* installing *source* package ‘filearray’ ...
** package ‘filearray’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (GCC) 14.2.0’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/filearray/src'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -DR_NO_REMAP -c collapse.cpp -o collapse.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -DR_NO_REMAP -c conversion.cpp -o conversion.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -DR_NO_REMAP -c core.cpp -o core.o
conversion.cpp: In function 'SEXPREC* convert_as2(SEXP, SEXP, SEXPTYPE)':
conversion.cpp:293:19: warning: comparison of integer expressions of different signedness: 'int' and 'SEXPTYPE' {aka 'unsigned int'} [-Wsign-compare]
293 | if( TYPEOF(y) != type ){
| ~~~~~~~~~~^~~~~~~
conversion.cpp: In function 'void realToFloat(double*, float*, size_t)':
conversion.cpp:405:29: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'size_t' {aka 'long unsigned int'} [-Wsign-compare]
405 | for(R_xlen_t ii = 0; ii < nelem; ii++, x++, y++){
| ~~~^~~~~~~
conversion.cpp: In function 'void floatToReal(float*, double*, size_t)':
conversion.cpp:415:29: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'size_t' {aka 'long unsigned int'} [-Wsign-compare]
415 | for(R_xlen_t ii = 0; ii < nelem; ii++, y++, x++){
| ~~~^~~~~~~
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -DR_NO_REMAP -c interfaces.cpp -o interfaces.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -DR_NO_REMAP -c load.cpp -o load.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -DR_NO_REMAP -c map.cpp -o map.o
load.cpp: In function 'SEXPREC* FARR_subset_sequential(const std::string&, const int64_t&, SEXP, SEXPTYPE, SEXP, int64_t, int64_t)':
load.cpp:66:21: warning: comparison of integer expressions of different signedness: 'int' and 'SEXPTYPE' {aka 'unsigned int'} [-Wsign-compare]
66 | if( TYPEOF(ret) != array_memory_sxptype(array_type) ){
| ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -DR_NO_REMAP -c mapreduce.cpp -o mapreduce.o
load.cpp: In instantiation of 'void FARRSubsetter<T, B>::operator_mmap(std::size_t, std::size_t) [with T = Rcomplex; B = double; std::size_t = long unsigned int]':
load.cpp:543:19: required from 'void FARRSubsetter<T, B>::operator()(std::size_t, std::size_t) [with T = Rcomplex; B = double; std::size_t = long unsigned int]'
543 | this->operator_mmap(begin, end);
| ~~~~~~^~~~~~~~~~~~~
load.cpp:540:10: required from here
540 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
load.cpp:342:37: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
342 | for(R_xlen_t ii = begin; ii < end; ii++){
| ~~~^~~~~
load.cpp: In instantiation of 'void FARRSubsetter<T, B>::operator_fread(std::size_t, std::size_t) [with T = Rcomplex; B = double; std::size_t = long unsigned int]':
load.cpp:545:19: required from 'void FARRSubsetter<T, B>::operator()(std::size_t, std::size_t) [with T = Rcomplex; B = double; std::size_t = long unsigned int]'
545 | this->operator_fread(begin, end);
| ~~~~~~^~~~~~~~~~~~~~
load.cpp:540:10: required from here
540 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
load.cpp:443:37: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
443 | for(R_xlen_t ii = begin; ii < end; ii++){
| ~~~^~~~~
load.cpp: In instantiation of 'void FARRSubsetter<T, B>::operator_mmap(std::size_t, std::size_t) [with T = int; B = unsigned char; std::size_t = long unsigned int]':
load.cpp:543:19: required from 'void FARRSubsetter<T, B>::operator()(std::size_t, std::size_t) [with T = int; B = unsigned char; std::size_t = long unsigned int]'
543 | this->operator_mmap(begin, end);
| ~~~~~~^~~~~~~~~~~~~
load.cpp:540:10: required from here
540 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
load.cpp:342:37: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
