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This page was generated on 2018-10-17 08:44:42 -0400 (Wed, 17 Oct 2018).
Package 881/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
methimpute 1.2.0 Aaron Taudt
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | OK | OK | |||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: methimpute |
Version: 1.2.0 |
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/methimpute_1.2.0.tar.gz && rm -rf methimpute.buildbin-libdir && mkdir methimpute.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=methimpute.buildbin-libdir methimpute_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL methimpute_1.2.0.zip && rm methimpute_1.2.0.tar.gz methimpute_1.2.0.zip |
StartedAt: 2018-10-16 19:26:48 -0400 (Tue, 16 Oct 2018) |
EndedAt: 2018-10-16 19:29:10 -0400 (Tue, 16 Oct 2018) |
EllapsedTime: 142.1 seconds |
RetCode: 0 |
Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/methimpute_1.2.0.tar.gz && rm -rf methimpute.buildbin-libdir && mkdir methimpute.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=methimpute.buildbin-libdir methimpute_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL methimpute_1.2.0.zip && rm methimpute_1.2.0.tar.gz methimpute_1.2.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 1281k 100 1281k 0 0 16.9M 0 --:--:-- --:--:-- --:--:-- 18.4M install for i386 * installing *source* package 'methimpute' ... ** libs C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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" -fopenmp -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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" -fopenmp -O2 -Wall -mtune=generic -c densities.cpp -o densities.o densities.cpp: In member function 'virtual void BinomialTestContext::calc_densities(Rcpp::Matrix<14>::Row&)': densities.cpp:614:138: warning: 'prob_context' may be used uninitialized in this function [-Wmaybe-uninitialized] if (verbosity >= 4) Rprintf("obs_test[t=%d] = %d, obs_total[t] = %d, prob_context = %g\n", t, obs_test[t], obs_total[t], prob_context); ^ C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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" -fopenmp -O2 -Wall -mtune=generic -c fitHMM.cpp -o fitHMM.o C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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" -fopenmp -O2 -Wall -mtune=generic -c fitHMM_context.cpp -o fitHMM_context.o C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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" -fopenmp -O2 -Wall -mtune=generic -c hmm_context.cpp -o hmm_context.o hmm_context.cpp: In destructor 'HMM_context::˜HMM_context()': hmm_context.cpp:68:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i<this->emissionDensities.size(); i++) ^ C:/Rtools/mingw_32/bin/gcc -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" -O3 -Wall -std=gnu99 -mtune=generic -c methimpute_init.c -o methimpute_init.o C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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" -fopenmp -O2 -Wall -mtune=generic -c scalehmm.cpp -o scalehmm.o scalehmm.cpp: In destructor 'ScaleHMM::˜ScaleHMM()': scalehmm.cpp:311:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i<this->emissionDensities.size(); i++) ^ C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o methimpute.dll tmp.def RcppExports.o densities.o fitHMM.o fitHMM_context.o hmm_context.o methimpute_init.o scalehmm.o -fopenmp -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/methimpute.buildbin-libdir/methimpute/libs/i386 ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'methimpute' finding HTML links ... done arabidopsis_TEs html arabidopsis_chromosomes html arabidopsis_genes html arabidopsis_toydata html binning html binomialTestMethylation html callMethylation html callMethylationSeparate html collapseBins html distanceCorrelation html estimateTransDist html exportMethylome html extractCytosinesFromFASTA html finding level-2 HTML links ... done getDistinctColors html getPosteriors html getStateColors html import html importRene html inflateMethylome html loadFromFiles html methimpute-objects html methimpute-package html methimputeBinomialHMM html methimputeData html parameterScan html plotting html print.methimputeBinomialHMM html transCoord html ** building package indices ** installing vignettes ** testing if installed package can be loaded In R CMD INSTALL install for x64 * installing *source* package 'methimpute' ... ** libs C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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" -fopenmp -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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" -fopenmp -O2 -Wall -mtune=generic -c densities.cpp -o densities.o densities.cpp: In member function 'virtual void BinomialTestContext::calc_densities(Rcpp::Matrix<14>::Row&)': densities.cpp:614:138: warning: 'prob_context' may be used uninitialized in this function [-Wmaybe-uninitialized] if (verbosity >= 4) Rprintf("obs_test[t=%d] = %d, obs_total[t] = %d, prob_context = %g\n", t, obs_test[t], obs_total[t], prob_context); ^ C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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" -fopenmp -O2 -Wall -mtune=generic -c fitHMM.cpp -o fitHMM.o C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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" -fopenmp -O2 -Wall -mtune=generic -c fitHMM_context.cpp -o fitHMM_context.o C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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" -fopenmp -O2 -Wall -mtune=generic -c hmm_context.cpp -o hmm_context.o hmm_context.cpp: In destructor 'HMM_context::˜HMM_context()': hmm_context.cpp:68:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i<this->emissionDensities.size(); i++) ^ C:/Rtools/mingw_64/bin/gcc -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 -std=gnu99 -mtune=generic -c methimpute_init.c -o methimpute_init.o C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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" -fopenmp -O2 -Wall -mtune=generic -c scalehmm.cpp -o scalehmm.o scalehmm.cpp: In destructor 'ScaleHMM::˜ScaleHMM()': scalehmm.cpp:311:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i<this->emissionDensities.size(); i++) ^ C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o methimpute.dll tmp.def RcppExports.o densities.o fitHMM.o fitHMM_context.o hmm_context.o methimpute_init.o scalehmm.o -fopenmp -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/methimpute.buildbin-libdir/methimpute/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'methimpute' as methimpute_1.2.0.zip * DONE (methimpute) In R CMD INSTALL In R CMD INSTALL * installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library' package 'methimpute' successfully unpacked and MD5 sums checked In R CMD INSTALL