| Back to Multiple platform build/check report for BioC 3.16: simplified long |
|
This page was generated on 2023-04-12 11:05:38 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
| lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
| 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 | ||||
|
To the developers/maintainers of the MACPET package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MACPET.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1075/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Ioannis Vardaxis
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | ERROR | ERROR | skipped | |||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | ERROR | ERROR | skipped | skipped | |||||||||
| lconway | macOS 12.5.1 Monterey / x86_64 | ERROR | ERROR | skipped | skipped | |||||||||
| Package: MACPET |
| Version: 1.18.0 |
| Command: chmod a+r MACPET -R && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data MACPET |
| StartedAt: 2023-04-10 19:32:11 -0400 (Mon, 10 Apr 2023) |
| EndedAt: 2023-04-10 19:32:27 -0400 (Mon, 10 Apr 2023) |
| EllapsedTime: 15.9 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### chmod a+r MACPET -R && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data MACPET
###
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* checking for file 'MACPET/DESCRIPTION' ... OK
* preparing 'MACPET':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
-----------------------------------
* installing *source* package 'MACPET' ...
** using staged installation
** libs
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/bigmemory/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/bigmemory/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Stage_0_FastqFilteringSubFunctions.cpp -o Stage_0_FastqFilteringSubFunctions.o
Stage_0_FastqFilteringSubFunctions.cpp: In function 'SEXPREC* FilterFastqYield_fun_Rcpp(int&, std::vector<std::__cxx11::basic_string<char> >&, Rcpp::NumericVector&, std::vector<std::__cxx11::basic_string<char> >&, Rcpp::NumericVector&, std::string&, std::string&, int&, int&, int&)':
Stage_0_FastqFilteringSubFunctions.cpp:55:36: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string<char>::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
55 | if(SreadFastq1[i].find(NNs)!=-1||SreadFastq2[i].find(NNs)!=-1){
| ~~~~~~~~~~~~~~~~~~~~~~~~^~~~
Stage_0_FastqFilteringSubFunctions.cpp:55:66: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string<char>::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
55 | if(SreadFastq1[i].find(NNs)!=-1||SreadFastq2[i].find(NNs)!=-1){
| ~~~~~~~~~~~~~~~~~~~~~~~~^~~~
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/bigmemory/include' -I'F:/biocbuild/bbs-3.16-bioc/R/library/BH/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Stage_3_PeakFinderSubFunctions.cpp -o Stage_3_PeakFinderSubFunctions.o
Stage_3_PeakFinderSubFunctions.cpp: In function 'void Mstep2D_Rcpp(Rcpp::NumericVector&, Rcpp::NumericVector&, Rcpp::NumericVector&, Rcpp::NumericVector&, Rcpp::NumericVector&, Rcpp::NumericVector&, Rcpp::NumericVector&, const int&, const int&, const NumericVector&, const NumericVector&, const NumericVector&, const NumericVector&, const NumericVector&, const NumericVector&, const NumericMatrix&, const NumericMatrix&)':
Stage_3_PeakFinderSubFunctions.cpp:1146:76: error: 'DOUBLE_EPS' was not declared in this scope
1146 | double Ak_g=1.0/std::max(1.0-B_my_g[g-1]/C_my_g[g-1],std::sqrt(DOUBLE_EPS));
| ^~~~~~~~~~
Stage_3_PeakFinderSubFunctions.cpp: In function 'void NR_lambdax_g_Rcpp(double&, const double&, const double&, const double&)':
Stage_3_PeakFinderSubFunctions.cpp:1217:45: error: 'DOUBLE_EPS' was not declared in this scope
1217 | if(lambdax>=0.0) lambdax=-std::sqrt(DOUBLE_EPS);
| ^~~~~~~~~~
Stage_3_PeakFinderSubFunctions.cpp:1218:50: error: 'DOUBLE_EPS' was not declared in this scope
1218 | if(lambdax<=-1.0) lambdax=-1.0+std::sqrt(DOUBLE_EPS);
| ^~~~~~~~~~
Stage_3_PeakFinderSubFunctions.cpp: In function 'void NR_lambday_g_Rcpp(double&, const double&, const double&, const double&)':
Stage_3_PeakFinderSubFunctions.cpp:1257:48: error: 'DOUBLE_EPS' was not declared in this scope
1257 | if(lambday>=1.0) lambday=1.0-std::sqrt(DOUBLE_EPS);
| ^~~~~~~~~~
Stage_3_PeakFinderSubFunctions.cpp:1258:44: error: 'DOUBLE_EPS' was not declared in this scope
1258 | if(lambday<=0.0) lambday=std::sqrt(DOUBLE_EPS);
| ^~~~~~~~~~
make: *** [F:/biocbuild/bbs-3.16-bioc/R/etc/x64/Makeconf:260: Stage_3_PeakFinderSubFunctions.o] Error 1
ERROR: compilation failed for package 'MACPET'
* removing 'F:/biocbuild/bbs-3.16-bioc/tmpdir/RtmpSYZrmO/Rinst148c297e1f24/MACPET'
-----------------------------------
ERROR: package installation failed