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This page was generated on 2026-01-09 12:02 -0500 (Fri, 09 Jan 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 4593 |
| 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 1687/2332 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ramr 1.19.0 (landing page) Oleksii Nikolaienko
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | ERROR | ERROR | skipped | skipped | ||||||||
|
To the developers/maintainers of the ramr package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ramr.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: ramr |
| Version: 1.19.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data ramr |
| StartedAt: 2026-01-08 17:22:44 -0500 (Thu, 08 Jan 2026) |
| EndedAt: 2026-01-08 17:22:54 -0500 (Thu, 08 Jan 2026) |
| EllapsedTime: 10.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data ramr
###
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* checking for file ‘ramr/DESCRIPTION’ ... OK
* preparing ‘ramr’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to build vignettes)
-----------------------------------
* installing *source* package ‘ramr’ ...
** this is package ‘ramr’ version ‘1.19.0’
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using C++20
using SDK: ‘MacOSX11.3.1.sdk’
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/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-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rcpp_compute_logp.cpp -o rcpp_compute_logp.o
rcpp_compute_logp.cpp:150:16: warning: unused variable 'nthreads' [-Wunused-variable]
const size_t nthreads = thr->size() - 1; // 'thr' always starts with 0 and ends with 'nrow'
^
1 warning generated.
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rcpp_compute_xiqr.cpp -o rcpp_compute_xiqr.o
rcpp_compute_xiqr.cpp:37:16: warning: unused variable 'nthreads' [-Wunused-variable]
const size_t nthreads = thr->size() - 1; // 'thr' always starts with 0 and ends with 'nrow'
^
1 warning generated.
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rcpp_create_granges.cpp -o rcpp_create_granges.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rcpp_filter_threshold.cpp -o rcpp_filter_threshold.o
rcpp_filter_threshold.cpp:32:16: warning: unused variable 'nthreads' [-Wunused-variable]
const size_t nthreads = thr->size() - 1; // 'thr' always starts with 0 and ends with 'nrow'
^
1 warning generated.
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rcpp_fit_beta.cpp -o rcpp_fit_beta.o
rcpp_fit_beta.cpp:28:16: warning: unused variable 'nthreads' [-Wunused-variable]
const size_t nthreads = thr->size() - 1; // 'thr' always starts with 0 and ends with 'nrow'
^
1 warning generated.
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rcpp_fit_betabinom.cpp -o rcpp_fit_betabinom.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rcpp_fit_binom.cpp -o rcpp_fit_binom.o
rcpp_fit_binom.cpp:33:16: warning: unused variable 'nthreads' [-Wunused-variable]
const size_t nthreads = thr->size() - 1; // 'thr' always starts with 0 and ends with 'nrow'
^
1 warning generated.
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rcpp_generate_random_values.cpp -o rcpp_generate_random_values.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rcpp_get_iqr.cpp -o rcpp_get_iqr.o
rcpp_get_iqr.cpp:35:16: warning: unused variable 'nthreads' [-Wunused-variable]
const size_t nthreads = thr->size() - 1; // 'thr' always starts with 0 and ends with 'nrow'
^
1 warning generated.
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rcpp_get_meanvar.cpp -o rcpp_get_meanvar.o
rcpp_get_meanvar.cpp:62:16: warning: unused variable 'nthreads' [-Wunused-variable]
const size_t nthreads = thr->size() - 1; // 'thr' always starts with 0 and ends with 'nrow'
^
1 warning generated.
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rcpp_helper_functions.cpp -o rcpp_helper_functions.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rcpp_prepare_data.cpp -o rcpp_prepare_data.o
rcpp_prepare_data.cpp:87:16: warning: unused variable 'nthreads' [-Wunused-variable]
const size_t nthreads = thr->size() - 1; // 'thr' always starts with 0 and ends with 'nrow'
^
In file included from rcpp_prepare_data.cpp:4:
In file included from /Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include/Rcpp.h:58:
/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/Rcpp/include/Rcpp/DataFrame.h:64:13: error: use of undeclared identifier 'R_nrow'
return R_nrow( Parent::get__() );
^
rcpp_prepare_data.cpp:37:29: note: in instantiation of member function 'Rcpp::DataFrame_Impl<Rcpp::PreserveStorage>::nrow' requested here
const size_t nrow = mcols.nrow(); // number of rows (genomic loci)
^
rcpp_prepare_data.cpp:171:10: note: in instantiation of function template specialization 'rcpp_prepare_data<0>' requested here
return rcpp_prepare_data<0>(seqnames, seqrunlens, start, strand, mcols, coverage, exclude_lower, exclude_upper, chunks);
^
1 warning and 1 error generated.
make: *** [rcpp_prepare_data.o] Error 1
ERROR: compilation failed for package ‘ramr’
* removing ‘/private/var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T/RtmpOiteH3/Rinst7d2d15692fab/ramr’
-----------------------------------
ERROR: package installation failed