downloading reverse dependencies ‘debar’, ‘insect’ trying URL 'file:///data/Repositories/CRAN/src/contrib/debar_0.1.1.tar.gz' trying URL 'file:///data/Repositories/CRAN/src/contrib/insect_1.4.4.tar.gz' installing dependencies ‘aphid’, ‘kmer’, ‘phylogram’ begin installing package ‘phylogram’ * installing *source* package ‘phylogram’ ... ** this is package ‘phylogram’ version ‘2.1.0’ ** package ‘phylogram’ successfully unpacked and MD5 sums checked ** using staged installation ** 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 (phylogram) begin installing package ‘kmer’ * installing *source* package ‘kmer’ ... ** this is package ‘kmer’ version ‘1.1.2’ ** package ‘kmer’ successfully unpacked and MD5 sums checked ** using staged installation ** libs specified C++11 using C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp9za8YK/R.INSTALL62c9f53ff0405/kmer/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c distance.cpp -o distance.o distance.cpp: In function ‘Rcpp::NumericMatrix kcountDNA(Rcpp::List, int)’: distance.cpp:10:6: warning: unnecessary parentheses in declaration of ‘fourtopowerk’ [-Wparentheses] 10 | int(fourtopowerk) = 1; | ^~~~~~~~~~~~~~ distance.cpp:10:6: note: remove parentheses 10 | int(fourtopowerk) = 1; | ^~~~~~~~~~~~~~ | - - g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o kmer.so RcppExports.o distance.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp9za8YK/R.INSTALL62c9f53ff0405/kmer/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-kmer/00new/kmer/libs ** 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 ** 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 (kmer) begin installing package ‘aphid’ * installing *source* package ‘aphid’ ... ** this is package ‘aphid’ version ‘1.3.6’ ** using staged installation ** libs using C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpdvs6kw/R.INSTALL62cf32a1970d6/aphid/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ViterbiC.cpp -o ViterbiC.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c init.cpp -o init.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c map.cpp -o map.o map.cpp: In function ‘Rcpp::LogicalVector map(Rcpp::NumericMatrix, Rcpp::LogicalMatrix, Rcpp::List, Rcpp::NumericVector, Rcpp::NumericVector, double)’: map.cpp:52:25: warning: suggest parentheses around operand of ‘!’ or change ‘&’ to ‘&&’ or ‘!’ to ‘~’ [-Wparentheses] 52 | tcounts(_, 0) = !notgaps(_, i) & !notgaps(_, j) & zeroinserts; | ^~~~~~~~~~~~~~ map.cpp:53:25: warning: suggest parentheses around operand of ‘!’ or change ‘&’ to ‘&&’ or ‘!’ to ‘~’ [-Wparentheses] 53 | tcounts(_, 1) = !notgaps(_, i) & notgaps(_, j) & zeroinserts; | ^~~~~~~~~~~~~~ map.cpp:54:25: warning: suggest parentheses around operand of ‘!’ or change ‘&’ to ‘&&’ or ‘!’ to ‘~’ [-Wparentheses] 54 | tcounts(_, 2) = !notgaps(_, i) & !zeroinserts; | ^~~~~~~~~~~~~~ map.cpp:58:25: warning: suggest parentheses around operand of ‘!’ or change ‘&’ to ‘&&’ or ‘!’ to ‘~’ [-Wparentheses] 58 | tcounts(_, 6) = !notgaps(_, j) & !zeroinserts; | ^~~~~~~~~~~~~~ map.cpp:71:25: warning: suggest parentheses around operand of ‘!’ or change ‘&’ to ‘&&’ or ‘!’ to ‘~’ [-Wparentheses] 71 | tcounts(_, 0) = !notgaps(_, i) & !notgaps(_, j); //DD | ^~~~~~~~~~~~~~ map.cpp:72:25: warning: suggest parentheses around operand of ‘!’ or change ‘&’ to ‘&&’ or ‘!’ to ‘~’ [-Wparentheses] 72 | tcounts(_, 1) = !notgaps(_, i) & notgaps(_, j); //DM | ^~~~~~~~~~~~~~ g++-15 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c utils.cpp -o utils.o g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o aphid.so RcppExports.o ViterbiC.o init.o map.o utils.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpdvs6kw/R.INSTALL62cf32a1970d6/aphid/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-aphid/00new/aphid/libs ** R ** data *** moving datasets to lazyload DB ** 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 ** 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 (aphid) checking aphid_1.3.6.tar.gz ... checking debar_0.1.1.tar.gz ... checking insect_1.4.4.tar.gz ... Depends: Package: aphid Depends: R(>= 3.0.0) Imports: graphics, openssl, kmer (>= 1.0.0), qpdf, Rcpp (>= 0.12.5), stats LinkingTo: Rcpp Timings: user system elapsed aphid 71.367 5.847 80.289 Results: Check status summary: OK Source packages 1 Reverse depends 2 Check results summary: aphid ... OK rdepends_debar ... OK rdepends_insect ... OK Check results changes: Package: debar Check: CRAN incoming feasibility Old result: NOTE