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This page was generated on 2021-10-15 15:06:54 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the STAN package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/STAN.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1852/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
STAN 2.20.0 (landing page) Rafael Campos-Martin
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | |||||||||
Package: STAN |
Version: 2.20.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL STAN |
StartedAt: 2021-10-14 10:14:06 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 10:15:20 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 74.0 seconds |
RetCode: 0 |
Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL STAN ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’ * installing *source* package ‘STAN’ ... ** using staged installation ** libs clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c Bernoulli.cpp -o Bernoulli.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c EmissionFactory.cpp -o EmissionFactory.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c EmissionFunction.cpp -o EmissionFunction.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c HMM.cpp -o HMM.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c InitialProbability.cpp -o InitialProbability.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c JointlyIndependent.cpp -o JointlyIndependent.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c MemoryAllocation.cpp -o MemoryAllocation.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c Multinomial.cpp -o Multinomial.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c MultivariateGaussian.cpp -o MultivariateGaussian.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c NegativeBinomial.cpp -o NegativeBinomial.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c ParamContainerEmissions.cpp -o ParamContainerEmissions.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c Poisson.cpp -o Poisson.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c PoissonLogNormal.cpp -o PoissonLogNormal.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c RAccessUtils.cpp -o RAccessUtils.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c RWrapper.cpp -o RWrapper.o RWrapper.cpp:343:17: warning: variable 'HMMEmissionFunctions' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized] else if(strcmp(type,poissonlognormal) == 0) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ RWrapper.cpp:350:16: note: uninitialized use occurs here return HMMEmissionFunctions; ^~~~~~~~~~~~~~~~~~~~ RWrapper.cpp:343:14: note: remove the 'if' if its condition is always true else if(strcmp(type,poissonlognormal) == 0) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ RWrapper.cpp:311:48: note: initialize the variable 'HMMEmissionFunctions' to silence this warning EmissionFunction **HMMEmissionFunctions; ^ = nullptr RWrapper.cpp:1140:21: warning: variable 'sexpemissionParam' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized] else if(strcmp(type, multinomial) == 0) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ RWrapper.cpp:1157:16: note: uninitialized use occurs here return sexpemissionParam; ^~~~~~~~~~~~~~~~~ RWrapper.cpp:1140:18: note: remove the 'if' if its condition is always true else if(strcmp(type, multinomial) == 0) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ RWrapper.cpp:1123:31: note: initialize the variable 'sexpemissionParam' to silence this warning SEXP sexpemissionParam; ^ = nullptr 2 warnings generated. clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c TransitionMatrix.cpp -o TransitionMatrix.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -D_RDLL_ -fPIC -Wall -g -O2 -c matUtils.cpp -o matUtils.o matUtils.cpp:114:10: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] for (register int i = 0 ; i < myN ; i++) ^~~~~~~~~ matUtils.cpp:115:14: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] for (register int j = i ; j < myldz ; j++) ^~~~~~~~~ matUtils.cpp:125:10: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] for (register int i = 0 ; i < myNCol ; i++) ^~~~~~~~~ 3 warnings generated. clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o STAN.so Bernoulli.o EmissionFactory.o EmissionFunction.o HMM.o InitialProbability.o JointlyIndependent.o MemoryAllocation.o Multinomial.o MultivariateGaussian.o NegativeBinomial.o ParamContainerEmissions.o Poisson.o PoissonLogNormal.o RAccessUtils.o RWrapper.o TransitionMatrix.o matUtils.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.1/Resources/library/00LOCK-STAN/00new/STAN/libs ** R ** data ** 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 (STAN)