BASiCS 1.0.1
Catalina A. Vallejos
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/BASiCS |
| Branch: RELEASE_3_6 |
| Last Commit: dba7914 |
| Last Changed Date: 2018-03-18 15:01:01 -0400 (Sun, 18 Mar 2018) |
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | |  |
| tokay1 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | OK | OK | |
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
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### Running command:
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### rm -rf BASiCS.buildbin-libdir && mkdir BASiCS.buildbin-libdir && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/BASiCS_1.0.1.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=BASiCS.buildbin-libdir --merge-multiarch BASiCS_1.0.1.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL BASiCS_1.0.1.zip && rm BASiCS_1.0.1.tar.gz BASiCS_1.0.1.zip
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install for i386
* installing *source* package 'BASiCS' ...
** libs
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppArmadillo/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c BASiCS_CPPcode.cpp -o BASiCS_CPPcode.o
BASiCS_CPPcode.cpp: In function 'arma::mat muUpdateNoSpikes(const vec&, const vec&, const double&, const mat&, const vec&, const vec&, const vec&, const double&, const int&, const int&, arma::vec&, arma::vec&, const int&, const uvec&, const uvec&, const int&)':
BASiCS_CPPcode.cpp:1226:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int i=0; i < ConstrainGene.size(); i++)
^
BASiCS_CPPcode.cpp:1251:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int i=0; i < NotConstrainGene.size(); i++)
^
BASiCS_CPPcode.cpp: In function 'Rcpp::List HiddenBASiCS_MCMCcppNoSpikes(int, int, int, Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, double, double, double, double, double, double, double, double, double, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, double, Rcpp::NumericVector, Rcpp::NumericVector, int, int, int, double, double, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, double, Rcpp::NumericVector, int, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, int)':
BASiCS_CPPcode.cpp:1648:14: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
if(i%Thin==0 & i>=Burn)
^
BASiCS_CPPcode.cpp:1666:19: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
if(i%(2*Thin) == 0 & PrintProgress == 1)
^
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppArmadillo/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o BASiCS.dll tmp.def BASiCS_CPPcode.o RcppExports.o -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/i386 -lRlapack -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/local323/lib/i386 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.6-bioc/meat/BASiCS.buildbin-libdir/BASiCS/libs/i386
** R
** data
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'BASiCS'
finding HTML links ... done
BASiCS_Chain-methods html
BASiCS_Chain html
BASiCS_D_TestDE html
BASiCS_DenoisedCounts html
finding level-2 HTML links ... done
BASiCS_DenoisedRates html
BASiCS_DetectHVG_LVG html
BASiCS_Filter html
BASiCS_LoadChain html
BASiCS_MCMC html
BASiCS_Sim html
BASiCS_Summary-methods html
BASiCS_Summary html
BASiCS_TestDE html
BASiCS_VarThresholdSearchHVG_LVG html
BASiCS_VarianceDecomp html
ChainRNA html
ChainSC html
Summary-BASiCS_Chain-method html
displayChainBASiCS-BASiCS_Chain-method
html
displaySummaryBASiCS-BASiCS_Summary-method
html
makeExampleBASiCS_Data html
newBASiCS_Chain html
newBASiCS_Data html
plot-BASiCS_Chain-method html
plot-BASiCS_Summary-method html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'BASiCS' ...
** libs
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppArmadillo/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c BASiCS_CPPcode.cpp -o BASiCS_CPPcode.o
BASiCS_CPPcode.cpp: In function 'arma::mat muUpdateNoSpikes(const vec&, const vec&, const double&, const mat&, const vec&, const vec&, const vec&, const double&, const int&, const int&, arma::vec&, arma::vec&, const int&, const uvec&, const uvec&, const int&)':
BASiCS_CPPcode.cpp:1226:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int i=0; i < ConstrainGene.size(); i++)
^
BASiCS_CPPcode.cpp:1251:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int i=0; i < NotConstrainGene.size(); i++)
^
BASiCS_CPPcode.cpp: In function 'Rcpp::List HiddenBASiCS_MCMCcppNoSpikes(int, int, int, Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, double, double, double, double, double, double, double, double, double, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, double, Rcpp::NumericVector, Rcpp::NumericVector, int, int, int, double, double, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, double, Rcpp::NumericVector, int, Rcpp::NumericVector, Rcpp::NumericVector, Rcpp::NumericVector, int)':
BASiCS_CPPcode.cpp:1648:14: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
if(i%Thin==0 & i>=Burn)
^
BASiCS_CPPcode.cpp:1666:19: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
if(i%(2*Thin) == 0 & PrintProgress == 1)
^
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppArmadillo/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o BASiCS.dll tmp.def BASiCS_CPPcode.o RcppExports.o -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/x64 -lRlapack -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/local323/lib/x64 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.6-bioc/meat/BASiCS.buildbin-libdir/BASiCS/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'BASiCS' as BASiCS_1.0.1.zip
* DONE (BASiCS)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.6-bioc/R/library'
package 'BASiCS' successfully unpacked and MD5 sums checked
In R CMD INSTALL