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This page was generated on 2021-10-15 15:05:58 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the batchelor package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/batchelor.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 125/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
batchelor 1.8.1 (landing page) Aaron Lun
| 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 | OK | OK | |||||||||
Package: batchelor |
Version: 1.8.1 |
Command: rm -rf batchelor.buildbin-libdir && mkdir batchelor.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=batchelor.buildbin-libdir batchelor_1.8.1.tar.gz |
StartedAt: 2021-10-15 08:08:17 -0400 (Fri, 15 Oct 2021) |
EndedAt: 2021-10-15 08:09:56 -0400 (Fri, 15 Oct 2021) |
EllapsedTime: 99.8 seconds |
RetCode: 0 |
Status: OK |
PackageFile: batchelor_1.8.1.zip |
PackageFileSize: 1.869 MiB |
############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf batchelor.buildbin-libdir && mkdir batchelor.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=batchelor.buildbin-libdir batchelor_1.8.1.tar.gz ### ############################################################################## ############################################################################## install for i386 * installing *source* package 'batchelor' ... ** using staged installation ** libs "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c adjust_shift_variance.cpp -o adjust_shift_variance.o adjust_shift_variance.cpp: In function 'Rcpp::NumericVector adjust_shift_variance(Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, double, Rcpp::IntegerVector, Rcpp::IntegerVector)': adjust_shift_variance.cpp:34:16: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const unsigned int'} and 'int' [-Wsign-compare] if (ngenes != data2.nrow() || ngenes != vect.ncol()) { ~~~~~~~^~~~~~~~~~~~~~~ adjust_shift_variance.cpp:34:42: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const unsigned int'} and 'int' [-Wsign-compare] if (ngenes != data2.nrow() || ngenes != vect.ncol()) { ~~~~~~~^~~~~~~~~~~~~~ adjust_shift_variance.cpp:39:16: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const unsigned int'} and 'int' [-Wsign-compare] if (ncells != vect.nrow()) { ~~~~~~~^~~~~~~~~~~~~~ adjust_shift_variance.cpp:118:39: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'R_xlen_t' {aka 'int'} [-Wsign-compare] for (size_t other=0; other<restrict1.size(); ++other) { ~~~~~^~~~~~~~~~~~~~~~~ "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c find_mutual_nns.cpp -o find_mutual_nns.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c smooth_gaussian_kernel.cpp -o smooth_gaussian_kernel.o smooth_gaussian_kernel.cpp: In function 'SEXPREC* smooth_gaussian_kernel(Rcpp::NumericMatrix, Rcpp::IntegerVector, Rcpp::NumericMatrix, double)': smooth_gaussian_kernel.cpp:18:13: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const unsigned int'} and 'R_xlen_t' {aka 'int'} [-Wsign-compare] if (nmnn!=index.size()) { ~~~~^~~~~~~~~~~~~~ "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I"c:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c utils.cpp -o utils.o C:/rtools40/mingw32/bin/g++ -shared -s -static-libgcc -o batchelor.dll tmp.def RcppExports.o adjust_shift_variance.o find_mutual_nns.o smooth_gaussian_kernel.o utils.o -Lc:/extsoft/lib/i386 -Lc:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/i386 -lR installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/batchelor.buildbin-libdir/00LOCK-batchelor/00new/batchelor/libs/i386 ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'batchelor' finding HTML links ... done BatchelorParam html finding level-2 HTML links ... done applyMultiSCE html batchCorrect html batchelor-restrict html checkInputs html clusterMNN html convertPCsToSCE html correctExperiments html cosineNorm html diagnostics-cluster html divideIntoBatches html fastMNN html intersectRows html mnnCorrect html mnnDeltaVariance html multiBatchNorm html multiBatchPCA html noCorrect html quickCorrect html reducedMNN html reexports html regressBatches html rescaleBatches html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'batchelor' ... ** libs "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c adjust_shift_variance.cpp -o adjust_shift_variance.o adjust_shift_variance.cpp: In function 'Rcpp::NumericVector adjust_shift_variance(Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, double, Rcpp::IntegerVector, Rcpp::IntegerVector)': adjust_shift_variance.cpp:34:16: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const long long unsigned int'} and 'int' [-Wsign-compare] if (ngenes != data2.nrow() || ngenes != vect.ncol()) { ~~~~~~~^~~~~~~~~~~~~~~ adjust_shift_variance.cpp:34:42: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const long long unsigned int'} and 'int' [-Wsign-compare] if (ngenes != data2.nrow() || ngenes != vect.ncol()) { ~~~~~~~^~~~~~~~~~~~~~ adjust_shift_variance.cpp:39:16: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const long long unsigned int'} and 'int' [-Wsign-compare] if (ncells != vect.nrow()) { ~~~~~~~^~~~~~~~~~~~~~ adjust_shift_variance.cpp:118:39: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare] for (size_t other=0; other<restrict1.size(); ++other) { ~~~~~^~~~~~~~~~~~~~~~~ "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c find_mutual_nns.cpp -o find_mutual_nns.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c smooth_gaussian_kernel.cpp -o smooth_gaussian_kernel.o smooth_gaussian_kernel.cpp: In function 'SEXPREC* smooth_gaussian_kernel(Rcpp::NumericMatrix, Rcpp::IntegerVector, Rcpp::NumericMatrix, double)': smooth_gaussian_kernel.cpp:18:13: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare] if (nmnn!=index.size()) { ~~~~^~~~~~~~~~~~~~ "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c utils.cpp -o utils.o C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o batchelor.dll tmp.def RcppExports.o adjust_shift_variance.o find_mutual_nns.o smooth_gaussian_kernel.o utils.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/x64 -lR installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/batchelor.buildbin-libdir/batchelor/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'batchelor' as batchelor_1.8.1.zip * DONE (batchelor)