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### Running command:
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###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL oligo
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* installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’
* installing *source* package ‘oligo’ ...
** this is package ‘oligo’ version ‘1.73.0’
** using staged installation
creating cache ./config.cache
checking how to run the C preprocessor... gcc -std=gnu2x -E
checking for main in -lz... yes
checking for zlib.h... yes
checking if zlib version >= 1.1.3... yes
updating cache ./config.cache
creating ./config.status
creating src/Makevars
** libs
using C compiler: ‘gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
gcc -std=gnu2x -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -DHAVE_ZLIB=1  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/preprocessCore/include' -I/usr/local/include   -g -O2 -Wall -Werror=format-security -fpic  -g -O2  -Wall -Werror=format-security -c DABG.c -o DABG.o
gcc -std=gnu2x -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -DHAVE_ZLIB=1  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/preprocessCore/include' -I/usr/local/include   -g -O2 -Wall -Werror=format-security -fpic  -g -O2  -Wall -Werror=format-security -c ParserGzXYS.c -o ParserGzXYS.o
gcc -std=gnu2x -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -DHAVE_ZLIB=1  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/preprocessCore/include' -I/usr/local/include   -g -O2 -Wall -Werror=format-security -fpic  -g -O2  -Wall -Werror=format-security -c ParserXYS.c -o ParserXYS.o
gcc -std=gnu2x -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -DHAVE_ZLIB=1  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/preprocessCore/include' -I/usr/local/include   -g -O2 -Wall -Werror=format-security -fpic  -g -O2  -Wall -Werror=format-security -c baseProfile.c -o baseProfile.o
gcc -std=gnu2x -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -DHAVE_ZLIB=1  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/preprocessCore/include' -I/usr/local/include   -g -O2 -Wall -Werror=format-security -fpic  -g -O2  -Wall -Werror=format-security -c basecontent.c -o basecontent.o
gcc -std=gnu2x -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -DHAVE_ZLIB=1  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/preprocessCore/include' -I/usr/local/include   -g -O2 -Wall -Werror=format-security -fpic  -g -O2  -Wall -Werror=format-security -c chipbackground.c -o chipbackground.o
gcc -std=gnu2x -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -DHAVE_ZLIB=1  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/preprocessCore/include' -I/usr/local/include   -g -O2 -Wall -Werror=format-security -fpic  -g -O2  -Wall -Werror=format-security -c mas5calls.c -o mas5calls.o
gcc -std=gnu2x -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -DHAVE_ZLIB=1  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/preprocessCore/include' -I/usr/local/include   -g -O2 -Wall -Werror=format-security -fpic  -g -O2  -Wall -Werror=format-security -c rma2.c -o rma2.o
gcc -std=gnu2x -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -DHAVE_ZLIB=1  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/preprocessCore/include' -I/usr/local/include   -g -O2 -Wall -Werror=format-security -fpic  -g -O2  -Wall -Werror=format-security -c rma_common.c -o rma_common.o
gcc -std=gnu2x -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -DHAVE_ZLIB=1  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/preprocessCore/include' -I/usr/local/include   -g -O2 -Wall -Werror=format-security -fpic  -g -O2  -Wall -Werror=format-security -c trimmed.c -o trimmed.o
gcc -std=gnu2x -shared -L/home/biocbuild/bbs-3.22-bioc/R/lib -L/usr/local/lib -o oligo.so DABG.o ParserGzXYS.o ParserXYS.o baseProfile.o basecontent.o chipbackground.o mas5calls.o rma2.o rma_common.o trimmed.o -lz -L/home/biocbuild/bbs-3.22-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.22-bioc/R/site-library/00LOCK-oligo/00new/oligo/libs
** R
** inst
** byte-compile and prepare package for lazy loading
Note: in method for ‘pm<-’ with signature
‘object="TilingFeatureSet",subset="ANY",target="ANY",value="array"’:
expanding the signature to include omitted arguments in definition:
subset = "missing", target = "missing"
Note: in method for ‘mm<-’ with signature
‘object="TilingFeatureSet",subset="ANY",target="ANY",value="array"’:
expanding the signature to include omitted arguments in definition:
subset = "missing", target = "missing"
** 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 (oligo)