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This page was generated on 2024-05-22 11:35:59 -0400 (Wed, 22 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" 4665
palomino4Windows Server 2022 Datacenterx644.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" 4400
merida1macOS 12.7.4 Montereyx86_644.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" 4427
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 644/2233HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
epiregulon 1.1.0  (landing page)
Xiaosai Yao
Snapshot Date: 2024-05-20 14:05:07 -0400 (Mon, 20 May 2024)
git_url: https://git.bioconductor.org/packages/epiregulon
git_branch: devel
git_last_commit: 8da3156
git_last_commit_date: 2024-04-30 11:56:35 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.4 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64see weekly results here

INSTALL results for epiregulon on nebbiolo2


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: 1.1.0
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL epiregulon
StartedAt: 2024-05-20 15:42:18 -0400 (Mon, 20 May 2024)
EndedAt: 2024-05-20 15:43:02 -0400 (Mon, 20 May 2024)
EllapsedTime: 44.1 seconds
RetCode: 0
Status:   OK  

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL epiregulon
###
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* installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’
* installing *source* package ‘epiregulon’ ...
** using staged installation
** libs
using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/beachmat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/beachmat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -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 int’} and ‘size_t’ {aka ‘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<InputIndex_>&, 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 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 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<InputIndex_>&, 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 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 unsigned int’} [-Wsign-compare]
  127 |       for (Index_ l = 0; l < tmp_detected.size(); ++l) {
      |                          ~~^~~~~~~~~~~~~~~~~~~~~
gcc -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/beachmat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c binom.c -o binom.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/beachmat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -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 unsigned int’} and ‘R_xlen_t’ {aka ‘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 unsigned int’} and ‘R_xlen_t’ {aka ‘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 unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare]
   33 |     if (nrows != target_ordered.size()) {
      |         ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/beachmat/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c fast_wilcox.cpp -o fast_wilcox.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.20-bioc/R/lib -L/usr/local/lib -o epiregulon.so RcppExports.o aggregate_across_cells.o binom.o fast_chisq.o fast_wilcox.o -L/home/biocbuild/bbs-3.20-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.20-bioc/R/site-library/00LOCK-epiregulon/00new/epiregulon/libs
** 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
** 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 (epiregulon)