Back to Multiple platform build/check report for BioC 3.19:   simplified   long
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This page was generated on 2024-07-12 17:38 -0400 (Fri, 12 Jul 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4741
palomino7Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4483
merida1macOS 12.7.4 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4512
kjohnson1macOS 13.6.6 Venturaarm644.4.1 (2024-06-14) -- "Race for Your Life" 4461
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 757/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowWorkspace 4.16.0  (landing page)
Greg Finak , Mike Jiang
Snapshot Date: 2024-07-10 14:00 -0400 (Wed, 10 Jul 2024)
git_url: https://git.bioconductor.org/packages/flowWorkspace
git_branch: RELEASE_3_19
git_last_commit: 7465730
git_last_commit_date: 2024-04-30 10:24:28 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  
merida1macOS 12.7.4 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published


INSTALL results for flowWorkspace on nebbiolo1

To the developers/maintainers of the flowWorkspace package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/flowWorkspace.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: flowWorkspace
Version: 4.16.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL flowWorkspace
StartedAt: 2024-07-10 15:11:21 -0400 (Wed, 10 Jul 2024)
EndedAt: 2024-07-10 15:13:30 -0400 (Wed, 10 Jul 2024)
EllapsedTime: 129.6 seconds
RetCode: 0
Status:   OK  

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL flowWorkspace
###
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* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘flowWorkspace’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
using C++17
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cpp11/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cytolib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c R_API.cpp -o R_API.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cpp11/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cytolib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c R_GatingHierarchy.cpp -o R_GatingHierarchy.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cpp11/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cytolib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c R_GatingSet.cpp -o R_GatingSet.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cpp11/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cytolib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c cpp11.cpp -o cpp11.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cpp11/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cytolib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c cytoframeAPI.cpp -o cytoframeAPI.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cpp11/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cytolib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c cytosetAPI.cpp -o cytosetAPI.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cpp11/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cytolib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c getDescendants.cpp -o getDescendants.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cpp11/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cytolib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c getPopStats.cpp -o getPopStats.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cpp11/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cytolib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c getSingleCellExpression.cpp -o getSingleCellExpression.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cpp11/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cytolib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c h5_error_r_handler.cpp -o h5_error_r_handler.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cpp11/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/cytolib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c setCounts.cpp -o setCounts.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.19-bioc/R/lib -L/usr/local/lib -o flowWorkspace.so R_API.o R_GatingHierarchy.o R_GatingSet.o cpp11.o cytoframeAPI.o cytosetAPI.o getDescendants.o getPopStats.o getSingleCellExpression.o h5_error_r_handler.o setCounts.o /home/biocbuild/bbs-3.19-bioc/R/site-library/cytolib/lib/libcytolib.a /home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/lib/libhdf5_cpp.a /home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/lib/libhdf5.a -L/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/lib -lcrypto -lcurl -lsz -laec -lz -ldl -lm -llapack -L/home/biocbuild/bbs-3.19-bioc/R/lib -lRblas -L/home/biocbuild/bbs-3.19-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.19-bioc/R/site-library/00LOCK-flowWorkspace/00new/flowWorkspace/libs
** 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
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (flowWorkspace)