############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL motifcounter ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4.2/site-library’ * installing *source* package ‘motifcounter’ ... ** using staged installation ** libs using C compiler: ‘aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0’ /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c Rbackground.c -o Rbackground.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c Rcombinatorial.c -o Rcombinatorial.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c Rcompoundpoisson.c -o Rcompoundpoisson.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c Rminmaxscore.c -o Rminmaxscore.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c Roption.c -o Roption.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c Roverlap.c -o Roverlap.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c Rscore1d.c -o Rscore1d.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c Rsequence.c -o Rsequence.o Rsequence.c: In function ‘RscoreHistogram’: Rsequence.c:143:21: warning: unused variable ‘noscores’ [-Wunused-variable] 143 | int mins, maxs, noscores; | ^~~~~~~~ /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c Rsimulate.c -o Rsimulate.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c background.c -o background.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c combinatorial.c -o combinatorial.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c compoundpoisson.c -o compoundpoisson.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c markovchain.c -o markovchain.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c markovchain_single.c -o markovchain_single.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c matrix.c -o matrix.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c mdist_register.c -o mdist_register.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c minmaxscore.c -o minmaxscore.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c overlap.c -o overlap.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c score1d.c -o score1d.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c score2d.c -o score2d.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c scorefunctions.c -o scorefunctions.o scorefunctions.c: In function ‘getPositionWeights’: scorefunctions.c:84:22: warning: unused variable ‘cindex’ [-Wunused-variable] 84 | int j, i, index, cindex, ds; | ^~~~~~ scorefunctions.c: In function ‘hitSequence’: scorefunctions.c:119:17: warning: unused variable ‘cindex’ [-Wunused-variable] 119 | int s, index, cindex; | ^~~~~~ scorefunctions.c: In function ‘scoreSequence’: scorefunctions.c:159:19: warning: unused variable ‘cindex’ [-Wunused-variable] 159 | int s, index, cindex; | ^~~~~~ /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c sequence.c -o sequence.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -Werror=format-security -c simulate.c -o simulate.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -shared -L/home/biocbuild/R/R/lib -L/usr/local/lib -o motifcounter.so Rbackground.o Rcombinatorial.o Rcompoundpoisson.o Rminmaxscore.o Roption.o Roverlap.o Rscore1d.o Rsequence.o Rsimulate.o background.o combinatorial.o compoundpoisson.o markovchain.o markovchain_single.o matrix.o mdist_register.o minmaxscore.o overlap.o score1d.o score2d.o scorefunctions.o sequence.o simulate.o -fopenmp -L/home/biocbuild/R/R/lib -lR installing to /home/biocbuild/R/R-4.4.2/site-library/00LOCK-motifcounter/00new/motifcounter/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 (motifcounter)