Build/check report for BioC 3.23 - INSTALL results for scrapper on nebbiolo1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences"	4872
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*
INSTALL results for scrapper on nebbiolo1

To the developers/maintainers of the scrapper package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/scrapper.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: scrapper
Version: 1.5.12
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD INSTALL scrapper
StartedAt: 2026-02-23 15:25:24 -0500 (Mon, 23 Feb 2026)
EndedAt: 2026-02-23 15:29:41 -0500 (Mon, 23 Feb 2026)
EllapsedTime: 256.9 seconds
RetCode: 1
Status: ERROR
Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD INSTALL scrapper
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.23-bioc/R/site-library’
* installing *source* package ‘scrapper’ ...
** this is package ‘scrapper’ version ‘1.5.12’
** using staged installation
** libs
specified C++17
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'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c adt_quality_control.cpp -o adt_quality_control.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c aggregate_across_cells.cpp -o aggregate_across_cells.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c aggregate_across_genes.cpp -o aggregate_across_genes.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c build_snn_graph.cpp -o build_snn_graph.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c center_size_factors.cpp -o center_size_factors.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c choose_highly_variable_genes.cpp -o choose_highly_variable_genes.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c choose_pseudo_count.cpp -o choose_pseudo_count.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c cluster_graph.cpp -o cluster_graph.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c cluster_kmeans.cpp -o cluster_kmeans.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c combine_factors.cpp -o combine_factors.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c compute_block_weights.cpp -o compute_block_weights.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c compute_clrm1_factors.cpp -o compute_clrm1_factors.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c correct_mnn.cpp -o correct_mnn.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c crispr_quality_control.cpp -o crispr_quality_control.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c fit_variance_trend.cpp -o fit_variance_trend.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c model_gene_variances.cpp -o model_gene_variances.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c normalize_counts.cpp -o normalize_counts.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c rna_quality_control.cpp -o rna_quality_control.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c run_pca.cpp -o run_pca.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c run_tsne.cpp -o run_tsne.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c run_umap.cpp -o run_umap.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c sanitize_size_factors.cpp -o sanitize_size_factors.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c scale_by_neighbors.cpp -o scale_by_neighbors.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/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c score_gene_set.cpp -o score_gene_set.o
In file included from /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/Eigen/Core:335,
                 from /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/Eigen/Dense:1,
                 from /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/irlba/utils.hpp:9,
                 from /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/irlba/compute.hpp:10,
                 from /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/irlba/irlba.hpp:4,
                 from /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/gsdecon/compute.hpp:8,
                 from /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/gsdecon/gsdecon.hpp:4,
                 from score_gene_set.cpp:6:
In destructor ‘Eigen::internal::DenseStorage_impl<T, -1, -1, Cols, Options>::~DenseStorage_impl() [with T = double; int Cols = 1; int Options = 0]’,
    inlined from ‘Eigen::DenseStorage<double, -1, -1, 1, 0, true>::~DenseStorage()’ at /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/Eigen/src/Core/DenseStorage.h:541:7,
    inlined from ‘Eigen::PlainObjectBase<Eigen::Matrix<double, -1, 1> >::~PlainObjectBase()’ at /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/Eigen/src/Core/PlainObjectBase.h:95:7,
    inlined from ‘Eigen::Matrix<double, -1, 1>::~Matrix()’ at /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/Eigen/src/Core/Matrix.h:186:7,
    inlined from ‘constexpr void std::_Optional_payload_base<_Tp>::_M_destroy() [with _Tp = Eigen::Matrix<double, -1, 1>]’ at /usr/include/c++/13/optional:287:35,
    inlined from ‘constexpr void std::_Optional_payload_base<_Tp>::_M_reset() [with _Tp = Eigen::Matrix<double, -1, 1>]’ at /usr/include/c++/13/optional:318:14,
    inlined from ‘constexpr void std::_Optional_payload_base<_Tp>::_M_reset() [with _Tp = Eigen::Matrix<double, -1, 1>]’ at /usr/include/c++/13/optional:315:7,
    inlined from ‘std::_Optional_payload<_Tp, false, _Copy, _Move>::~_Optional_payload() [with _Tp = Eigen::Matrix<double, -1, 1>; bool _Copy = false; bool _Move = false]’ at /usr/include/c++/13/optional:441:65,
    inlined from ‘std::_Optional_base<Eigen::Matrix<double, -1, 1>, false, false>::~_Optional_base()’ at /usr/include/c++/13/optional:512:12,
    inlined from ‘std::optional<Eigen::Matrix<double, -1, 1> >::~optional()’ at /usr/include/c++/13/optional:707:11,
