############################################################################## ############################################################################## ### ### Running command: ### ### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL Rbowtie2 ### ############################################################################## ############################################################################## * installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library' * installing *source* package 'Rbowtie2' ... ** this is package 'Rbowtie2' version '2.13.3' ** using staged installation ** libs running 'src/Makefile.win' ... mkdir -p ../inst (cd adapterremoval && (/usr/bin/make -f"E:/biocbuild/bbs-3.21-bioc/R/etc/x64/Makeconf" -fMakefile.win)) Makefile.win:46: warning: overriding recipe for target '.cc.o' E:/biocbuild/bbs-3.21-bioc/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 g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c debug.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c demultiplex.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c fastq.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c fastq_enc.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c fastq_io.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c linereader.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c linereader_joined.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c main_adapter_id.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c main_adapter_rm.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c main_demultiplex.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c scheduler.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c strutils.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c threads.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c timer.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c trimmed_reads.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c userconfig.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -c main.cc g++ -std=gnu++17 -std=gnu++11 -O3 -D_REENTRANT -lpthread -DNDEBUG -o AdapterRemoval adapterset.o alignment.o argparse.o debug.o demultiplex.o fastq.o fastq_enc.o fastq_io.o linereader.o linereader_joined.o main_adapter_id.o main_adapter_rm.o main_demultiplex.o scheduler.o strutils.o threads.o timer.o trimmed_reads.o userconfig.o main.o cp AdapterRemoval ../../inst/ (cd bowtie2-2.4.4 && (/usr/bin/make -f"E:/biocbuild/bbs-3.21-bioc/R/etc/x64/Makeconf" -fMakefile.win)) g++ -std=gnu++17 -O3 -msse2 -funroll-loops -g3 -DCOMPILER_OPTIONS="\"-O3 -msse2 -funroll-loops -g3 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -std=c++11 -DPOPCNT_CAPABILITY -DNO_SPINLOCK -DWITH_QUEUELOCK=1 -static-libgcc -static-libstdc++\"" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -std=c++11 -DPOPCNT_CAPABILITY -DNO_SPINLOCK -DWITH_QUEUELOCK=1 -static-libgcc -static-libstdc++ \ -fno-strict-aliasing -DBOWTIE2_VERSION="\"`cat BOWTIE2_VERSION`\"" -DBUILD_HOST="\"${HOSTNAME:-`hostname`}\"" -DBUILD_TIME="\"`date -u`\"" -DCOMPILER_VERSION="\"`g++ -std=gnu++17 -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DBOWTIE2 -DNDEBUG -Wall \ -I third_party \ -o bowtie2-build-s bt2_build.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_locks.cpp bt2_idx.cpp bt2_io.cpp bt2_util.cpp reference.cpp ds.cpp multikey_qsort.cpp limit.cpp random_source.cpp diff_sample.cpp bowtie_build_main.cpp \ -lpthread -lz In file included from bt2_idx.h:59, from bt2_build.cpp:28: In member function 'bool ProcessorSupport::POPCNTenabled()', inlined from 'Ebwt::Ebwt(TStr, bool, int, int, int32_t, int32_t, int32_t, int, const std::string&, bool, bool, TIndexOffU, TIndexOffU, TIndexOffU, int, EList&, EList&, TIndexOffU, const RefReadInParams&, uint32_t, int32_t, bool, bool, bool, bool, bool) [with TStr = S2bDnaString]' at bt2_idx.h:615:43, inlined from 'void driver(const std::string&, EList >&, const std::string&, bool, int) [with TStr = S2bDnaString]' at bt2_build.cpp:469:7: processor_support.h:55:13: warning: 'regs.regs_t::ECX' may be used uninitialized [-Wmaybe-uninitialized] 55 | if( !