############################################################################## ############################################################################## ### ### Running command: ### ### chmod a+r Rbowtie2 -R && C:\Users\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data Rbowtie2 ### ############################################################################## ############################################################################## * checking for file 'Rbowtie2/DESCRIPTION' ... OK * preparing 'Rbowtie2': * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package to build vignettes ----------------------------------- * installing *source* package 'Rbowtie2' ... ** using staged installation ** libs running 'src/Makefile.win' ... mkdir -p ../inst (cd adapterremoval && (/usr/bin/make -f"C:/Users/BIOCBU~1/BBS-3~1.20-/R/etc/x64/Makeconf" -fMakefile.win)) Makefile.win:46: warning: overriding recipe for target '.cc.o' C:/Users/BIOCBU~1/BBS-3~1.20-/R/etc/x64/Makeconf:294: warning: ignoring old recipe for target '.cc.o' g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c adapterset.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c alignment.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c argparse.cc argparse.cc: In member function 'virtual size_t ar::argparse::knob::consume(ar::string_vec_citer, const ar::string_vec_citer&)': argparse.cc:481:9: error: 'int64_t' was not declared in this scope 481 | int64_t temp = 0; | ^~~~~~~ argparse.cc:39:1: note: 'int64_t' is defined in header ''; did you forget to '#include '? 38 | #include "strutils.h" +++ |+#include 39 | argparse.cc:483:25: error: 'temp' was not declared in this scope; did you mean 'tm'? 483 | if (!(stream >> temp)) { | ^~~~ | tm argparse.cc:493:13: error: 'temp' was not declared in this scope; did you mean 'tm'? 493 | if (temp >= 0 && temp <= std::numeric_limits::max()) { | ^~~~ | tm make[1]: *** [Makefile.win:46: argparse.o] Error 1 make: *** [Makefile.win:12: all] Error 2 ERROR: compilation failed for package 'Rbowtie2' * removing 'C:/Users/biocbuild/bbs-3.20-bioc/tmpdir/Rtmp25vdOj/Rinst349e0234b1697/Rbowtie2' ----------------------------------- ERROR: package installation failed