* installing *source* package ‘kmeRtone’ ...
** using staged installation
** libs
using C++ compiler: ‘Debian clang version 17.0.6 (5)’
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o
In file included from RcppExports.cpp:4:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c countKmers.cpp -o countKmers.o
In file included from countKmers.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c countMidPatternContext.cpp -o countMidPatternContext.o
In file included from countMidPatternContext.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c countMidPatternContext2.cpp -o countMidPatternContext2.o
In file included from countMidPatternContext2.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c countMidPatternKmers.cpp -o countMidPatternKmers.o
In file included from countMidPatternKmers.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c countMidPatternRangedKmers.cpp -o countMidPatternRangedKmers.o
In file included from countMidPatternRangedKmers.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
countMidPatternRangedKmers.cpp:52:18: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
   52 |       } else if ((mid_idx >= it->first) & (mid_idx < it->second)) {
      |                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
      |                                         &&
countMidPatternRangedKmers.cpp:52:18: note: cast one or both operands to int to silence this warning
2 warnings generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c countPointContext.cpp -o countPointContext.o
In file included from countPointContext.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c countPointContext2.cpp -o countPointContext2.o
In file included from countPointContext2.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
countPointContext2.cpp:22:9: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical]
   22 |     if ((points[i] < 1) | (points[i] > int(sequence.length()))) {
      |         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
      |                         ||
countPointContext2.cpp:22:9: note: cast one or both operands to int to silence this warning
2 warnings generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c countRangedKmers.cpp -o countRangedKmers.o
In file included from countRangedKmers.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
countRangedKmers.cpp:51:18: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
   51 |       } else if ((i >= it->first) & (i < it->second - k + 1)) {
      |                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
      |                                   &&
countRangedKmers.cpp:51:18: note: cast one or both operands to int to silence this warning
2 warnings generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c countSlidingWindow.cpp -o countSlidingWindow.o
In file included from countSlidingWindow.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c countSlidingWindow2.cpp -o countSlidingWindow2.o
In file included from countSlidingWindow2.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c count_substring_fixed.cpp -o count_substring_fixed.o
In file included from count_substring_fixed.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c count_substring_regex.cpp -o count_substring_regex.o
In file included from count_substring_regex.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c import_stringi.cpp -o import_stringi.o
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c readBCF.cpp -o readBCF.o
In file included from readBCF.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c readSingleFASTA.cpp -o readSingleFASTA.o
In file included from readSingleFASTA.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c simulatePopulation.cpp -o simulatePopulation.o
In file included from simulatePopulation.cpp:1:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17  -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-17/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/stringi/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -DR_NO_REMAP -c splitFASTA2.cpp -o splitFASTA2.o
In file included from splitFASTA2.cpp:2:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27:
In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30:
/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined]
   26 | #define R_NO_REMAP
      |         ^
<command line>:5:9: note: previous definition is here
    5 | #define R_NO_REMAP 1
      |         ^
1 warning generated.
clang++-17 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-clang-17/lib -Wl,-O1 -o kmeRtone.so RcppExports.o countKmers.o countMidPatternContext.o countMidPatternContext2.o countMidPatternKmers.o countMidPatternRangedKmers.o countPointContext.o countPointContext2.o countRangedKmers.o countSlidingWindow.o countSlidingWindow2.o count_substring_fixed.o count_substring_regex.o import_stringi.o readBCF.o readSingleFASTA.o simulatePopulation.o splitFASTA2.o /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rhtslib/usrlib/libhts.a -lcurl -lbz2 -llzma -lz -L/home/hornik/tmp/R-d-clang-17/lib -lR
installing to /srv/hornik/tmp/CRAN/kmeRtone.Rcheck/00LOCK-kmeRtone/00new/kmeRtone/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (kmeRtone)