| Back to Multiple platform build/check report for BioC 3.17 |
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This page was generated on 2023-04-12 10:55:41 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) | x86_64 | 4.3.0 alpha (2023-04-03 r84154) | 4547 |
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | R Under development (unstable) (2023-02-14 r83833) -- "Unsuffered Consequences" | 4333 |
| 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 | ||||
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To the developers/maintainers of the SeqArray package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SeqArray.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
| Package 1864/2207 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SeqArray 1.39.2 (landing page) Xiuwen Zheng
| nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | ||||||||||
| Package: SeqArray |
| Version: 1.39.2 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL SeqArray |
| StartedAt: 2023-04-12 01:36:04 -0400 (Wed, 12 Apr 2023) |
| EndedAt: 2023-04-12 01:36:59 -0400 (Wed, 12 Apr 2023) |
| EllapsedTime: 55.1 seconds |
| RetCode: 0 |
| Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL SeqArray ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/site-library’ * installing *source* package ‘SeqArray’ ... ** using staged installation ** libs using C compiler: ‘gcc (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0’ using C++ compiler: ‘g++ (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0’ g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c ConvGDS2VCF.cpp -o ConvGDS2VCF.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c ConvToGDS.cpp -o ConvToGDS.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c ConvVCF2GDS.cpp -o ConvVCF2GDS.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c FileMerge.cpp -o FileMerge.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c GetData.cpp -o GetData.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c Index.cpp -o Index.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c LinkSNPRelate.cpp -o LinkSNPRelate.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c Methods.cpp -o Methods.o gcc -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c R_SeqArray.c -o R_SeqArray.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c ReadBySample.cpp -o ReadBySample.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c ReadByUnit.cpp -o ReadByUnit.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c ReadByVariant.cpp -o ReadByVariant.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c SeqArray.cpp -o SeqArray.o g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c pkg_test.cpp -o pkg_test.o gcc -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c samtools_ext.c -o samtools_ext.o gcc -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/gdsfmt/include' -I/usr/local/include -fpic -g -O2 -Wall -c vectorization.c -o vectorization.o g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.17-bioc/R/lib -L/usr/local/lib -o SeqArray.so ConvGDS2VCF.o ConvToGDS.o ConvVCF2GDS.o FileMerge.o GetData.o Index.o LinkSNPRelate.o Methods.o R_SeqArray.o ReadBySample.o ReadByUnit.o ReadByVariant.o SeqArray.o pkg_test.o samtools_ext.o vectorization.o -L/home/biocbuild/bbs-3.17-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.17-bioc/R/site-library/00LOCK-SeqArray/00new/SeqArray/libs ** R ** data *** moving datasets to lazyload DB ** 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 (SeqArray)