| Back to Multiple platform build/check report for BioC 3.17: simplified long |
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This page was generated on 2023-10-16 11:36:20 -0400 (Mon, 16 Oct 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4626 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4379 |
| merida1 | macOS 12.6.4 Monterey | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4395 |
| 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 1231/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Greg Finak
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
| merida1 | macOS 12.6.4 Monterey / x86_64 | OK | ERROR | skipped | skipped | |||||||||
| kjohnson2 | macOS 12.6.1 Monterey / arm64 | see weekly results here | ||||||||||||
|
To the developers/maintainers of the MIMOSA package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MIMOSA.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: MIMOSA |
| Version: 1.38.0 |
| Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL MIMOSA |
| StartedAt: 2023-10-15 16:37:46 -0400 (Sun, 15 Oct 2023) |
| EndedAt: 2023-10-15 16:38:53 -0400 (Sun, 15 Oct 2023) |
| EllapsedTime: 66.9 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL MIMOSA
###
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* installing to library 'F:/biocbuild/bbs-3.17-bioc/R/library'
* installing *source* package 'MIMOSA' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 12.2.0'
using C++ compiler: 'G__~1.EXE (GCC) 12.2.0'
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include' -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include" -I"F:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c BetaMix.cpp -o BetaMix.o
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include' -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include" -I"F:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c MCMC.cpp -o MCMC.o
MCMC.cpp: In function 'SEXPREC* fitMCMC(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
MCMC.cpp:73:16: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses]
73 | if(file==NULL|fileP==NULL){
| ^
MCMC.cpp:88:25: warning: comparison of integer expressions of different signedness: 'std::vector<double>::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
88 | if(alphas.size()!=stim.ncol()){
| ~~~~~~~~~~~~~^~~~~~~~~~~~~
MCMC.cpp:189:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
189 | for(int i=0;i<alphas.size();i++){
| ~^~~~~~~~~~~~~~
MCMC.cpp:192:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
192 | for(int i=0;i<alphau.size();i++){
| ~^~~~~~~~~~~~~~
MCMC.cpp:524:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
524 | for(int j=0;j<p.size();j++){
| ~^~~~~~~~~
MCMC.cpp:544:42: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
544 | for(int obs=0;obs<alphas.size();obs++){
| ~~~^~~~~~~~~~~~~~
MCMC.cpp:547:42: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
547 | for(int obs=0;obs<alphau.size();obs++){
| ~~~^~~~~~~~~~~~~~
MCMC.cpp: In function 'double lkbeta(const std::vector<double>&)':
MCMC.cpp:631:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
631 | for(int i=0;i<alpha.size();i++){
| ~^~~~~~~~~~~~~
MCMC.cpp: In function 'void simZ(double&, std::vector<double>&, std::vector<double>&, std::vector<double>&, std::vector<double>&, std::vector<bool>&, int, int)':
MCMC.cpp:681:19: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
681 | for(i=0;i < lnull.size(); i++){
| ~~^~~~~~~~~~~~~~
MCMC.cpp: In function 'double normconstIBeta(double, double, double, double)':
MCMC.cpp:815:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
815 | for(int i=0;i<upper.size();i++){
| ~^~~~~~~~~~~~~
MCMC.cpp: In function 'double nc(double, double, double, double, double)':
MCMC.cpp:888:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
888 | for(int i=0;i<(s.size()-1);i++){
| ~^~~~~~~~~~~~~
MCMC.cpp:893:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
893 | for(int i=0;i<s.size();i++){
| ~^~~~~~~~~
gcc -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include' -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c MIMOSA_init.c -o MIMOSA_init.o
gcc -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include' -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c betaintegral.c -o betaintegral.o
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include' -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include" -I"F:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c betaintegralRcpp.cpp -o betaintegralRcpp.o
g++ -std=gnu++17 -shared -s -static-libgcc -o MIMOSA.dll tmp.def BetaMix.o MCMC.o MIMOSA_init.o betaintegral.o betaintegralRcpp.o -lm -lstdc++ -LF:/biocbuild/bbs-3.17-bioc/R/bin/x64 -lRlapack -LF:/biocbuild/bbs-3.17-bioc/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -IF:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include -LC:/rtools43/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools43/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.17-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.17-bioc/R/library/00LOCK-MIMOSA/00new/MIMOSA/libs/x64
** R
** data
*** moving datasets to lazyload DB
** 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
Warning: Package 'MIMOSA' is deprecated and will be removed from Bioconductor
version 3.18
** testing if installed package can be loaded from final location
Warning: Package 'MIMOSA' is deprecated and will be removed from Bioconductor
version 3.18
** testing if installed package keeps a record of temporary installation path
* DONE (MIMOSA)