Multiple platform build/check report for BioC 3.23 - BUILD results for vsclust on nebbiolo1

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"	4583
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 results for vsclust on nebbiolo1

To the developers/maintainers of the vsclust package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/vsclust.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: vsclust

Version: 1.13.1

Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data vsclust

StartedAt: 2025-12-15 20:32:33 -0500 (Mon, 15 Dec 2025)

EndedAt: 2025-12-15 20:32:45 -0500 (Mon, 15 Dec 2025)

EllapsedTime: 12.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data vsclust
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* checking for file ‘vsclust/DESCRIPTION’ ... OK
* preparing ‘vsclust’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to build vignettes)
      -----------------------------------
* installing *source* package ‘vsclust’ ...
** this is package ‘vsclust’ version ‘1.13.1’
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/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'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c vsclust_algo.cpp -o vsclust_algo.o
vsclust_algo.cpp: In function ‘double run_fuzzy_cmeans(const Rcpp::NumericMatrix&, Rcpp::NumericMatrix&, Rcpp::NumericVector&, Rcpp::NumericVector&, int, int, double, int, Rcpp::NumericMatrix&, double, Rcpp::IntegerVector&, double, double)’:
vsclust_algo.cpp:396:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
  396 |       if(verbose)
      |       ^~
vsclust_algo.cpp:399:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
  399 |         ermin = new_fitness;
      |         ^~~~~
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.23-bioc/R/lib -L/usr/local/lib -o vsclust.so RcppExports.o vsclust_algo.o -L/home/biocbuild/bbs-3.23-bioc/R/lib -lR
installing to /tmp/RtmptnhrgL/Rinst18a8dc3f9576f1/00LOCK-vsclust/00new/vsclust/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Error: object ‘load_OrgDb’ is not exported by 'namespace:GOSemSim'
Execution halted
ERROR: lazy loading failed for package ‘vsclust’
* removing ‘/tmp/RtmptnhrgL/Rinst18a8dc3f9576f1/vsclust’
      -----------------------------------
ERROR: package installation failed