Multiple platform build/check report for BioC 3.21 - BUILD BIN results for epiregulon on palomino7

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.1 LTS)	x86_64	R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences"	4754
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences"	4472
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences"	4426
kjohnson3	macOS 13.7.1 Ventura	arm64	R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences"	4381
kunpeng2	Linux (openEuler 22.03 LTS-SP1)	aarch64	R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences"	4373
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 BIN results for epiregulon on palomino7

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

Version: 1.3.2

Command: rm -rf epiregulon.buildbin-libdir && mkdir epiregulon.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=epiregulon.buildbin-libdir epiregulon_1.3.2.tar.gz

StartedAt: 2024-12-24 07:04:38 -0500 (Tue, 24 Dec 2024)

EndedAt: 2024-12-24 07:05:38 -0500 (Tue, 24 Dec 2024)

EllapsedTime: 60.1 seconds

RetCode: 0

Status: OK

PackageFile: epiregulon_1.3.2.zip

PackageFileSize: 1.144 MiB

Command output

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### Running command:
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###   rm -rf epiregulon.buildbin-libdir && mkdir epiregulon.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=epiregulon.buildbin-libdir epiregulon_1.3.2.tar.gz
###
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* installing *source* package 'epiregulon' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 13.3.0'
using C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/beachmat/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/beachmat/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c aggregate_across_cells.cpp -o aggregate_across_cells.o
aggregate_across_cells.cpp: In function 'SEXPREC* aggregate_across_cells(SEXP, Rcpp::List, int)':
aggregate_across_cells.cpp:19:26: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long long int'} and 'size_t' {aka 'long long unsigned int'} [-Wsign-compare]
   19 |     if (groups[g].size() != NC) {
      |         ~~~~~~~~~~~~~~~~~^~~~~
In file included from aggregate_across_cells.cpp:2:
AggregateAcrossCells.h: In instantiation of 'void scran::AggregateAcrossCells::compute_row(Index_, Index_, const Contents_&, const Factor_*, std::vector<IndexIn_>&, std::vector<Sum_*>&, std::vector<Detected_>&, std::vector<Detected_*>&) [with bool sparse_ = true; Index_ = int; Contents_ = tatami::SparseRange<double, int>; Factor_ = int; Sum_ = double; Detected_ = int]':
AggregateAcrossCells.h:150:30:   required from 'void scran::AggregateAcrossCells::compute(const tatami::Matrix<Value_, Index_>*, const Factor_*, std::vector<Detected_*>&, std::vector<Detected_*>&) [with bool row_ = true; bool sparse_ = true; Data_ = double; Index_ = int; Factor_ = int; Sum_ = double; Detected_ = int]'
AggregateAcrossCells.h:210:28:   required from 'void scran::AggregateAcrossCells::run(const tatami::Matrix<Value_, Index_>*, const Factor*, std::vector<Sum*>, std::vector<Sum_*>) [with Data = double; Index = int; Factor = int; Sum = double; Detected = int]'
aggregate_across_cells.cpp:52:13:   required from here
AggregateAcrossCells.h:109:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
  109 |       for (Index_ l = 0; l < tmp_sums.size(); ++l) {
      |                          ~~^~~~~~~~~~~~~~~~~
AggregateAcrossCells.h:127:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
  127 |       for (Index_ l = 0; l < tmp_detected.size(); ++l) {
      |                          ~~^~~~~~~~~~~~~~~~~~~~~
AggregateAcrossCells.h: In instantiation of 'void scran::AggregateAcrossCells::compute_row(Index_, Index_, const Contents_&, const Factor_*, std::vector<IndexIn_>&, std::vector<Sum_*>&, std::vector<Detected_>&, std::vector<Detected_*>&) [with bool sparse_ = false; Index_ = int; Contents_ = const double*; Factor_ = int; Sum_ = double; Detected_ = int]':
AggregateAcrossCells.h:152:31:   required from 'void scran::AggregateAcrossCells::compute(const tatami::Matrix<Value_, Index_>*, const Factor_*, std::vector<Detected_*>&, std::vector<Detected_*>&) [with bool row_ = true; bool sparse_ = false; Data_ = double; Index_ = int; Factor_ = int; Sum_ = double; Detected_ = int]'
AggregateAcrossCells.h:212:29:   required from 'void scran::AggregateAcrossCells::run(const tatami::Matrix<Value_, Index_>*, const Factor*, std::vector<Sum*>, std::vector<Sum_*>) [with Data = double; Index = int; Factor = int; Sum = double; Detected = int]'
aggregate_across_cells.cpp:52:13:   required from here
AggregateAcrossCells.h:109:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
  109 |       for (Index_ l = 0; l < tmp_sums.size(); ++l) {
      |                          ~~^~~~~~~~~~~~~~~~~
AggregateAcrossCells.h:127:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
  127 |       for (Index_ l = 0; l < tmp_detected.size(); ++l) {
      |                          ~~^~~~~~~~~~~~~~~~~~~~~
gcc  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/beachmat/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c binom.c -o binom.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/beachmat/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c fast_chisq.cpp -o fast_chisq.o
fast_chisq.cpp: In function 'Rcpp::List fast_chisq(Rcpp::IntegerVector, Rcpp::IntegerVector, Rcpp::IntegerVector, Rcpp::IntegerVector, int, Rcpp::NumericVector, Rcpp::IntegerVector, Rcpp::IntegerVector, Rcpp::NumericMatrix, int, Rcpp::NumericVector, Rcpp::IntegerVector, Rcpp::IntegerVector, Rcpp::NumericMatrix, int, Rcpp::IntegerVector)':
fast_chisq.cpp:27:15: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare]
   27 |     if (nrows != tf_by_peak.size()) {
      |         ~~~~~~^~~~~~~~~~~~~~~~~~~~
fast_chisq.cpp:30:15: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare]
   30 |     if (nrows != target_by_peak.size()) {
      |         ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
fast_chisq.cpp:33:15: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare]
   33 |     if (nrows != target_ordered.size()) {
      |         ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/beachmat/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/assorthead/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c fast_wilcox.cpp -o fast_wilcox.o
g++ -std=gnu++17 -shared -s -static-libgcc -o epiregulon.dll tmp.def RcppExports.o aggregate_across_cells.o binom.o fast_chisq.o fast_wilcox.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/meat/epiregulon.buildbin-libdir/00LOCK-epiregulon/00new/epiregulon/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'epiregulon' as epiregulon_1.3.2.zip
* DONE (epiregulon)