Chengyang Ji
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/sitePath |
| Branch: RELEASE_3_10 |
| Last Commit: 86e44d4 |
| Last Changed Date: 2020-04-01 12:28:39 -0400 (Wed, 01 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:32:10 -0400 (Wed, 15 Apr 2020).
| Package 1609/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| sitePath 1.2.3 Chengyang Ji
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | OK | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: sitePath |
| Version: 1.2.3 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/sitePath_1.2.3.tar.gz && rm -rf sitePath.buildbin-libdir && mkdir sitePath.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=sitePath.buildbin-libdir sitePath_1.2.3.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL sitePath_1.2.3.zip && rm sitePath_1.2.3.tar.gz sitePath_1.2.3.zip |
| StartedAt: 2020-04-14 18:51:49 -0400 (Tue, 14 Apr 2020) |
| EndedAt: 2020-04-14 18:52:57 -0400 (Tue, 14 Apr 2020) |
| EllapsedTime: 68.3 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/sitePath_1.2.3.tar.gz && rm -rf sitePath.buildbin-libdir && mkdir sitePath.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=sitePath.buildbin-libdir sitePath_1.2.3.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL sitePath_1.2.3.zip && rm sitePath_1.2.3.tar.gz sitePath_1.2.3.zip
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install for i386
* installing *source* package 'sitePath' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c exportFunc.cpp -o exportFunc.o
exportFunc.cpp: In function 'Rcpp::ListOf<Rcpp::Vector<13> > majorSNPtips(const CharacterVector&, int)':
exportFunc.cpp:54:48: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int siteIndex = 0; siteIndex < alignedSeqs[0].size(); ++siteIndex) {
^
exportFunc.cpp: In function 'Rcpp::ListOf<Rcpp::Vector<13> > mergePaths(const Rcpp::ListOf<Rcpp::Vector<13> >&)':
exportFunc.cpp:85:32: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int i = 1; i < paths.size(); ++i) {
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c minEntropy.cpp -o minEntropy.o
minEntropy.cpp: In function 'Rcpp::ListOf<Rcpp::Vector<13> > MinEntropy::updatedSegmentation(const Rcpp::ListOf<Rcpp::Vector<13> >&, const segment&)':
minEntropy.cpp:389:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int j = 0; j < aa.size(); ++j) {
^
minEntropy.cpp: In instantiation of 'MinEntropy::SearchTree<T>::SearchTree(unsigned int, unsigned int, const Rcpp::ListOf<Rcpp::Vector<13> >&) [with T = MinEntropy::Segmentor]':
minEntropy.cpp:438:28: required from here
minEntropy.cpp:177:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int j = 0; j < aa.size(); ++j) {
^
minEntropy.cpp: In instantiation of 'MinEntropy::SearchTree<T>::SearchTree(unsigned int, unsigned int, const Rcpp::ListOf<Rcpp::Vector<13> >&) [with T = MinEntropy::Amalgamator]':
minEntropy.cpp:439:28: required from here
minEntropy.cpp:177:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c treemer.cpp -o treemer.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c util.cpp -o util.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o sitePath.dll tmp.def RcppExports.o exportFunc.o minEntropy.o treemer.o util.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/sitePath.buildbin-libdir/00LOCK-sitePath/00new/sitePath/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'sitePath'
finding HTML links ... done
addMSA html
extractTips html
findSites html
h3n2_align html
h3n2_align_reduced html
h3n2_tree html
h3n2_tree_reduced html
plot.lineagePath html
plot.sitePath html
plotSingleSite html
pre-assessment html
setSiteNumbering html
treemer html
zikv_align html
zikv_align_reduced html
zikv_tree html
zikv_tree_reduced 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 'sitePath' ...
** libs
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c exportFunc.cpp -o exportFunc.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c minEntropy.cpp -o minEntropy.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c treemer.cpp -o treemer.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c util.cpp -o util.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o sitePath.dll tmp.def RcppExports.o exportFunc.o minEntropy.o treemer.o util.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/sitePath.buildbin-libdir/sitePath/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'sitePath' as sitePath_1.2.3.zip
* DONE (sitePath)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'sitePath' successfully unpacked and MD5 sums checked