Tomoyuki Furuta
| Snapshot Date: 2025-03-31 13:00 -0400 (Mon, 31 Mar 2025) |
| git_url: https://git.bioconductor.org/packages/GBScleanR |
| git_branch: RELEASE_3_20 |
| git_last_commit: 39e77d4 |
| git_last_commit_date: 2025-01-28 04:33:43 -0400 (Tue, 28 Jan 2025) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2025-04-02 19:30 -0400 (Wed, 02 Apr 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4764 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.3 (2025-02-28 ucrt) -- "Trophy Case" | 4495 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4522 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4449 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4426 |
| 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 770/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| GBScleanR 2.0.3 (landing page) Tomoyuki Furuta
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the GBScleanR package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GBScleanR.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: GBScleanR |
| Version: 2.0.3 |
| Command: rm -rf GBScleanR.buildbin-libdir && mkdir GBScleanR.buildbin-libdir && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=GBScleanR.buildbin-libdir GBScleanR_2.0.3.tar.gz |
| StartedAt: 2025-04-01 08:13:51 -0400 (Tue, 01 Apr 2025) |
| EndedAt: 2025-04-01 08:16:06 -0400 (Tue, 01 Apr 2025) |
| EllapsedTime: 134.7 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: GBScleanR_2.0.3.zip |
| PackageFileSize: 1.958 MiB |
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### Running command:
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### rm -rf GBScleanR.buildbin-libdir && mkdir GBScleanR.buildbin-libdir && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=GBScleanR.buildbin-libdir GBScleanR_2.0.3.tar.gz
###
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* installing *source* package 'GBScleanR' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
using C++11
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/RcppParallel/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/RcppParallel/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c gbsrCalcProb.cpp -o gbsrCalcProb.o
gbsrCalcProb.cpp: In function 'std::vector<double> calcGenoprob(const double&, const double&, const double&, const double&, const double&, const bool&, const int&)':
gbsrCalcProb.cpp:25:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
25 | for(int g = 0; g < prob.size(); ++g){
| ~~^~~~~~~~~~~~~
gbsrCalcProb.cpp:37:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
37 | for(int g = 0; g < prob.size(); ++g){
| ~~^~~~~~~~~~~~~
gbsrCalcProb.cpp: In function 'void calcMissmap(std::vector<double>&, const double&, const double&, const bool&, const int&)':
gbsrCalcProb.cpp:72:21: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'const int' [-Wsign-compare]
72 | } else if(g == ploidy){
| ~~^~~~~~~~~
gbsrCalcProb.cpp:74:22: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'const int' [-Wsign-compare]
74 | if(h == ploidy){
| ~~^~~~~~~~~
gbsrCalcProb.cpp:87:29: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'const int' [-Wsign-compare]
87 | } else if(h == ploidy){
| ~~^~~~~~~~~
gbsrCalcProb.cpp:127:29: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'const int' [-Wsign-compare]
127 | } else if(g == ploidy){
| ~~^~~~~~~~~
gbsrCalcProb.cpp: In function 'void offsetProb(std::vector<double>&, const bool&, const int&)':
gbsrCalcProb.cpp:170:28: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'const int' [-Wsign-compare]
170 | if(g == 0 && g == ploidy){
| ~~^~~~~~~~~
gbsrCalcProb.cpp:185:32: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'const int' [-Wsign-compare]
185 | if(g == 0 && g == ploidy){
| ~~^~~~~~~~~
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/RcppParallel/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c gbsrFB.cpp -o gbsrFB.o
gbsrFB.cpp: In member function 'virtual void ParFB::operator()(size_t, size_t)':
gbsrFB.cpp:109:17: warning: 'hap_offset_ij' may be used uninitialized [-Wmaybe-uninitialized]
109 | int hap_offset_ij;
| ^~~~~~~~~~~~~
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/RcppParallel/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c gbsrIPO.cpp -o gbsrIPO.o
gbsrIPO.cpp: In member function 'virtual void ParGenoProb::operator()(size_t, size_t)':
gbsrIPO.cpp:57:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
57 | for(int g = 0; g < prob.size(); ++g){
| ~~^~~~~~~~~~~~~
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/RcppParallel/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c gbsrStats.cpp -o gbsrStats.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/RcppParallel/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c gbsrViterbi.cpp -o gbsrViterbi.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/RcppParallel/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c gbsrutil.cpp -o gbsrutil.o
g++ -shared -s -static-libgcc -o GBScleanR.dll tmp.def RcppExports.o gbsrCalcProb.o gbsrFB.o gbsrIPO.o gbsrStats.o gbsrViterbi.o gbsrutil.o -LF:/biocbuild/bbs-3.20-bioc/R/library/RcppParallel/libs/x64 -lRcppParallel -LF:/biocbuild/bbs-3.20-bioc/R/library/RcppParallel/lib/x64 -ltbb -ltbbmalloc -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.20-bioc/meat/GBScleanR.buildbin-libdir/00LOCK-GBScleanR/00new/GBScleanR/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 'GBScleanR' as GBScleanR_2.0.3.zip
* DONE (GBScleanR)