( (regs.ECX & BIT(20)) && (regs.ECX & BIT(23)) ) ) return false; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ processor_support.h: In function 'void driver(const std::string&, EList >&, const std::string&, bool, int) [with TStr = S2bDnaString]': processor_support.h:43:12: note: 'regs.regs_t::ECX' was declared here 43 | regs_t regs; | ^~~~ In member function 'bool ProcessorSupport::POPCNTenabled()', inlined from 'Ebwt::Ebwt(TStr, bool, int, int, int32_t, int32_t, int32_t, int, const std::string&, bool, bool, TIndexOffU, TIndexOffU, TIndexOffU, int, EList&, EList&, TIndexOffU, const RefReadInParams&, uint32_t, int32_t, bool, bool, bool, bool, bool) [with TStr = SString]' at bt2_idx.h:615:43, inlined from 'void driver(const std::string&, EList >&, const std::string&, bool, int) [with TStr = SString]' at bt2_build.cpp:469:7: processor_support.h:55:13: warning: 'regs.regs_t::ECX' may be used uninitialized [-Wmaybe-uninitialized] 55 | if( !( (regs.ECX & BIT(20)) && (regs.ECX & BIT(23)) ) ) return false; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ processor_support.h: In function 'void driver(const std::string&, EList >&, const std::string&, bool, int) [with TStr = SString]': processor_support.h:43:12: note: 'regs.regs_t::ECX' was declared here 43 | regs_t regs; | ^~~~ g++ -std=gnu++17 -O3 -msse2 -funroll-loops -g3 -DCOMPILER_OPTIONS="\"-O3 -msse2 -funroll-loops -g3 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -std=c++11 -DPOPCNT_CAPABILITY -DNO_SPINLOCK -DWITH_QUEUELOCK=1 -static-libgcc -static-libstdc++\"" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -std=c++11 -DPOPCNT_CAPABILITY -DNO_SPINLOCK -DWITH_QUEUELOCK=1 -static-libgcc -static-libstdc++ \ -fno-strict-aliasing -DBOWTIE2_VERSION="\"`cat BOWTIE2_VERSION`\"" -DBUILD_HOST="\"${HOSTNAME:-`hostname`}\"" -DBUILD_TIME="\"`date -u`\"" -DCOMPILER_VERSION="\"`g++ -std=gnu++17 -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DBOWTIE2 -DBOWTIE_64BIT_INDEX -DNDEBUG -Wall \ -I third_party \ -o bowtie2-build-l bt2_build.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_locks.cpp bt2_idx.cpp bt2_io.cpp bt2_util.cpp reference.cpp ds.cpp multikey_qsort.cpp limit.cpp random_source.cpp diff_sample.cpp bowtie_build_main.cpp \ -lpthread -lz In file included from bt2_idx.h:59, from bt2_build.cpp:28: In member function 'bool ProcessorSupport::POPCNTenabled()', inlined from 'Ebwt::Ebwt(TStr, bool, int, int, int32_t, int32_t, int32_t, int, const std::string&, bool, bool, TIndexOffU, TIndexOffU, TIndexOffU, int, EList&, EList&, TIndexOffU, const RefReadInParams&, uint32_t, int32_t, bool, bool, bool, bool, bool) [with TStr = S2bDnaString]' at bt2_idx.h:615:43, inlined from 'void driver(const std::string&, EList >&, const std::string&, bool, int) [with TStr = S2bDnaString]' at bt2_build.cpp:469:7: processor_support.h:55:13: warning: 'regs.regs_t::ECX' may be used uninitialized [-Wmaybe-uninitialized] 55 | if( !( (regs.ECX & BIT(20)) && (regs.ECX & BIT(23)) ) ) return false; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ processor_support.h: In function 'void driver(const std::string&, EList >&, const std::string&, bool, int) [with TStr = S2bDnaString]': processor_support.h:43:12: note: 'regs.regs_t::ECX' was declared here 43 | regs_t regs; | ^~~~ In member function 'bool ProcessorSupport::POPCNTenabled()', inlined from 'Ebwt::Ebwt(TStr, bool, int, int, int32_t, int32_t, int32_t, int, const std::string&, bool, bool, TIndexOffU, TIndexOffU, TIndexOffU, int, EList&, EList&, TIndexOffU, const RefReadInParams&, uint32_t, int32_t, bool, bool, bool, bool, bool) [with TStr = SString]' at bt2_idx.h:615:43, inlined from 'void driver(const std::string&, EList >&, const std::string&, bool, int) [with TStr = SString]' at bt2_build.cpp:469:7: processor_support.h:55:13: warning: 'regs.regs_t::ECX' may be used uninitialized [-Wmaybe-uninitialized] 55 | if( !