| Back to Multiple platform build/check report for BioC 3.24: simplified long |
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This page was generated on 2026-05-06 11:34 -0400 (Wed, 06 May 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 RC (2026-04-17 r89917) -- "Because it was There" | 4878 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4663 |
| 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 1951/2366 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| scrapper 1.7.0 (landing page) Aaron Lun
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | ERROR | ERROR | skipped | |||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
| See other builds for scrapper in R Universe. | ||||||||||||||
|
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. |
| Package: scrapper |
| Version: 1.7.0 |
| Command: /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD INSTALL scrapper |
| StartedAt: 2026-05-05 15:23:56 -0400 (Tue, 05 May 2026) |
| EndedAt: 2026-05-05 15:24:33 -0400 (Tue, 05 May 2026) |
| EllapsedTime: 37.2 seconds |
| RetCode: 1 |
| Status: ERROR |
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### Running command:
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### /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD INSTALL scrapper
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* installing to library ‘/home/biocbuild/bbs-3.24-bioc/R/site-library’
* installing *source* package ‘scrapper’ ...
** this is package ‘scrapper’ version ‘1.7.0’
** using staged installation
** libs
specified C++17
using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0’
using C++17
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.24-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/Rigraphlib/igraph/include/igraph' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.24-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-3.24-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/Rigraphlib/igraph/include/igraph' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.24-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-3.24-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/Rigraphlib/igraph/include/igraph' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.24-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-3.24-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/Rigraphlib/igraph/include/igraph' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.24-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-3.24-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/Rigraphlib/igraph/include/igraph' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.24-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-3.24-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/Rigraphlib/igraph/include/igraph' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/assorthead/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/beachmat/include' -I'/home/biocbuild/bbs-3.24-bioc/R/site-library/BiocNeighbors/include' -I'/home/biocbuild/bbs-3.24-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
center_size_factors.cpp: In function ‘Rcpp::NumericVector center_size_factors(Rcpp::NumericVector, Rcpp::Nullable<Rcpp::Vector<13> >, bool)’:
center_size_factors.cpp:17:9: error: ‘struct scran_norm::CenterSizeFactorsOptions’ has no member named ‘block_mode’
17 | opt.block_mode = (lowest ? scran_norm::CenterBlockMode::LOWEST : scran_norm::CenterBlockMode::PER_BLOCK);
| ^~~~~~~~~~
center_size_factors.cpp:26:48: error: no matching function for call to ‘center_size_factors_blocked(long unsigned int, double*, const int*&, NULL, scran_norm::CenterSizeFactorsOptions&)’
26 | scran_norm::center_size_factors_blocked(sanisizer::cast<std::size_t>(ncells), static_cast<double*>(output.begin()), ptr, NULL, opt);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /home/biocbuild/bbs-3.24-bioc/R/site-library/assorthead/include/scran_norm/scran_norm.hpp:4,
from center_size_factors.cpp:6:
/home/biocbuild/bbs-3.24-bioc/R/site-library/assorthead/include/scran_norm/center_size_factors.hpp:294:26: note: candidate: ‘template<class SizeFactor_, class Block_> std::vector<T> scran_norm::center_size_factors_blocked(std::size_t, SizeFactor_*, const Block_*, const CenterSizeFactorsBlockedOptions&)’
294 | std::vector<SizeFactor_> center_size_factors_blocked(
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~
/home/biocbuild/bbs-3.24-bioc/R/site-library/assorthead/include/scran_norm/center_size_factors.hpp:294:26: note: template argument deduction/substitution failed:
center_size_factors.cpp:26:48: note: candidate expects 4 arguments, 5 provided
26 | scran_norm::center_size_factors_blocked(sanisizer::cast<std::size_t>(ncells), static_cast<double*>(output.begin()), ptr, NULL, opt);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
center_size_factors.cpp:28:40: error: no matching function for call to ‘center_size_factors(long unsigned int, double*, NULL, scran_norm::CenterSizeFactorsOptions&)’
28 | scran_norm::center_size_factors(sanisizer::cast<std::size_t>(output.size()), static_cast<double*>(output.begin()), NULL, opt);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/home/biocbuild/bbs-3.24-bioc/R/site-library/assorthead/include/scran_norm/center_size_factors.hpp:194:13: note: candidate: ‘template<class SizeFactor_> SizeFactor_ scran_norm::center_size_factors(std::size_t, SizeFactor_*, const CenterSizeFactorsOptions&)’
194 | SizeFactor_ center_size_factors(const std::size_t num, SizeFactor_* const size_factors, const CenterSizeFactorsOptions& options) {
| ^~~~~~~~~~~~~~~~~~~
/home/biocbuild/bbs-3.24-bioc/R/site-library/assorthead/include/scran_norm/center_size_factors.hpp:194:13: note: template argument deduction/substitution failed:
center_size_factors.cpp:28:40: note: candidate expects 3 arguments, 4 provided
28 | scran_norm::center_size_factors(sanisizer::cast<std::size_t>(output.size()), static_cast<double*>(output.begin()), NULL, opt);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
make: *** [/home/biocbuild/bbs-3.24-bioc/R/etc/Makeconf:197: center_size_factors.o] Error 1
ERROR: compilation failed for package ‘scrapper’
* removing ‘/home/biocbuild/bbs-3.24-bioc/R/site-library/scrapper’
* restoring previous ‘/home/biocbuild/bbs-3.24-bioc/R/site-library/scrapper’