Aaron Lun
| Snapshot Date: 2025-08-14 13:40 -0400 (Thu, 14 Aug 2025) |
| git_url: https://git.bioconductor.org/packages/alabaster.base |
| git_branch: RELEASE_3_21 |
| git_last_commit: 7f04096 |
| git_last_commit_date: 2025-06-04 13:56:00 -0400 (Wed, 04 Jun 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-08-18 11:41 -0400 (Mon, 18 Aug 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4824 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" | 4566 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4604 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4545 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4579 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 41/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| alabaster.base 1.8.1 (landing page) Aaron Lun
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the alabaster.base package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/alabaster.base.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: alabaster.base |
| Version: 1.8.1 |
| Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:alabaster.base.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings alabaster.base_1.8.1.tar.gz |
| StartedAt: 2025-08-14 23:19:57 -0400 (Thu, 14 Aug 2025) |
| EndedAt: 2025-08-14 23:23:12 -0400 (Thu, 14 Aug 2025) |
| EllapsedTime: 195.0 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: alabaster.base.Rcheck |
| Warnings: 0 |
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### Running command:
###
### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:alabaster.base.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings alabaster.base_1.8.1.tar.gz
###
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* using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/alabaster.base.Rcheck'
* using R version 4.5.1 (2025-06-13 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
gcc.exe (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'alabaster.base/DESCRIPTION' ... OK
* this is package 'alabaster.base' version '1.8.1'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'alabaster.base' can be installed ... OK
* used C++ compiler: 'G__~1.EXE (GCC) 14.2.0'
* checking C++ specification ... OK
* checking installed package size ... INFO
installed size is 5.8Mb
sub-directories of 1Mb or more:
libs 5.3Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Versioned 'LinkingTo' value for 'assorthead' is only usable in R >= 3.0.2
* 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 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 ... 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 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 ... INFO
GNU make is a SystemRequirements.
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files for x64 is not available
File 'E:/biocbuild/bbs-3.21-bioc/R/library/alabaster.base/libs/x64/alabaster.base.dll':
Found '_exit', possibly from '_exit' (C)
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf. The detected symbols are linked into
the code but might come from libraries and not actually be called.
See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking files in 'vignettes' ... OK
* checking examples ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
Running 'testthat.R'
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
'E:/biocbuild/bbs-3.21-bioc/meat/alabaster.base.Rcheck/00check.log'
for details.
alabaster.base.Rcheck/00install.out
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###
### Running command:
###
### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL alabaster.base
###
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##############################################################################
* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'alabaster.base' ...
** this is package 'alabaster.base' version '1.8.1'
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 14.2.0'
using C++17
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c check_csv.cpp -o check_csv.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c check_list.cpp -o check_list.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c choose_numeric_missing_placeholder.cpp -o choose_numeric_missing_placeholder.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c is_rfc3339.cpp -o is_rfc3339.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c load_csv.cpp -o load_csv.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c load_list.cpp -o load_list.o
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c validate.cpp -o validate.o
In file included from E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/_validate.hpp:12,
from E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/takane.hpp:4,
from validate.cpp:2:
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/simple_list.hpp: In function 'size_t takane::simple_list::height(const std::filesystem::__cxx11::path&, const takane::ObjectMetadata&, takane::Options&)':
