Xiuwen Zheng
| Snapshot Date: 2025-01-02 13:00 -0500 (Thu, 02 Jan 2025) |
| git_url: https://git.bioconductor.org/packages/SeqArray |
| git_branch: RELEASE_3_20 |
| git_last_commit: ae6fd76 |
| git_last_commit_date: 2024-12-25 17:42:47 -0500 (Wed, 25 Dec 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2025-01-09 12:11 -0500 (Thu, 09 Jan 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4744 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4487 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4515 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4467 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4358 |
| 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 1927/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SeqArray 1.46.1 (landing page) Xiuwen Zheng
| 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 | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
|
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. - 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: SeqArray |
| Version: 1.46.1 |
| Command: /home/biocbuild/R/R/bin/R CMD INSTALL SeqArray |
| StartedAt: 2025-01-08 20:01:38 -0000 (Wed, 08 Jan 2025) |
| EndedAt: 2025-01-08 20:02:31 -0000 (Wed, 08 Jan 2025) |
| EllapsedTime: 53.0 seconds |
| RetCode: 0 |
| Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL SeqArray ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4.2/site-library’ * installing *source* package ‘SeqArray’ ... ** using staged installation ** libs using C compiler: ‘aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0’ using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’ /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c ConvGDS2VCF.cpp -o ConvGDS2VCF.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c ConvToGDS.cpp -o ConvToGDS.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c ConvVCF2GDS.cpp -o ConvVCF2GDS.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c FileMerge.cpp -o FileMerge.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c GetData.cpp -o GetData.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c Index.cpp -o Index.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c LinkSNPRelate.cpp -o LinkSNPRelate.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c Methods.cpp -o Methods.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c R_SeqArray.c -o R_SeqArray.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c ReadBySample.cpp -o ReadBySample.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c ReadByUnit.cpp -o ReadByUnit.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c ReadByVariant.cpp -o ReadByVariant.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c SeqArray.cpp -o SeqArray.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c pkg_test.cpp -o pkg_test.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c samtools_ext.c -o samtools_ext.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c vectorization.cpp -o vectorization.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -shared -L/home/biocbuild/R/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/R/R/lib -lR installing to /home/biocbuild/R/R-4.4.2/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)