############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/FunChIP_1.20.0.tar.gz && rm -rf FunChIP.buildbin-libdir && mkdir FunChIP.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=FunChIP.buildbin-libdir FunChIP_1.20.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL FunChIP_1.20.0.zip && rm FunChIP_1.20.0.tar.gz FunChIP_1.20.0.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 2 22.0M 2 508k 0 0 715k 0 0:00:31 --:--:-- 0:00:31 715k 8 22.0M 8 2011k 0 0 1175k 0 0:00:19 0:00:01 0:00:18 1175k 19 22.0M 19 4362k 0 0 1618k 0 0:00:13 0:00:02 0:00:11 1618k 34 22.0M 34 7716k 0 0 2088k 0 0:00:10 0:00:03 0:00:07 2088k 52 22.0M 52 11.5M 0 0 2518k 0 0:00:08 0:00:04 0:00:04 2518k 75 22.0M 75 16.6M 0 0 2982k 0 0:00:07 0:00:05 0:00:02 3305k 100 22.0M 100 22.0M 0 0 3418k 0 0:00:06 0:00:06 --:--:-- 4203k install for i386 * installing *source* package 'FunChIP' ... ** using staged installation ** libs "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I../inst/include -I. -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c kmean_function.cpp -o kmean_function.o kmean_function.cpp: In function 'SEXPREC* kmean_function(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)': kmean_function.cpp:74:31: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] for (unsigned int i =0 ; i&, const int&, std::vector&, const double&, const double&, const int&, const char&, const double&, const double&, std::vector&, std::vector&, std::vector&, const double&, const double&, int, char, char)': kmean_function.cpp:638:51: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] while( iter < iter_max and number_distances_low < dati.size() and cluster_vuoti==0){ //and number_clusters_different > 0 ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ kmean_function.cpp:677:52: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses] if ( (unsigned int)number_clusters_different == dati.size() & iter != 1) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ kmean_function.cpp:681:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] if (number_distances_low== dati.size()) ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ kmean_function.cpp: In function 'void normalize_data(std::vector&, std::vector&, const int&)': kmean_function.cpp:759:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'const int' [-Wsign-compare] for (unsigned int i=0; i peak::area(int, char) const': peak.h:154:46: warning: 'D' may be used uninitialized in this function [-Wmaybe-uninitialized] area_def[0] = sqrt(area[0]/2)/D; ~~~~~~~~~~~~~~~^~ C:/rtools40/mingw32/bin/g++ -shared -s -static-libgcc -o FunChIP.dll tmp.def kmean_function.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/FunChIP.buildbin-libdir/00LOCK-FunChIP/00new/FunChIP/libs/i386 ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'FunChIP' finding HTML links ... done FunChIP-package html GR100 html finding level-2 HTML links ... done bending_index html choose_k-method html cluster_peak-method html compute_fragments_length html distance_peak html peaks html pileup_peak-method html plot_peak-method html silhouette_plot html smooth_peak-method html summit_peak-method 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 'FunChIP' ... ** libs "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I../inst/include -I. -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c kmean_function.cpp -o kmean_function.o kmean_function.cpp: In function 'SEXPREC* kmean_function(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)': kmean_function.cpp:74:31: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] for (unsigned int i =0 ; i&, const int&, std::vector&, const double&, const double&, const int&, const char&, const double&, const double&, std::vector&, std::vector&, std::vector&, const double&, const double&, int, char, char)': kmean_function.cpp:638:51: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long long unsigned int'} [-Wsign-compare] while( iter < iter_max and number_distances_low < dati.size() and cluster_vuoti==0){ //and number_clusters_different > 0 ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ kmean_function.cpp:677:52: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses] if ( (unsigned int)number_clusters_different == dati.size() & iter != 1) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ kmean_function.cpp:681:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long long unsigned int'} [-Wsign-compare] if (number_distances_low== dati.size()) ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ kmean_function.cpp: In function 'void normalize_data(std::vector&, std::vector&, const int&)': kmean_function.cpp:759:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'const int' [-Wsign-compare] for (unsigned int i=0; i peak::area(int, char) const': peak.h:154:46: warning: 'D' may be used uninitialized in this function [-Wmaybe-uninitialized] area_def[0] = sqrt(area[0]/2)/D; ~~~~~~~~~~~~~~~^~ C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o FunChIP.dll tmp.def kmean_function.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/FunChIP.buildbin-libdir/FunChIP/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'FunChIP' as FunChIP_1.20.0.zip * DONE (FunChIP) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'FunChIP' successfully unpacked and MD5 sums checked