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/simple_list.hpp:145:17: warning: possibly dangling reference to a temporary [-Wdangling-reference]
145 | const auto& metamap = internal_json::extract_typed_object_from_metadata(metadata.other, "simple_list");
| ^~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/simple_list.hpp:145:76: note: the temporary was destroyed at the end of the full expression 'takane::internal_json::extract_typed_object_from_metadata(metadata.takane::ObjectMetadata::other, std::__cxx11::basic_string<char>(((const char*)"simple_list"), std::allocator<char>()))'
145 | const auto& metamap = internal_json::extract_typed_object_from_metadata(metadata.other, "simple_list");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/_validate.hpp:22:
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/summarized_experiment.hpp: In function 'size_t takane::summarized_experiment::height(const std::filesystem::__cxx11::path&, const takane::ObjectMetadata&, takane::Options&)':
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/summarized_experiment.hpp:124:17: warning: possibly dangling reference to a temporary [-Wdangling-reference]
124 | const auto& semap = internal_json::extract_object(metadata.other, "summarized_experiment");
| ^~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/summarized_experiment.hpp:124:54: note: the temporary was destroyed at the end of the full expression 'takane::internal_json::extract_object(metadata.takane::ObjectMetadata::other, std::__cxx11::basic_string<char>(((const char*)"summarized_experiment"), std::allocator<char>()))'
124 | const auto& semap = internal_json::extract_object(metadata.other, "summarized_experiment");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/summarized_experiment.hpp: In function 'std::vector<long long unsigned int> takane::summarized_experiment::dimensions(const std::filesystem::__cxx11::path&, const takane::ObjectMetadata&, takane::Options&)':
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/summarized_experiment.hpp:137:17: warning: possibly dangling reference to a temporary [-Wdangling-reference]
137 | const auto& semap = internal_json::extract_object(metadata.other, "summarized_experiment");
| ^~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/summarized_experiment.hpp:137:54: note: the temporary was destroyed at the end of the full expression 'takane::internal_json::extract_object(metadata.takane::ObjectMetadata::other, std::__cxx11::basic_string<char>(((const char*)"summarized_experiment"), std::allocator<char>()))'
137 | const auto& semap = internal_json::extract_object(metadata.other, "summarized_experiment");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/_validate.hpp:27:
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/sequence_string_set.hpp: In function 'size_t takane::sequence_string_set::height(const std::filesystem::__cxx11::path&, const takane::ObjectMetadata&, takane::Options&)':
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/sequence_string_set.hpp:366:17: warning: possibly dangling reference to a temporary [-Wdangling-reference]
366 | const auto& obj = internal_json::extract_typed_object_from_metadata(metadata.other, "sequence_string_set");
| ^~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/sequence_string_set.hpp:366:72: note: the temporary was destroyed at the end of the full expression 'takane::internal_json::extract_typed_object_from_metadata(metadata.takane::ObjectMetadata::other, std::__cxx11::basic_string<char>(((const char*)"sequence_string_set"), std::allocator<char>()))'
366 | const auto& obj = internal_json::extract_typed_object_from_metadata(metadata.other, "sequence_string_set");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/_validate.hpp:40:
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/vcf_experiment.hpp: In function 'size_t takane::vcf_experiment::height(const std::filesystem::__cxx11::path&, const takane::ObjectMetadata&, takane::Options&)':
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/vcf_experiment.hpp:241:17: warning: possibly dangling reference to a temporary [-Wdangling-reference]
241 | const auto& vcfmap = internal_json::extract_typed_object_from_metadata(metadata.other, "vcf_experiment");
| ^~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/vcf_experiment.hpp:241:75: note: the temporary was destroyed at the end of the full expression 'takane::internal_json::extract_typed_object_from_metadata(metadata.takane::ObjectMetadata::other, std::__cxx11::basic_string<char>(((const char*)"vcf_experiment"), std::allocator<char>()))'
241 | const auto& vcfmap = internal_json::extract_typed_object_from_metadata(metadata.other, "vcf_experiment");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/vcf_experiment.hpp: In function 'std::vector<long long unsigned int> takane::vcf_experiment::dimensions(const std::filesystem::__cxx11::path&, const takane::ObjectMetadata&, takane::Options&)':
