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This page was generated on 2021-09-24 15:05:44 -0400 (Fri, 24 Sep 2021).

INSTALL results for epigraHMM on nebbiolo1

To the developers/maintainers of the epigraHMM package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/epigraHMM.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.

raw results

Package 583/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
epigraHMM 1.0.4  (landing page)
Pedro Baldoni
Snapshot Date: 2021-09-23 04:50:12 -0400 (Thu, 23 Sep 2021)
git_url: https://git.bioconductor.org/packages/epigraHMM
git_branch: RELEASE_3_13
git_last_commit: 7904249
git_last_commit_date: 2021-09-22 07:24:37 -0400 (Wed, 22 Sep 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  YES
tokay2Windows Server 2012 R2 Standard / x64  OK    ERROR  skippedskipped
machv2macOS 10.14.6 Mojave / x86_64  OK    ERROR  skippedskipped

Summary

Package: epigraHMM
Version: 1.0.4
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL epigraHMM
StartedAt: 2021-09-23 06:26:35 -0400 (Thu, 23 Sep 2021)
EndedAt: 2021-09-23 06:29:01 -0400 (Thu, 23 Sep 2021)
EllapsedTime: 145.9 seconds
RetCode: 0
Status:   OK  

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL epigraHMM
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* installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’
* installing *source* package ‘epigraHMM’ ...
** using staged installation
** libs
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c aggregate.cpp -o aggregate.o
aggregate.cpp: In function ‘arma::mat aggregate(arma::vec, arma::vec)’:
aggregate.cpp:26:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   26 |         while( index >= vec.size() ){
      |                ~~~~~~^~~~~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c computeBIC.cpp -o computeBIC.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c computeQFunction.cpp -o computeQFunction.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c computeViterbiSequence.cpp -o computeViterbiSequence.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c consensusRejectionControlled.cpp -o consensusRejectionControlled.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c differentialRejectionControlled.cpp -o differentialRejectionControlled.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c expStep.cpp -o expStep.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c getMarginalProbability.cpp -o getMarginalProbability.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c innerMaxStepProb.cpp -o innerMaxStepProb.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c maxStepProb.cpp -o maxStepProb.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c rbinomVectorized.cpp -o rbinomVectorized.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c reweight.cpp -o reweight.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/include' -I/usr/local/include  -fopenmp -DARMA_USE_HDF5 -fpic  -g -O2  -Wall -c simulateMarkovChain.cpp -o simulateMarkovChain.o
g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.13-bioc/R/lib -L/usr/local/lib -o epigraHMM.so RcppExports.o aggregate.o computeBIC.o computeQFunction.o computeViterbiSequence.o consensusRejectionControlled.o differentialRejectionControlled.o expStep.o getMarginalProbability.o innerMaxStepProb.o maxStepProb.o rbinomVectorized.o reweight.o simulateMarkovChain.o /home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/lib/libhdf5_cpp.a /home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/lib/libhdf5.a /home/biocbuild/bbs-3.13-bioc/R/library/Rhdf5lib/lib/libsz.a -lcrypto -lcurl -lz -fopenmp -L/home/biocbuild/bbs-3.13-bioc/R/lib -lRlapack -L/home/biocbuild/bbs-3.13-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.13-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.13-bioc/R/library/00LOCK-epigraHMM/00new/epigraHMM/libs
** R
** 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 (epigraHMM)