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This page was generated on 2026-01-08 11:34 -0500 (Thu, 08 Jan 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-12-22 r89219) -- "Unsuffered Consequences" 4815
kjohnson3macOS 13.7.7 Venturaarm64R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" 4593
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 42/2332HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
alabaster.base 1.11.1  (landing page)
Aaron Lun
Snapshot Date: 2026-01-07 13:40 -0500 (Wed, 07 Jan 2026)
git_url: https://git.bioconductor.org/packages/alabaster.base
git_branch: devel
git_last_commit: 1d97e98
git_last_commit_date: 2025-11-03 02:55:31 -0500 (Mon, 03 Nov 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR    ERROR  skipped
kjohnson3macOS 13.7.7 Ventura / arm64  ERROR    ERROR  skippedskipped

BUILD results for alabaster.base on nebbiolo1

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.

raw results


Summary

Package: alabaster.base
Version: 1.11.1
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data alabaster.base
StartedAt: 2026-01-07 16:08:05 -0500 (Wed, 07 Jan 2026)
EndedAt: 2026-01-07 16:08:51 -0500 (Wed, 07 Jan 2026)
EllapsedTime: 46.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data alabaster.base
###
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* checking for file ‘alabaster.base/DESCRIPTION’ ... OK
* preparing ‘alabaster.base’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to build vignettes)
      -----------------------------------
* installing *source* package ‘alabaster.base’ ...
** this is package ‘alabaster.base’ version ‘1.11.1’
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
using C++17
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c check_csv.cpp -o check_csv.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c check_list.cpp -o check_list.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c choose_numeric_missing_placeholder.cpp -o choose_numeric_missing_placeholder.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c is_rfc3339.cpp -o is_rfc3339.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c load_csv.cpp -o load_csv.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c load_list.cpp -o load_list.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c validate.cpp -o validate.o
In file included from /home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include/Rcpp/proxy/proxy.h:24,
                 from /home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include/RcppCommon.h:133,
                 from /home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include/Rcpp.h:27,
                 from validate.cpp:1:
/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include/Rcpp/proxy/AttributeProxy.h: In instantiation of ‘bool Rcpp::AttributeProxyPolicy<CLASS>::hasAttribute(const std::string&) const [with CLASS = Rcpp::Vector<19>; std::string = std::__cxx11::basic_string<char>]’:
validate.cpp:47:27:   required from here
/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include/Rcpp/proxy/AttributeProxy.h:91:27: error: ‘R_hasAttrib’ was not declared in this scope; did you mean ‘R_mapAttrib’?
   91 |         return R_hasAttrib(static_cast<const CLASS&>(*this).get__(),
      |                ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   92 |                            Rf_install(attr.c_str()));
      |                            ~~~~~~~~~~~~~~~~~~~~~~~~~
make: *** [/home/biocbuild/bbs-3.23-bioc/R/etc/Makeconf:209: validate.o] Error 1
ERROR: compilation failed for package ‘alabaster.base’
* removing ‘/tmp/Rtmpi7vZy9/Rinst275d9c2c0f7cf8/alabaster.base’
      -----------------------------------
ERROR: package installation failed