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/vcf_experiment.hpp:253:17: warning: possibly dangling reference to a temporary [-Wdangling-reference]
253 | const auto& vcfmap = internal_json::extract_typed_object_from_metadata(metadata.other, "vcf_experiment");
| ^~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/vcf_experiment.hpp:253:75: note: the temporary was destroyed at the end of the full expression 'takane::internal_json::extract_typed_object_from_metadata(metadata.takane::ObjectMetadata::other, std::__cxx11::basic_string<char>(((const char*)"vcf_experiment"), std::allocator<char>()))'
253 | const auto& vcfmap = internal_json::extract_typed_object_from_metadata(metadata.other, "vcf_experiment");
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/chihaya/validate.hpp:13,
from E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/chihaya/chihaya.hpp:10,
from E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/utils_public.hpp:13,
from E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/takane/_validate.hpp:9:
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/chihaya/sparse_matrix.hpp: In function 'void chihaya::sparse_matrix::internal::validate_indices(const H5::DataSet&, const std::vector<long long unsigned int>&, size_t, size_t, bool) [with Index_ = int]':
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/chihaya/sparse_matrix.hpp:51:32: warning: 'previous' may be used uninitialized [-Wmaybe-uninitialized]
51 | if (x > start && i <= previous) {
| ~~^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/chihaya/sparse_matrix.hpp:45:16: note: 'previous' was declared here
45 | Index_ previous;
| ^~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/chihaya/sparse_matrix.hpp: In function 'void chihaya::sparse_matrix::internal::validate_indices(const H5::DataSet&, const std::vector<long long unsigned int>&, size_t, size_t, bool) [with Index_ = long long unsigned int]':
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/chihaya/sparse_matrix.hpp:51:32: warning: 'previous' may be used uninitialized [-Wmaybe-uninitialized]
51 | if (x > start && i <= previous) {
| ~~^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include/chihaya/sparse_matrix.hpp:45:16: note: 'previous' was declared here
45 | Index_ previous;
| ^~~~~~~~
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I../inst/include -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c vls.cpp -o vls.o
g++ -shared -s -static-libgcc -o alabaster.base.dll tmp.def RcppExports.o check_csv.o check_list.o choose_numeric_missing_placeholder.o is_rfc3339.o load_csv.o load_list.o validate.o vls.o -LE:/biocbuild/bbs-3.21-bioc/R/library/Rhdf5lib/lib/x64-ucrt -lhdf5_cpp -lhdf5 -lcurl -lssh2 -lssl -lcrypto -lwldap32 -lws2_32 -lcrypt32 -lsz -laec -lz -lpsapi -lz -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/R/library/00LOCK-alabaster.base/00new/alabaster.base/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (alabaster.base)
alabaster.base.Rcheck/tests/testthat.Rout
R version 4.5.1 (2025-06-13 ucrt) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(testthat)
> library(alabaster.base)
> test_check("alabaster.base")
[ FAIL 0 | WARN 0 | SKIP 4 | PASS 690 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On Windows (4): 'test-cloneDirectory.R:45:5', 'test-cloneDirectory.R:63:5',
'test-cloneDirectory.R:84:5', 'test-cloneDirectory.R:131:5'
[ FAIL 0 | WARN 0 | SKIP 4 | PASS 690 ]
>
> proc.time()
user system elapsed
68.53 5.40 78.75
alabaster.base.Rcheck/alabaster.base-Ex.timings
| name | user | system | elapsed | |
| Rfc3339 | 0.00 | 0.01 | 0.02 | |
| absolutizePath | 0 | 0 | 0 | |
| acquireFile | 0.46 | 0.07 | 0.79 | |
| altReadObject | 0.10 | 0.01 | 0.14 | |
| altSaveObject | 0.04 | 0.03 | 0.10 | |
| anyMissing | 0 | 0 | 0 | |
| chooseMissingPlaceholderForHdf5 | 0 | 0 | 0 | |
| cloneDirectory | 0 | 0 | 0 | |
| createDedupSession | 0.06 | 0.00 | 0.06 | |
| createRedirection | 0.39 | 0.07 | 0.43 | |
| getSaveEnvironment | 0.05 | 0.00 | 0.04 | |
| listObjects | 0.14 | 0.06 | 0.24 | |
| loadDirectory | 0.82 | 0.05 | 0.78 | |
| moveObject | 0.72 | 0.04 | 0.71 | |
| quickLoadObject | 0.55 | 0.02 | 0.54 | |
| quickReadCsv | 0.03 | 0.03 | 0.10 | |
| readAtomicVector | 0.03 | 0.02 | 0.09 | |
| readBaseFactor | 0.02 | 0.01 | 0.06 | |
| readBaseList | 0.32 | 0.02 | 0.34 | |
| readDataFrame | 0.12 | 0.01 | 0.16 | |
| readDataFrameFactor | 0.33 | 0.02 | 0.36 | |
| readObject | 0.12 | 0.01 | 0.17 | |
| readObjectFile | 0.00 | 0.00 | 0.03 | |
| removeObject | 0.82 | 0.03 | 0.69 | |
| saveAtomicVector | 0.06 | 0.02 | 0.11 | |
| saveBaseFactor | 0.01 | 0.02 | 0.05 | |
| saveBaseList | 0.05 | 0.04 | 0.12 | |
| saveDataFrameFactor | 0.16 | 0.03 | 0.20 | |
| saveFormats | 0 | 0 | 0 | |
| saveObject | 0.09 | 0.02 | 0.13 | |
| stageDataFrame | 0.08 | 0.00 | 0.09 | |
| transformVectorForHdf5 | 0 | 0 | 0 | |
| validateDirectory | 0.11 | 0.05 | 0.22 | |
| validateObject | 0.08 | 0.00 | 0.13 | |
| writeMetadata | 0.40 | 0.03 | 0.26 | |