_R_CHECK_CODE_USAGE_WITH_ONLY_BASE_ATTACHED_
true
_R_CHECK_COMPILATION_FLAGS_
true
_R_CHECK_CRAN_INCOMING_CHECK_URLS_IN_PARALLEL_
true
_R_CHECK_DEPENDS_ONLY_DATA_
true
_R_CHECK_DEPRECATED_DEFUNCT_
true
_R_CHECK_DOC_SIZES2_ true
_R_CHECK_DOTCODE_RETVAL_
true
_R_CHECK_DOT_FIRSTLIB_
true
_R_CHECK_EXAMPLE_TIMING_CPU_TO_ELAPSED_THRESHOLD_
2.5
_R_CHECK_EXECUTABLES_EXCLUSIONS_
false
_R_CHECK_FORCE_SUGGESTS_
false
_R_CHECK_FUTURE_FILE_TIMESTAMPS_
true
_R_CHECK_FUTURE_FILE_TIMESTAMPS_LEEWAY_
6h
_R_CHECK_INSTALL_DEPENDS_
true
_R_CHECK_INSTALL_TIMING_CPU_TO_ELAPSED_THRESHOLD_
2.5
_R_CHECK_INTERNALS2_ 1
_R_CHECK_LENGTH_1_CONDITION_
package:_R_CHECK_PACKAGE_NAME_,verbose
_R_CHECK_LICENSE_ TRUE
_R_CHECK_LIMIT_CORES_ true
_R_CHECK_LOG_USE_INFO_
true
_R_CHECK_MATRIX_DATA_ true
_R_CHECK_MBCS_CONVERSION_FAILURE_
true
_R_CHECK_NO_RECOMMENDED_
true
_R_CHECK_NO_STOP_ON_TEST_ERROR_
true
_R_CHECK_OVERWRITE_REGISTERED_S3_METHODS_
true
_R_CHECK_PACKAGES_USED_IGNORE_UNUSED_IMPORTS_
true
_R_CHECK_PACKAGES_USED_IN_TESTS_USE_SUBDIRS_
true
_R_CHECK_PACKAGE_DATASETS_SUPPRESS_NOTES_
true
_R_CHECK_PACKAGE_NAME_
filearray
_R_CHECK_PKG_SIZES_ false
_R_CHECK_PRAGMAS_ true
_R_CHECK_RD_LINE_WIDTHS_
true
_R_CHECK_RD_MATH_RENDERING_
true
_R_CHECK_RD_NOTE_LOST_BRACES_
true
_R_CHECK_RD_VALIDATE_RD2HTML_
true
_R_CHECK_REPLACING_IMPORTS_
true
_R_CHECK_R_DEPENDS_ true
_R_CHECK_R_ON_PATH_ true
_R_CHECK_SCREEN_DEVICE_
stop
_R_CHECK_SERIALIZATION_
true
_R_CHECK_SHLIB_OPENMP_FLAGS_
true
_R_CHECK_SRC_MINUS_W_IMPLICIT_
true
_R_CHECK_STOP_ON_INVALID_NUMERIC_VERSION_INPUTS_
true
_R_CHECK_SUGGESTS_ONLY_
true
_R_CHECK_SUPPRESS_RANDR_MESSAGE_
true
_R_CHECK_SYSTEM_CLOCK_
false
_R_CHECK_TESTS_NLINES_
0
_R_CHECK_TEST_TIMING_ yes
_R_CHECK_TEST_TIMING_CPU_TO_ELAPSED_THRESHOLD_
2.5
_R_CHECK_THINGS_IN_CHECK_DIR_
true
_R_CHECK_THINGS_IN_TEMP_DIR_EXCLUDE_
^(ompi|pmix-gds-shmem|pulse|runtime-)
_R_CHECK_TIMINGS_ 0
_R_CHECK_TOPLEVEL_FILES_
true
_R_CHECK_VALIDATE_UTF8_
true
_R_CHECK_VC_DIRS_ true
_R_CHECK_VIGNETTES_NLINES_
10000
_R_CHECK_VIGNETTES_SKIP_RUN_MAYBE_
true
_R_CHECK_VIGNETTE_TIMING_
yes
_R_CHECK_VIGNETTE_TIMING_CPU_TO_ELAPSED_THRESHOLD_
2.5
_R_CHECK_VIGNETTE_TITLES_
true
_R_CHECK_XREFS_NOTE_MISSING_PACKAGE_ANCHORS_
true
_R_CHECK_XREFS_USE_ALIASES_FROM_CRAN_
true
_R_CXX_USE_NO_REMAP_ false
_R_GC_FAIL_ON_ERROR_ true
_R_NCOL_NULL_IS_ZERO_ true
_R_SHLIB_BUILD_OBJECTS_SYMBOL_TABLES_
true
_R_USE_STRICT_R_HEADERS_
false
__R_CHECK_DOC_FILES_NOTE_IF_ALL_SPECIAL__
TRUE
>
> test_check("filearray")
[ FAIL 1 | WARN 0 | SKIP 3 | PASS 933 ]
══ Skipped tests (3) ═══════════════════════════════════════════════════════════
• On CRAN (3): 'test-collapse.R:85:5', 'test-collapse.R:196:5',
'test-collapse.R:308:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-cpp.R:53:5'): C++: Utils ───────────────────────────────────────
<packageNotFoundError/error/condition>
Error in `loadNamespace(x)`: there is no package called 'bit64'
Backtrace:
▆
1. ├─testthat::expect_equal(loc2idx(locs, dim), as_int64(re1)) at test-cpp.R:53:5
2. │ └─testthat:::expect_waldo_equal("equal", act, exp, info, ..., tolerance = tolerance)
3. │ └─testthat:::waldo_compare(...)
4. │ └─waldo::compare(x, y, ..., x_arg = x_arg, y_arg = y_arg)
5. │ └─waldo:::compare_structure(x, y, paths = c(x_arg, y_arg), opts = opts)
6. │ └─waldo:::compare_vector(x, y, paths = paths, opts = opts)
7. │ └─waldo:::num_equal(x, y, opts$tolerance)
8. └─base::loadNamespace(x)
9. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
10. └─base (local) withOneRestart(expr, restarts[[1L]])
11. └─base (local) doWithOneRestart(return(expr), restart)
[ FAIL 1 | WARN 0 | SKIP 3 | PASS 933 ]
Error: Test failures
Execution halted
Flavor: r-release-linux-x86_64