* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’
* installing *source* package ‘hipread’ ...
** package ‘hipread’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.2.0-8) 14.2.0’
make[1]: Entering directory '/tmp/RtmpCTbyUe/R.INSTALL1c6c731d706293/hipread/src'
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/deprecated_macros.hpp:8,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/sp_counted_base.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/shared_count.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/shared_ptr.hpp:17,
from boost.h:12,
from datasource.h:8,
from hipread_types.h:4,
from RcppExports.cpp:4:
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/detail/atomic_count.hpp:10:1: note: ‘#pragma message: This header is deprecated. Use <boost/smart_ptr/detail/atomic_count.hpp> instead.’
10 | BOOST_HEADER_DEPRECATED("<boost/smart_ptr/detail/atomic_count.hpp>")
| ^~~~~~~~~~~~~~~~~~~~~~~
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c column.cpp -o column.o
In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/deprecated_macros.hpp:8,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/sp_counted_base.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/shared_count.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/shared_ptr.hpp:17,
from boost.h:12,
from column.h:6,
from column.cpp:4:
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/detail/atomic_count.hpp:10:1: note: ‘#pragma message: This header is deprecated. Use <boost/smart_ptr/detail/atomic_count.hpp> instead.’
10 | BOOST_HEADER_DEPRECATED("<boost/smart_ptr/detail/atomic_count.hpp>")
| ^~~~~~~~~~~~~~~~~~~~~~~
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c datasource.cpp -o datasource.o
In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/deprecated_macros.hpp:8,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/sp_counted_base.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/shared_count.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/shared_ptr.hpp:17,
from boost.h:12,
from datasource.cpp:7:
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/detail/atomic_count.hpp:10:1: note: ‘#pragma message: This header is deprecated. Use <boost/smart_ptr/detail/atomic_count.hpp> instead.’
10 | BOOST_HEADER_DEPRECATED("<boost/smart_ptr/detail/atomic_count.hpp>")
| ^~~~~~~~~~~~~~~~~~~~~~~
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gzstream.cpp -o gzstream.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c iconv.cpp -o iconv.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c read_chunked.cpp -o read_chunked.o
In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/deprecated_macros.hpp:8,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/sp_counted_base.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/shared_count.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/shared_ptr.hpp:17,
from boost.h:12,
from column.h:6,
from read_chunked.cpp:2:
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/detail/atomic_count.hpp:10:1: note: ‘#pragma message: This header is deprecated. Use <boost/smart_ptr/detail/atomic_count.hpp> instead.’
10 | BOOST_HEADER_DEPRECATED("<boost/smart_ptr/detail/atomic_count.hpp>")
| ^~~~~~~~~~~~~~~~~~~~~~~
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c read_freqs.cpp -o read_freqs.o
In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/deprecated_macros.hpp:8,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/sp_counted_base.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/shared_count.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/shared_ptr.hpp:17,
from boost.h:12,
from column.h:6,
from read_freqs.cpp:2:
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/detail/atomic_count.hpp:10:1: note: ‘#pragma message: This header is deprecated. Use <boost/smart_ptr/detail/atomic_count.hpp> instead.’
10 | BOOST_HEADER_DEPRECATED("<boost/smart_ptr/detail/atomic_count.hpp>")
| ^~~~~~~~~~~~~~~~~~~~~~~
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c read_full.cpp -o read_full.o
In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/deprecated_macros.hpp:8,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/sp_counted_base.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/shared_count.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/shared_ptr.hpp:17,
from boost.h:12,
from column.h:6,
from read_full.cpp:2:
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/detail/atomic_count.hpp:10:1: note: ‘#pragma message: This header is deprecated. Use <boost/smart_ptr/detail/atomic_count.hpp> instead.’
10 | BOOST_HEADER_DEPRECATED("<boost/smart_ptr/detail/atomic_count.hpp>")
| ^~~~~~~~~~~~~~~~~~~~~~~
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c read_yield.cpp -o read_yield.o
In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/deprecated_macros.hpp:8,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/sp_counted_base.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/detail/shared_count.hpp:22,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/smart_ptr/shared_ptr.hpp:17,
from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/shared_ptr.hpp:17,
from boost.h:12,
from column.h:6,
from read_yield.cpp:2:
/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include/boost/detail/atomic_count.hpp:10:1: note: ‘#pragma message: This header is deprecated. Use <boost/smart_ptr/detail/atomic_count.hpp> instead.’
10 | BOOST_HEADER_DEPRECATED("<boost/smart_ptr/detail/atomic_count.hpp>")
| ^~~~~~~~~~~~~~~~~~~~~~~
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c rtinfo.cpp -o rtinfo.o
g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c varinfo.cpp -o varinfo.o
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o hipread.so RcppExports.o column.o datasource.o gzstream.o iconv.o read_chunked.o read_freqs.o read_full.o read_yield.o rtinfo.o varinfo.o -lz -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpCTbyUe/R.INSTALL1c6c731d706293/hipread/src'
make[1]: Entering directory '/tmp/RtmpCTbyUe/R.INSTALL1c6c731d706293/hipread/src'
make[1]: Leaving directory '/tmp/RtmpCTbyUe/R.INSTALL1c6c731d706293/hipread/src'
installing to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-hipread/00new/hipread/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (hipread)