Jacob Carey
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/CNPBayes |
| Branch: RELEASE_3_7 |
| Last Commit: 103b6b1 |
| Last Changed Date: 2018-04-30 10:35:39 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:41:20 -0400 (Wed, 17 Oct 2018).
| Package 276/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| CNPBayes 1.10.0 Jacob Carey
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | WARNINGS | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | |
| Package: CNPBayes |
| Version: 1.10.0 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/CNPBayes_1.10.0.tar.gz && rm -rf CNPBayes.buildbin-libdir && mkdir CNPBayes.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CNPBayes.buildbin-libdir CNPBayes_1.10.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL CNPBayes_1.10.0.zip && rm CNPBayes_1.10.0.tar.gz CNPBayes_1.10.0.zip |
| StartedAt: 2018-10-16 19:45:06 -0400 (Tue, 16 Oct 2018) |
| EndedAt: 2018-10-16 19:49:47 -0400 (Tue, 16 Oct 2018) |
| EllapsedTime: 280.4 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/CNPBayes_1.10.0.tar.gz && rm -rf CNPBayes.buildbin-libdir && mkdir CNPBayes.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CNPBayes.buildbin-libdir CNPBayes_1.10.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL CNPBayes_1.10.0.zip && rm CNPBayes_1.10.0.tar.gz CNPBayes_1.10.0.zip
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install for i386
* installing *source* package 'CNPBayes' ...
** libs
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c miscfunctions.cpp -o miscfunctions.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c multibatch.cpp -o multibatch.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c multibatch_pooledvar.cpp -o multibatch_pooledvar.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c multibatch_pooledvar_reduced.cpp -o multibatch_pooledvar_reduced.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c multibatch_reduced.cpp -o multibatch_reduced.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c singlebatch.cpp -o singlebatch.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c singlebatch_pooledvar.cpp -o singlebatch_pooledvar.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c singlebatch_pooledvar_reduced.cpp -o singlebatch_pooledvar_reduced.o
singlebatch_pooledvar_reduced.cpp: In function 'Rcpp::NumericVector full_theta_pooled(Rcpp::S4)':
singlebatch_pooledvar_reduced.cpp:46:10: warning: unused variable 'prod' [-Wunused-variable]
double prod ;
^
singlebatch_pooledvar_reduced.cpp: In function 'Rcpp::S4 reduced_sigma_pooled(Rcpp::S4)':
singlebatch_pooledvar_reduced.cpp:86:7: warning: unused variable 'K' [-Wunused-variable]
int K = thetastar.size() ;
^
singlebatch_pooledvar_reduced.cpp: In function 'Rcpp::S4 reduced_mu_pooled(Rcpp::S4)':
singlebatch_pooledvar_reduced.cpp:330:7: warning: unused variable 'K' [-Wunused-variable]
int K = thetastar.size() ;
^
singlebatch_pooledvar_reduced.cpp: In function 'Rcpp::NumericVector p_nu0_reduced_pooled(Rcpp::S4)':
singlebatch_pooledvar_reduced.cpp:617:7: warning: unused variable 'N' [-Wunused-variable]
int N = x.size() ;
^
singlebatch_pooledvar_reduced.cpp: In function 'Rcpp::S4 reduced_s20_pooled(Rcpp::S4)':
singlebatch_pooledvar_reduced.cpp:682:7: warning: unused variable 'K' [-Wunused-variable]
int K = thetastar.size() ;
^
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c singlebatch_reduced.cpp -o singlebatch_reduced.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c update.cpp -o update.o
Loading required package: Rcpp
Loading required package: Rcpp
Loading required package: Rcpp
Loading required package: Rcpp
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o CNPBayes.dll tmp.def RcppExports.o miscfunctions.o multibatch.o multibatch_pooledvar.o multibatch_pooledvar_reduced.o multibatch_reduced.o singlebatch.o singlebatch_pooledvar.o singlebatch_pooledvar_reduced.o singlebatch_reduced.o update.o -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/i386 -lRlapack -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/CNPBayes.buildbin-libdir/CNPBayes/libs/i386
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for 'alpha' in package 'CNPBayes'
Creating a generic function from function 'sigma' in package 'CNPBayes'
** help
*** installing help indices
converting help for package 'CNPBayes'
finding HTML links ... done
BatchModelExample html
CNPBayes html
CopyNumber-methods html
Deprecated-classes html
Deprecated-functions html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/Rtmpa2yv0s/R.INSTALL1dcc604a4fd7/CNPBayes/man/Deprecated-functions.Rd:302: file link 'ntile' in package 'dplyr' does not exist and so has been treated as a topic
Hyperparameters-class html
Hyperparameters html
HyperparametersBatch-class html
