* installing *source* package ‘MethScope’ ... ** this is package ‘MethScope’ version ‘1.0.0’ ** using staged installation ** libs using C compiler: ‘Debian clang version 21.1.5 (1)’ clang-21 -std=gnu23 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c bgzf.c -o bgzf.o clang-21 -std=gnu23 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c cfile.c -o cfile.o clang-21 -std=gnu23 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c decompress.c -o decompress.o clang-21 -std=gnu23 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c format.c -o format.o clang-21 -std=gnu23 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c format2.c -o format2.o clang-21 -std=gnu23 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c format3.c -o format3.o clang-21 -std=gnu23 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c format6.c -o format6.o clang-21 -std=gnu23 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c format7.c -o format7.o clang-21 -std=gnu23 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c index.c -o index.o clang-21 -std=gnu23 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c init.c -o init.o clang-21 -std=gnu23 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c kstring.c -o kstring.o clang-21 -std=gnu23 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c summary.c -o summary.o summary.c:552:14: warning: incompatible pointer types passing 'FILE *' (aka 'struct _IO_FILE *') to parameter of type 'const char *' [-Wincompatible-pointer-types] 552 | REprintf(out_fp, "%s\t%s\t%s\t%s\t%" PRIu64 "\t%" PRIu64 "\t%" PRIu64 "\t%" PRIu64 "\t%s", | ^~~~~~ /home/hornik/tmp/R-d-clang-21/include/R_ext/Print.h:65:27: note: passing argument to parameter here 65 | void REprintf(const char *, ...) R_PRINTF_FORMAT(1, 2); | ^ summary.c:556:16: warning: incompatible pointer types passing 'FILE *' (aka 'struct _IO_FILE *') to parameter of type 'const char *' [-Wincompatible-pointer-types] 556 | REprintf(out_fp, "\t%1.3f", s.sum_beta / s.n_o); | ^~~~~~ /home/hornik/tmp/R-d-clang-21/include/R_ext/Print.h:65:27: note: passing argument to parameter here 65 | void REprintf(const char *, ...) R_PRINTF_FORMAT(1, 2); | ^ summary.c:558:16: warning: incompatible pointer types passing 'FILE *' (aka 'struct _IO_FILE *') to parameter of type 'const char *' [-Wincompatible-pointer-types] 558 | REprintf(out_fp, "\tNA"); | ^~~~~~ /home/hornik/tmp/R-d-clang-21/include/R_ext/Print.h:65:27: note: passing argument to parameter here 65 | void REprintf(const char *, ...) R_PRINTF_FORMAT(1, 2); | ^ summary.c:562:16: warning: incompatible pointer types passing 'FILE *' (aka 'struct _IO_FILE *') to parameter of type 'const char *' [-Wincompatible-pointer-types] 562 | REprintf(out_fp, "\t%1.1f", (double)s.sum_depth / (s.n_m ? s.n_m : s.n_u)); | ^~~~~~ /home/hornik/tmp/R-d-clang-21/include/R_ext/Print.h:65:27: note: passing argument to parameter here 65 | void REprintf(const char *, ...) R_PRINTF_FORMAT(1, 2); | ^ summary.c:564:16: warning: incompatible pointer types passing 'FILE *' (aka 'struct _IO_FILE *') to parameter of type 'const char *' [-Wincompatible-pointer-types] 564 | REprintf(out_fp, "\tNA"); | ^~~~~~ /home/hornik/tmp/R-d-clang-21/include/R_ext/Print.h:65:27: note: passing argument to parameter here 65 | void REprintf(const char *, ...) R_PRINTF_FORMAT(1, 2); | ^ summary.c:567:14: warning: incompatible pointer types passing 'FILE *' (aka 'struct _IO_FILE *') to parameter of type 'const char *' [-Wincompatible-pointer-types] 567 | REprintf(out_fp, "\n"); | ^~~~~~ /home/hornik/tmp/R-d-clang-21/include/R_ext/Print.h:65:27: note: passing argument to parameter here 65 | void REprintf(const char *, ...) R_PRINTF_FORMAT(1, 2); | ^ summary.c:752:14: warning: incompatible pointer types passing 'FILE *' (aka 'struct _IO_FILE *') to parameter of type 'const char *' [-Wincompatible-pointer-types] 752 | REprintf(out_fp, "QFile\tQuery\tMFile\tMask\tN_univ\tN_query\tN_mask\tN_overlap\tLog2OddsRatio\tBeta\tDepth\n"); | ^~~~~~ /home/hornik/tmp/R-d-clang-21/include/R_ext/Print.h:65:27: note: passing argument to parameter here 65 | void REprintf(const char *, ...) R_PRINTF_FORMAT(1, 2); | ^ summary.c:800:12: warning: incompatible pointer types passing 'FILE *' (aka 'struct _IO_FILE *') to parameter of type 'const char *' [-Wincompatible-pointer-types] 800 | REprintf(fp, "QFile\tQuery\tMFile\tMask\tN_univ\tN_query\tN_mask\tN_overlap\tLog2OddsRatio\tBeta\tDepth\n"); | ^~ /home/hornik/tmp/R-d-clang-21/include/R_ext/Print.h:65:27: note: passing argument to parameter here 65 | void REprintf(const char *, ...) R_PRINTF_FORMAT(1, 2); | ^ 8 warnings generated. clang-21 -std=gnu23 -shared -L/home/hornik/tmp/R-d-clang-21/lib -Wl,-O1 -o MethScope.so bgzf.o cfile.o decompress.o format.o format2.o format3.o format6.o format7.o index.o init.o kstring.o summary.o -lncurses -lz -lm -L/home/hornik/tmp/R-d-clang-21/lib -lR installing to /srv/hornik/tmp/CRAN_pretest/MethScope.Rcheck/00LOCK-MethScope/00new/MethScope/libs ** R ** 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 (MethScope)