| Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2025-04-02 19:29 -0400 (Wed, 02 Apr 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4764 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.3 (2025-02-28 ucrt) -- "Trophy Case" | 4495 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4522 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4449 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4426 |
| 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 136/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| BASiCS 2.18.0 (landing page) Catalina Vallejos
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | WARNINGS | OK | |||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
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To the developers/maintainers of the BASiCS package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BASiCS.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: BASiCS |
| Version: 2.18.0 |
| Command: rm -rf BASiCS.buildbin-libdir && mkdir BASiCS.buildbin-libdir && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=BASiCS.buildbin-libdir BASiCS_2.18.0.tar.gz |
| StartedAt: 2025-04-01 07:42:51 -0400 (Tue, 01 Apr 2025) |
| EndedAt: 2025-04-01 07:44:29 -0400 (Tue, 01 Apr 2025) |
| EllapsedTime: 98.5 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: BASiCS_2.18.0.zip |
| PackageFileSize: 3.892 MiB |
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### Running command:
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### rm -rf BASiCS.buildbin-libdir && mkdir BASiCS.buildbin-libdir && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=BASiCS.buildbin-libdir BASiCS_2.18.0.tar.gz
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* installing *source* package 'BASiCS' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
using C++11
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/RcppArmadillo/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c BASiCS.cpp -o BASiCS.o
In file included from F:/biocbuild/bbs-3.20-bioc/R/include/R.h:73,
from libraries.h:6,
from utils.h:4,
from updates.h:4,
from BASiCS.cpp:1:
F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include/Rcpp/exceptions/cpp11/exceptions.h: In function 'void Rcpp::Rf_warning(const char*, Args&& ...) [with Args = {const char*}]':
F:/biocbuild/bbs-3.20-bioc/R/include/R_ext/Error.h:77:17: warning: infinite recursion detected [-Winfinite-recursion]
77 | #define warning Rf_warning
| ^~~~~~~~~~
F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include/Rcpp/exceptions/cpp11/exceptions.h:46:13: note: in expansion of macro 'warning'
46 | inline void warning(const char* fmt, Args&&... args ) {
| ^~~~~~~
In file included from F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include/Rcpp/exceptions.h:180,
from F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include/RcppCommon.h:130,
from F:/biocbuild/bbs-3.20-bioc/R/library/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25,
from F:/biocbuild/bbs-3.20-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:29,
from libraries.h:11:
F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include/Rcpp/exceptions/cpp11/exceptions.h:47:15: note: recursive call
47 | Rf_warning("%s", tfm::format(fmt, std::forward<Args>(args)... ).c_str());
| ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/RcppArmadillo/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
g++ -shared -s -static-libgcc -o BASiCS.dll tmp.def BASiCS.o RcppExports.o -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lRlapack -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -fopenmp -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.20-bioc/meat/BASiCS.buildbin-libdir/00LOCK-BASiCS/00new/BASiCS/libs/x64
** R
** data
** 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
* MD5 sums
packaged installation of 'BASiCS' as BASiCS_2.18.0.zip
* DONE (BASiCS)