    inlined from ‘irlba::Options<Eigen::Matrix<double, -1, 1> >::~Options()’ at /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/irlba/Options.hpp:20:8,
    inlined from ‘gsdecon::Options::~Options()’ at /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/gsdecon/Options.hpp:18:8,
    inlined from ‘Rcpp::List score_gene_set(SEXP, int, Rcpp::Nullable<Rcpp::Vector<13> >, std::string, Rcpp::NumericVector, bool, bool, int, int, double, int)’ at score_gene_set.cpp:64:1:
/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/Eigen/src/Core/DenseStorage.h:368:85: warning: ‘*(Eigen::internal::DenseStorage_impl<double, -1, -1, 1, 0>*)((char*)&opt + offsetof(gsdecon::Options, gsdecon::Options::irlba_options.irlba::Options<Eigen::Matrix<double, -1, 1, 0, -1, 1> >::initial.std::optional<Eigen::Matrix<double, -1, 1, 0, -1, 1> >::<unnamed>.std::_Optional_base<Eigen::Matrix<double, -1, 1, 0, -1, 1>, false, false>::<unnamed>)).Eigen::internal::DenseStorage_impl<double, -1, -1, 1, 0>::m_data’ may be used uninitialized [-Wmaybe-uninitialized]
  368 |   EIGEN_DEVICE_FUNC ~DenseStorage_impl() { conditional_aligned_delete_auto<T, Align>(m_data, size()); }
      |                                            ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~
score_gene_set.cpp: In function ‘Rcpp::List score_gene_set(SEXP, int, Rcpp::Nullable<Rcpp::Vector<13> >, std::string, Rcpp::NumericVector, bool, bool, int, int, double, int)’:
score_gene_set.cpp:31:22: note: ‘opt’ declared here
   31 |     gsdecon::Options opt;
      |                      ^~~
In destructor ‘Eigen::internal::DenseStorage_impl<T, -1, -1, Cols, Options>::~DenseStorage_impl() [with T = double; int Cols = 1; int Options = 0]’,
    inlined from ‘Eigen::DenseStorage<double, -1, -1, 1, 0, true>::~DenseStorage()’ at /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/Eigen/src/Core/DenseStorage.h:541:7,
    inlined from ‘Eigen::PlainObjectBase<Eigen::Matrix<double, -1, 1> >::~PlainObjectBase()’ at /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/Eigen/src/Core/PlainObjectBase.h:95:7,
    inlined from ‘Eigen::Matrix<double, -1, 1>::~Matrix()’ at /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/Eigen/src/Core/Matrix.h:186:7,
    inlined from ‘constexpr void std::_Optional_payload_base<_Tp>::_M_destroy() [with _Tp = Eigen::Matrix<double, -1, 1>]’ at /usr/include/c++/13/optional:287:35,
    inlined from ‘constexpr void std::_Optional_payload_base<_Tp>::_M_reset() [with _Tp = Eigen::Matrix<double, -1, 1>]’ at /usr/include/c++/13/optional:318:14,
    inlined from ‘constexpr void std::_Optional_payload_base<_Tp>::_M_reset() [with _Tp = Eigen::Matrix<double, -1, 1>]’ at /usr/include/c++/13/optional:315:7,
    inlined from ‘std::_Optional_payload<_Tp, false, _Copy, _Move>::~_Optional_payload() [with _Tp = Eigen::Matrix<double, -1, 1>; bool _Copy = false; bool _Move = false]’ at /usr/include/c++/13/optional:441:65,
    inlined from ‘std::_Optional_base<Eigen::Matrix<double, -1, 1>, false, false>::~_Optional_base()’ at /usr/include/c++/13/optional:512:12,
    inlined from ‘std::optional<Eigen::Matrix<double, -1, 1> >::~optional()’ at /usr/include/c++/13/optional:707:11,
    inlined from ‘irlba::Options<Eigen::Matrix<double, -1, 1> >::~Options()’ at /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/irlba/Options.hpp:20:8,
    inlined from ‘gsdecon::Options::~Options()’ at /home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/gsdecon/Options.hpp:18:8,
    inlined from ‘Rcpp::List score_gene_set(SEXP, int, Rcpp::Nullable<Rcpp::Vector<13> >, std::string, Rcpp::NumericVector, bool, bool, int, int, double, int)’ at score_gene_set.cpp:64:1:
/home/biocbuild/bbs-3.23-bioc/R/site-library/assorthead/include/Eigen/src/Core/DenseStorage.h:368:85: warning: ‘*(Eigen::internal::DenseStorage_impl<double, -1, -1, 1, 0>*)((char*)&opt + offsetof(gsdecon::Options, gsdecon::Options::irlba_options.irlba::Options<Eigen::Matrix<double, -1, 1, 0, -1, 1> >::initial.std::optional<Eigen::Matrix<double, -1, 1, 0, -1, 1> >::<unnamed>.std::_Optional_base<Eigen::Matrix<double, -1, 1, 0, -1, 1>, false, false>::<unnamed>)).Eigen::internal::DenseStorage_impl<double, -1, -1, 1, 0>::m_data’ may be used uninitialized [-Wmaybe-uninitialized]
  368 |   EIGEN_DEVICE_FUNC ~DenseStorage_impl() { conditional_aligned_delete_auto<T, Align>(m_data, size()); }
      |                                            ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~
score_gene_set.cpp: In function ‘Rcpp::List score_gene_set(SEXP, int, Rcpp::Nullable<Rcpp::Vector<13> >, std::string, Rcpp::NumericVector, bool, bool, int, int, double, int)’:
score_gene_set.cpp:31:22: note: ‘opt’ declared here
   31 |     gsdecon::Options opt;
      |                      ^~~
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/igraph/include/igraph' -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'/home/biocbuild/bbs-3.23-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rigraphlib/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c score_markers.cpp -o score_markers.o
In file included from score_markers.cpp:12:
utils_markers.h: In function ‘auto setup_quantile_options(const Rcpp::Nullable<Rcpp::Vector<14, Rcpp::PreserveStorage> >&, std::optional<std::vector<double> >&)’:
utils_markers.h:95:27: error: inconsistent deduction for auto return type: ‘int’ and then ‘long int’
   95 |     return squantiles.size();
      |            ~~~~~~~~~~~~~~~^~
make: *** [/home/biocbuild/bbs-3.23-bioc/R/etc/Makeconf:201: score_markers.o] Error 1
ERROR: compilation failed for package ‘scrapper’
* removing ‘/home/biocbuild/bbs-3.23-bioc/R/site-library/scrapper’
* restoring previous ‘/home/biocbuild/bbs-3.23-bioc/R/site-library/scrapper’