( (regs.ECX & BIT(20)) && (regs.ECX & BIT(23)) ) ) return false; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ processor_support.h: In function 'void driver(const std::string&, EList >&, const std::string&, bool, int) [with TStr = SString]': processor_support.h:43:12: note: 'regs.regs_t::ECX' was declared here 43 | regs_t regs; | ^~~~ g++ -std=gnu++17 -O3 -msse2 -funroll-loops -g3 -DCOMPILER_OPTIONS="\"-O3 -msse2 -funroll-loops -g3 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -std=c++11 -DPOPCNT_CAPABILITY -DNO_SPINLOCK -DWITH_QUEUELOCK=1 -static-libgcc -static-libstdc++\"" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -std=c++11 -DPOPCNT_CAPABILITY -DNO_SPINLOCK -DWITH_QUEUELOCK=1 -static-libgcc -static-libstdc++ \ -fno-strict-aliasing -DBOWTIE2_VERSION="\"`cat BOWTIE2_VERSION`\"" -DBUILD_HOST="\"${HOSTNAME:-`hostname`}\"" -DBUILD_TIME="\"`date -u`\"" -DCOMPILER_VERSION="\"`g++ -std=gnu++17 -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DBOWTIE2 -DNDEBUG -Wall \ -I third_party \ -o bowtie2-align-s bt2_search.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_locks.cpp bt2_idx.cpp bt2_io.cpp bt2_util.cpp reference.cpp ds.cpp multikey_qsort.cpp limit.cpp random_source.cpp qual.cpp pat.cpp sam.cpp read_qseq.cpp aligner_seed_policy.cpp aligner_seed.cpp aligner_seed2.cpp aligner_sw.cpp aligner_sw_driver.cpp aligner_cache.cpp aligner_result.cpp ref_coord.cpp mask.cpp pe.cpp aln_sink.cpp dp_framer.cpp scoring.cpp presets.cpp unique.cpp simple_func.cpp random_util.cpp aligner_bt.cpp sse_util.cpp aligner_swsse.cpp outq.cpp aligner_swsse_loc_i16.cpp aligner_swsse_ee_i16.cpp aligner_swsse_loc_u8.cpp aligner_swsse_ee_u8.cpp aligner_driver.cpp bowtie_main.cpp \ -lpthread -lz In file included from aligner_sw.h:75, from bt2_search.cpp:54: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' In file included from bt2_idx.h:59, from bt2_search.cpp:41: In member function 'bool ProcessorSupport::POPCNTenabled()', inlined from 'Ebwt::Ebwt(const std::string&, int, int, bool, int32_t, int32_t, bool, bool, bool, bool, bool, bool, bool, bool, bool, bool, bool)' at bt2_idx.h:542:43: processor_support.h:55:13: warning: 'regs.regs_t::ECX' may be used uninitialized [-Wmaybe-uninitialized] 55 | if( !( (regs.ECX & BIT(20)) && (regs.ECX & BIT(23)) ) ) return false; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ processor_support.h: In constructor 'Ebwt::Ebwt(const std::string&, int, int, bool, int32_t, int32_t, bool, bool, bool, bool, bool, bool, bool, bool, bool, bool, bool)': processor_support.h:43:12: note: 'regs.regs_t::ECX' was declared here 43 | regs_t regs; | ^~~~ In file included from aligner_sw.h:75, from aligner_sw.cpp:25: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' In file included from aligner_sw.h:75, from aligner_sw_driver.h:81, from aligner_sw_driver.cpp:47: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' In file included from aligner_sw.h:75, from aligner_swsse_loc_i16.cpp:56: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' In file included from aligner_sw.h:75, from aligner_swsse_ee_i16.cpp:56: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' In file included from aligner_sw.h:75, from aligner_swsse_loc_u8.cpp:56: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' In file included from aligner_sw.h:75, from