* installing *source* package ‘CASMAP’ ... ** this is package ‘CASMAP’ version ‘0.6.1’ ** package ‘CASMAP’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘clang version 20.1.0-rc2’ using C++11 make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/CASMAP/src' /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c ArrayFile.cpp -o ArrayFile.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c CumulativeTimeMeasurement.cpp -o CumulativeTimeMeasurement.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c Exception.cpp -o Exception.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c FeatureSet.cpp -o FeatureSet.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c FilterIntervals.cpp -o FilterIntervals.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c Genotype.cpp -o Genotype.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c PValues.cpp -o PValues.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c Phenotype.cpp -o Phenotype.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c Profiler.cpp -o Profiler.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c RcppExports.cpp -o RcppExports.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c SignificantFeaturesSearch.cpp -o SignificantFeaturesSearch.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c SignificantFeaturesSearchTaroneCmh.cpp -o SignificantFeaturesSearchTaroneCmh.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c SignificantFeaturesSearchWithCovariates.cpp -o SignificantFeaturesSearchWithCovariates.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c SignificantIntervalSearch.cpp -o SignificantIntervalSearch.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c SignificantIntervalSearchChi.cpp -o SignificantIntervalSearchChi.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c SignificantIntervalSearchExact.cpp -o SignificantIntervalSearchExact.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c SignificantIntervalSearchFais.cpp -o SignificantIntervalSearchFais.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c SignificantIntervalSearchFastCmh.cpp -o SignificantIntervalSearchFastCmh.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c SignificantItemsetSearch.cpp -o SignificantItemsetSearch.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c SignificantItemsetSearchFacs.cpp -o SignificantItemsetSearchFacs.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c Summary.cpp -o Summary.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c TransactionsData.cpp -o TransactionsData.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c double_comp.cpp -o double_comp.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c gamma.cpp -o gamma.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c pval.cpp -o pval.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang20/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c sigpatsearch.cpp -o sigpatsearch.o /usr/local/clang20/bin/clang++ -stdlib=libc++ -std=gnu++11 -shared -L/usr/local/clang/lib64 -L/usr/local/clang20/lib -L/usr/local/clang20/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o CASMAP.so ArrayFile.o CumulativeTimeMeasurement.o Exception.o FeatureSet.o FilterIntervals.o Genotype.o PValues.o Phenotype.o Profiler.o RcppExports.o SignificantFeaturesSearch.o SignificantFeaturesSearchTaroneCmh.o SignificantFeaturesSearchWithCovariates.o SignificantIntervalSearch.o SignificantIntervalSearchChi.o SignificantIntervalSearchExact.o SignificantIntervalSearchFais.o SignificantIntervalSearchFastCmh.o SignificantItemsetSearch.o SignificantItemsetSearchFacs.o Summary.o TransactionsData.o double_comp.o gamma.o pval.o sigpatsearch.o make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/CASMAP/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/CASMAP/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/CASMAP/src' installing to /data/gannet/ripley/R/packages/tests-clang/CASMAP.Rcheck/00LOCK-CASMAP/00new/CASMAP/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 (CASMAP)