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This page was generated on 2022-10-19 13:23:31 -0400 (Wed, 19 Oct 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.5 LTS)x86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4386
palomino3Windows Server 2022 Datacenterx644.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" 4138
merida1macOS 10.14.6 Mojavex86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4205
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

BUILD BIN results for qckitfastq on merida1


To the developers/maintainers of the qckitfastq package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/qckitfastq.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1533/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
qckitfastq 1.12.0  (landing page)
August Guang
Snapshot Date: 2022-10-18 13:55:19 -0400 (Tue, 18 Oct 2022)
git_url: https://git.bioconductor.org/packages/qckitfastq
git_branch: RELEASE_3_15
git_last_commit: 8a67544
git_last_commit_date: 2022-04-26 11:53:43 -0400 (Tue, 26 Apr 2022)
nebbiolo1Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: qckitfastq
Version: 1.12.0
Command: rm -rf qckitfastq.buildbin-libdir && mkdir qckitfastq.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh qckitfastq_1.12.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R qckitfastq.buildbin-libdir
StartedAt: 2022-10-19 10:57:03 -0400 (Wed, 19 Oct 2022)
EndedAt: 2022-10-19 10:57:51 -0400 (Wed, 19 Oct 2022)
EllapsedTime: 47.9 seconds
RetCode: 0
Status:   OK  
PackageFile: qckitfastq_1.12.0.tgz
PackageFileSize: 1.07 MiB

Command output

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###
### Running command:
###
###   rm -rf qckitfastq.buildbin-libdir && mkdir qckitfastq.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh qckitfastq_1.12.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R qckitfastq.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=qckitfastq.buildbin-libdir qckitfastq_1.12.0.tar.gz'
>>>>>>> 

* installing *source* package ‘qckitfastq’ ...
** using staged installation
** libs
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/RSeqAn/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/RSeqAn/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c calc_adapter_content.cpp -o calc_adapter_content.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/RSeqAn/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c gzstream.cpp -o gzstream.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/RSeqAn/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c read_fastq.cpp -o read_fastq.o
read_fastq.cpp:30:32: warning: unused variable 'it' [-Wunused-variable]
    std::vector<int>::iterator it;
                               ^
read_fastq.cpp:158:36: warning: unused variable 'qual_by_col_it' [-Wunused-variable]
    std::vector<uint8_t>::iterator qual_by_col_it;
                                   ^
2 warnings generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o qckitfastq.so RcppExports.o calc_adapter_content.o gzstream.o read_fastq.o -lz -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.15-bioc/meat/qckitfastq.buildbin-libdir/00LOCK-qckitfastq/00new/qckitfastq/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 (qckitfastq)


>>>>>>> 
>>>>>>> FIXING LINKS FOR qckitfastq.buildbin-libdir/qckitfastq/libs/qckitfastq.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libgcc_s.1.dylib" "qckitfastq.buildbin-libdir/qckitfastq/libs/qckitfastq.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libgfortran.5.dylib" "qckitfastq.buildbin-libdir/qckitfastq/libs/qckitfastq.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libquadmath.0.dylib" "qckitfastq.buildbin-libdir/qckitfastq/libs/qckitfastq.so"