HyperparametersMarginal-class html
HyperparametersMultiBatch-class html
HyperparametersMultiBatch html
HyperparametersSingleBatch-class html
HyperparametersSingleBatch html
MarginalModelExample html
McmcChains-class html
McmcParams-class html
McmcParams html
MixtureModel-class html
MultiBatchModel-class html
MultiBatchModel2 html
MultiBatchModelExample html
MultiBatchPooledExample html
SingleBatchModel-class html
SingleBatchModel2 html
SingleBatchModelExample html
batch-method html
bic-method html
burnin-method html
chains-method html
chromosome html
collapseBatch-method html
combinePlates-method html
consensusCNP html
copyNumber html
eta.0-method html
extract-methods html
ggPredictive html
ggplot-functions html
gibbs html
gibbs_all html
gibbs_pooled html
hyperParams-method html
iter-method html
k-method html
label_switch html
logBayesFactor html
logPrior-method html
log_lik-method html
m2.0-method html
mapCnProbability html
mapComponents html
mapParams html
map_z html
mapping html
marginalLikelihood-method html
marginal_lik html
mcmcParams-method html
mlParams html
modes-method html
mu-method html
muMean html
muc html
nStarts-method html
names-methods html
nu.0-method html
numberObs-method html
oned-method html
p html
pic html
posteriorPredictive html
posteriorSimulation-method html
posterior_cases html
probCopyNumber html
probz-method html
qInverseTau2 html
saveBatch html
sigma html
sigma2-method html
sigma2.0-method html
sigmac html
simulateBatchData html
simulateData html
tau html
tau2-method html
tauMean html
tauc html
theta-method html
thin-method html
tile-functions html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/Rtmpa2yv0s/R.INSTALL1dcc604a4fd7/CNPBayes/man/tile-functions.Rd:56: file link 'ntile' in package 'dplyr' does not exist and so has been treated as a topic
y-method html
z-method html
zfreq-method html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'CNPBayes' ...
** libs
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c miscfunctions.cpp -o miscfunctions.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c multibatch.cpp -o multibatch.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c multibatch_pooledvar.cpp -o multibatch_pooledvar.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c multibatch_pooledvar_reduced.cpp -o multibatch_pooledvar_reduced.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c multibatch_reduced.cpp -o multibatch_reduced.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c singlebatch.cpp -o singlebatch.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c singlebatch_pooledvar.cpp -o singlebatch_pooledvar.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c singlebatch_pooledvar_reduced.cpp -o singlebatch_pooledvar_reduced.o
singlebatch_pooledvar_reduced.cpp: In function 'Rcpp::NumericVector full_theta_pooled(Rcpp::S4)':
singlebatch_pooledvar_reduced.cpp:46:10: warning: unused variable 'prod' [-Wunused-variable]
double prod ;
^
singlebatch_pooledvar_reduced.cpp: In function 'Rcpp::S4 reduced_sigma_pooled(Rcpp::S4)':
singlebatch_pooledvar_reduced.cpp:86:7: warning: unused variable 'K' [-Wunused-variable]
int K = thetastar.size() ;
^
singlebatch_pooledvar_reduced.cpp: In function 'Rcpp::S4 reduced_mu_pooled(Rcpp::S4)':
singlebatch_pooledvar_reduced.cpp:330:7: warning: unused variable 'K' [-Wunused-variable]
int K = thetastar.size() ;
^
singlebatch_pooledvar_reduced.cpp: In function 'Rcpp::NumericVector p_nu0_reduced_pooled(Rcpp::S4)':
singlebatch_pooledvar_reduced.cpp:617:7: warning: unused variable 'N' [-Wunused-variable]
int N = x.size() ;
^
singlebatch_pooledvar_reduced.cpp: In function 'Rcpp::S4 reduced_s20_pooled(Rcpp::S4)':
singlebatch_pooledvar_reduced.cpp:682:7: warning: unused variable 'K' [-Wunused-variable]
int K = thetastar.size() ;
^
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c singlebatch_reduced.cpp -o singlebatch_reduced.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c update.cpp -o update.o
Loading required package: Rcpp
Loading required package: Rcpp
Loading required package: Rcpp
Loading required package: Rcpp
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o CNPBayes.dll tmp.def RcppExports.o miscfunctions.o multibatch.o multibatch_pooledvar.o multibatch_pooledvar_reduced.o multibatch_reduced.o singlebatch.o singlebatch_pooledvar.o singlebatch_pooledvar_reduced.o singlebatch_reduced.o update.o -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/x64 -lRlapack -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/CNPBayes.buildbin-libdir/CNPBayes/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CNPBayes' as CNPBayes_1.10.0.zip
* DONE (CNPBayes)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'CNPBayes' successfully unpacked and MD5 sums checked
In R CMD INSTALL