Multiple platform build/check report for BioC 3.23 - INSTALL results for dreamlet on kjohnson3

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	R Under development (unstable) (2026-03-05 r89546) -- "Unsuffered Consequences"	4862
kjohnson3	macOS 13.7.7 Ventura	arm64	R Under development (unstable) (2026-03-01 r89506) -- "Unsuffered Consequences"	4064
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 dreamlet on kjohnson3

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

Version: 1.9.1

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL dreamlet

StartedAt: 2026-03-19 15:25:40 -0400 (Thu, 19 Mar 2026)

EndedAt: 2026-03-19 15:26:01 -0400 (Thu, 19 Mar 2026)

EllapsedTime: 20.5 seconds

RetCode: 0

Status: OK

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL dreamlet
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.6/Resources/library’
Warning: SystemRequirements specified C++11: support has been removed
* installing *source* package ‘dreamlet’ ...
** this is package ‘dreamlet’ version ‘1.9.1’
** using staged installation
** libs
specified C++11
using C++ compiler: ‘Apple clang version 16.0.0 (clang-1600.0.26.6)’
using SDK: ‘MacOSX14.5.sdk’
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c colsum_beachmat.cpp -o colsum_beachmat.o
In file included from colsum_beachmat.cpp:1:
In file included from /Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/beachmat.h:24:
In file included from /Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/read_lin_block.h:11:
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:218:43: warning: 'beachmat::lin_sparse_matrix::get_row' hides overloaded virtual functions [-Woverloaded-virtual]
  218 |     virtual sparse_index<const int*, int> get_row(size_t r, int* work_x, int* work_i, size_t first, size_t last) = 0;
      |                                           ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:66:24: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_row' declared here: different number of parameters (4 vs 5)
   66 |     virtual const int* get_row(size_t r, int* work, size_t first, size_t last) = 0;
      |                        ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:95:27: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_row' declared here: different number of parameters (4 vs 5)
   95 |     virtual const double* get_row(size_t r, double* work, size_t first, size_t last) = 0;
      |                           ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:236:43: warning: 'beachmat::lin_sparse_matrix::get_col' hides overloaded virtual functions [-Woverloaded-virtual]
  236 |     virtual sparse_index<const int*, int> get_col(size_t c, int* work_x, int* work_i, size_t first, size_t last) = 0;
      |                                           ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:52:24: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_col' declared here: different number of parameters (4 vs 5)
   52 |     virtual const int* get_col(size_t c, int* work, size_t first, size_t last) = 0;
      |                        ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:81:27: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_col' declared here: different number of parameters (4 vs 5)
   81 |     virtual const double* get_col(size_t c, double* work, size_t first, size_t last) = 0;
      |                           ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:254:46: warning: 'beachmat::lin_sparse_matrix::get_row' hides overloaded virtual functions [-Woverloaded-virtual]
  254 |     virtual sparse_index<const double*, int> get_row(size_t r, double* work_x, int* work_i, size_t first, size_t last) = 0;
      |                                              ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:66:24: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_row' declared here: different number of parameters (4 vs 5)
   66 |     virtual const int* get_row(size_t r, int* work, size_t first, size_t last) = 0;
      |                        ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:95:27: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_row' declared here: different number of parameters (4 vs 5)
   95 |     virtual const double* get_row(size_t r, double* work, size_t first, size_t last) = 0;
      |                           ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:272:46: warning: 'beachmat::lin_sparse_matrix::get_col' hides overloaded virtual functions [-Woverloaded-virtual]
  272 |     virtual sparse_index<const double*, int> get_col(size_t c, double* work_x, int* work_i, size_t first, size_t last) = 0;
      |                                              ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:52:24: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_col' declared here: different number of parameters (4 vs 5)
   52 |     virtual const int* get_col(size_t c, int* work, size_t first, size_t last) = 0;
      |                        ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:81:27: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_col' declared here: different number of parameters (4 vs 5)
   81 |     virtual const double* get_col(size_t c, double* work, size_t first, size_t last) = 0;
      |                           ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:287:35: warning: 'beachmat::lin_sparse_matrix::get_col' hides overloaded virtual functions [-Woverloaded-virtual]
  287 |     sparse_index<const int*, int> get_col(size_t c, int* work_x, int* work_i) {
      |                                   ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:52:24: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_col' declared here: different number of parameters (4 vs 3)
   52 |     virtual const int* get_col(size_t c, int* work, size_t first, size_t last) = 0;
      |                        ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:81:27: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_col' declared here: different number of parameters (4 vs 3)
   81 |     virtual const double* get_col(size_t c, double* work, size_t first, size_t last) = 0;
      |                           ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:304:35: warning: 'beachmat::lin_sparse_matrix::get_row' hides overloaded virtual functions [-Woverloaded-virtual]
  304 |     sparse_index<const int*, int> get_row(size_t r, int* work_x, int* work_i) {
      |                                   ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:66:24: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_row' declared here: different number of parameters (4 vs 3)
   66 |     virtual const int* get_row(size_t r, int* work, size_t first, size_t last) = 0;
      |                        ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:95:27: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_row' declared here: different number of parameters (4 vs 3)
   95 |     virtual const double* get_row(size_t r, double* work, size_t first, size_t last) = 0;
      |                           ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:321:38: warning: 'beachmat::lin_sparse_matrix::get_col' hides overloaded virtual functions [-Woverloaded-virtual]
  321 |     sparse_index<const double*, int> get_col(size_t c, double* work_x, int* work_i) {
      |                                      ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:52:24: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_col' declared here: different number of parameters (4 vs 3)
   52 |     virtual const int* get_col(size_t c, int* work, size_t first, size_t last) = 0;
      |                        ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:81:27: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_col' declared here: different number of parameters (4 vs 3)
   81 |     virtual const double* get_col(size_t c, double* work, size_t first, size_t last) = 0;
      |                           ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:338:38: warning: 'beachmat::lin_sparse_matrix::get_row' hides overloaded virtual functions [-Woverloaded-virtual]
  338 |     sparse_index<const double*, int> get_row(size_t r, double* work_x, int* work_i) {
      |                                      ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:66:24: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_row' declared here: different number of parameters (4 vs 3)
   66 |     virtual const int* get_row(size_t r, int* work, size_t first, size_t last) = 0;
      |                        ^
/Library/Frameworks/R.framework/Versions/4.6/Resources/library/beachmat/include/beachmat3/lin_matrix.h:95:27: note: hidden overloaded virtual function 'beachmat::lin_matrix::get_row' declared here: different number of parameters (4 vs 3)
   95 |     virtual const double* get_row(size_t r, double* work, size_t first, size_t last) = 0;
      |                           ^
8 warnings generated.
clang++ -arch arm64 -std=gnu++20 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o dreamlet.so RcppExports.o colsum_beachmat.o -F/Library/Frameworks/R.framework/.. -framework R
installing to /Library/Frameworks/R.framework/Versions/4.6/Resources/library/00LOCK-dreamlet/00new/dreamlet/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (dreamlet)