aligner_swsse_ee_u8.cpp:56: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' g++ -std=gnu++17 -O3 -msse2 -funroll-loops -g3 -DCOMPILER_OPTIONS="\"-O3 -msse2 -funroll-loops -g3 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -std=c++11 -DPOPCNT_CAPABILITY -DNO_SPINLOCK -DWITH_QUEUELOCK=1 -static-libgcc -static-libstdc++\"" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -std=c++11 -DPOPCNT_CAPABILITY -DNO_SPINLOCK -DWITH_QUEUELOCK=1 -static-libgcc -static-libstdc++ \ -fno-strict-aliasing -DBOWTIE2_VERSION="\"`cat BOWTIE2_VERSION`\"" -DBUILD_HOST="\"${HOSTNAME:-`hostname`}\"" -DBUILD_TIME="\"`date -u`\"" -DCOMPILER_VERSION="\"`g++ -std=gnu++17 -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -DBOWTIE2 -DBOWTIE_64BIT_INDEX -DNDEBUG -Wall \ -I third_party \ -o bowtie2-align-l bt2_search.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_locks.cpp bt2_idx.cpp bt2_io.cpp bt2_util.cpp reference.cpp ds.cpp multikey_qsort.cpp limit.cpp random_source.cpp qual.cpp pat.cpp sam.cpp read_qseq.cpp aligner_seed_policy.cpp aligner_seed.cpp aligner_seed2.cpp aligner_sw.cpp aligner_sw_driver.cpp aligner_cache.cpp aligner_result.cpp ref_coord.cpp mask.cpp pe.cpp aln_sink.cpp dp_framer.cpp scoring.cpp presets.cpp unique.cpp simple_func.cpp random_util.cpp aligner_bt.cpp sse_util.cpp aligner_swsse.cpp outq.cpp aligner_swsse_loc_i16.cpp aligner_swsse_ee_i16.cpp aligner_swsse_loc_u8.cpp aligner_swsse_ee_u8.cpp aligner_driver.cpp bowtie_main.cpp \ -lpthread -lz In file included from aligner_sw.h:75, from bt2_search.cpp:54: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' In file included from bt2_idx.h:59, from bt2_search.cpp:41: In member function 'bool ProcessorSupport::POPCNTenabled()', inlined from 'Ebwt::Ebwt(const std::string&, int, int, bool, int32_t, int32_t, bool, bool, bool, bool, bool, bool, bool, bool, bool, bool, bool)' at bt2_idx.h:542:43: processor_support.h:55:13: warning: 'regs.regs_t::ECX' may be used uninitialized [-Wmaybe-uninitialized] 55 | if( !( (regs.ECX & BIT(20)) && (regs.ECX & BIT(23)) ) ) return false; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ processor_support.h: In constructor 'Ebwt::Ebwt(const std::string&, int, int, bool, int32_t, int32_t, bool, bool, bool, bool, bool, bool, bool, bool, bool, bool, bool)': processor_support.h:43:12: note: 'regs.regs_t::ECX' was declared here 43 | regs_t regs; | ^~~~ In file included from aligner_sw.h:75, from aligner_sw.cpp:25: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' In file included from aligner_sw.h:75, from aligner_sw_driver.h:81, from aligner_sw_driver.cpp:47: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' In file included from aligner_sw.h:75, from aligner_swsse_loc_i16.cpp:56: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' In file included from aligner_sw.h:75, from aligner_swsse_ee_i16.cpp:56: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' In file included from aligner_sw.h:75, from aligner_swsse_loc_u8.cpp:56: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' In file included from aligner_sw.h:75, from aligner_swsse_ee_u8.cpp:56: aligner_sw_nuc.h:191:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 191 | NBest() { nelt_ = nbest_ = n_ = 0; } | ^ aligner_sw_nuc.h:191:17: note: remove the '< >' echo "@echo off" > bowtie2.bat echo "perl %~dp0/bowtie2 %*" >> bowtie2.bat echo "@echo off" > bowtie2-build.bat echo "python3 %~dp0/bowtie2-build %*" >> bowtie2-build.bat (cd bowtie2-2.4.4 && (/usr/bin/make move -fMakefile.win)) mv bowtie2-align-s ../../inst mv bowtie2-build-s ../../inst mv bowtie2-align-l ../../inst mv bowtie2-build-l ../../inst cp bowtie2 ../../inst cp bowtie2-build ../../inst ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** 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 * DONE (Rbowtie2)