Aaron Lun
| Snapshot Date: 2025-12-16 13:40 -0500 (Tue, 16 Dec 2025) |
| git_url: https://git.bioconductor.org/packages/BiocNeighbors |
| git_branch: devel |
| git_last_commit: 31ccc46 |
| git_last_commit_date: 2025-12-14 01:13:38 -0500 (Sun, 14 Dec 2025) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2025-12-17 11:34 -0500 (Wed, 17 Dec 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" | 4875 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 4589 |
| 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 196/2332 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| BiocNeighbors 2.5.0 (landing page) Aaron Lun
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
|
To the developers/maintainers of the BiocNeighbors package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BiocNeighbors.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: BiocNeighbors |
| Version: 2.5.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD INSTALL BiocNeighbors |
| StartedAt: 2025-12-16 15:04:56 -0500 (Tue, 16 Dec 2025) |
| EndedAt: 2025-12-16 15:05:39 -0500 (Tue, 16 Dec 2025) |
| EllapsedTime: 42.1 seconds |
| RetCode: 0 |
| Status: OK |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD INSTALL BiocNeighbors
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/bbs-3.23-bioc/R/site-library’
* installing *source* package ‘BiocNeighbors’ ...
** this is package ‘BiocNeighbors’ version ‘2.5.0’
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
using C++17
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c annoy.cpp -o annoy.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c exhaustive.cpp -o exhaustive.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c find_mutual_nns.cpp -o find_mutual_nns.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c generics.cpp -o generics.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c hnsw.cpp -o hnsw.o
In file included from /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/hnswlib/hnswalg.h:4,
from /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/knncolle_hnsw/knncolle_hnsw.hpp:12,
from hnsw.cpp:17:
/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/hnswlib/hnswlib.h:89:13: warning: ‘bool AVX512Capable()’ defined but not used [-Wunused-function]
89 | static bool AVX512Capable() {
| ^~~~~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c kmknn.cpp -o kmknn.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I../inst/include -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include' -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c vptree.cpp -o vptree.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.23-bioc/R/lib -L/usr/local/lib -o BiocNeighbors.so RcppExports.o annoy.o exhaustive.o find_mutual_nns.o generics.o hnsw.o kmknn.o vptree.o -L/home/biocbuild/bbs-3.23-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.23-bioc/R/site-library/00LOCK-BiocNeighbors/00new/BiocNeighbors/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 (BiocNeighbors)