342 | for(R_xlen_t ii = begin; ii < end; ii++){
| ~~~^~~~~
load.cpp: In instantiation of 'void FARRSubsetter<T, B>::operator_fread(std::size_t, std::size_t) [with T = int; B = unsigned char; std::size_t = long unsigned int]':
load.cpp:545:19: required from 'void FARRSubsetter<T, B>::operator()(std::size_t, std::size_t) [with T = int; B = unsigned char; std::size_t = long unsigned int]'
545 | this->operator_fread(begin, end);
| ~~~~~~^~~~~~~~~~~~~~
load.cpp:540:10: required from here
540 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
load.cpp:443:37: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
443 | for(R_xlen_t ii = begin; ii < end; ii++){
| ~~~^~~~~
load.cpp: In instantiation of 'void FARRSubsetter<T, B>::operator_mmap(std::size_t, std::size_t) [with T = unsigned char; B = unsigned char; std::size_t = long unsigned int]':
load.cpp:543:19: required from 'void FARRSubsetter<T, B>::operator()(std::size_t, std::size_t) [with T = unsigned char; B = unsigned char; std::size_t = long unsigned int]'
543 | this->operator_mmap(begin, end);
| ~~~~~~^~~~~~~~~~~~~
load.cpp:540:10: required from here
540 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
load.cpp:342:37: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
342 | for(R_xlen_t ii = begin; ii < end; ii++){
| ~~~^~~~~
load.cpp: In instantiation of 'void FARRSubsetter<T, B>::operator_fread(std::size_t, std::size_t) [with T = unsigned char; B = unsigned char; std::size_t = long unsigned int]':
load.cpp:545:19: required from 'void FARRSubsetter<T, B>::operator()(std::size_t, std::size_t) [with T = unsigned char; B = unsigned char; std::size_t = long unsigned int]'
545 | this->operator_fread(begin, end);
| ~~~~~~^~~~~~~~~~~~~~
load.cpp:540:10: required from here
540 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
load.cpp:443:37: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
443 | for(R_xlen_t ii = begin; ii < end; ii++){
| ~~~^~~~~
load.cpp: In instantiation of 'void FARRSubsetter<T, B>::operator_mmap(std::size_t, std::size_t) [with T = double; B = float; std::size_t = long unsigned int]':
load.cpp:543:19: required from 'void FARRSubsetter<T, B>::operator()(std::size_t, std::size_t) [with T = double; B = float; std::size_t = long unsigned int]'
543 | this->operator_mmap(begin, end);
| ~~~~~~^~~~~~~~~~~~~
load.cpp:540:10: required from here
540 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
load.cpp:342:37: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
342 | for(R_xlen_t ii = begin; ii < end; ii++){
| ~~~^~~~~
load.cpp: In instantiation of 'void FARRSubsetter<T, B>::operator_fread(std::size_t, std::size_t) [with T = double; B = float; std::size_t = long unsigned int]':
load.cpp:545:19: required from 'void FARRSubsetter<T, B>::operator()(std::size_t, std::size_t) [with T = double; B = float; std::size_t = long unsigned int]'
545 | this->operator_fread(begin, end);
| ~~~~~~^~~~~~~~~~~~~~
load.cpp:540:10: required from here
540 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
load.cpp:443:37: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
443 | for(R_xlen_t ii = begin; ii < end; ii++){
| ~~~^~~~~
load.cpp: In instantiation of 'void FARRSubsetter<T, B>::operator_mmap(std::size_t, std::size_t) [with T = double; B = double; std::size_t = long unsigned int]':
load.cpp:543:19: required from 'void FARRSubsetter<T, B>::operator()(std::size_t, std::size_t) [with T = double; B = double; std::size_t = long unsigned int]'
543 | this->operator_mmap(begin, end);
| ~~~~~~^~~~~~~~~~~~~
load.cpp:540:10: required from here
540 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
load.cpp:342:37: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
342 | for(R_xlen_t ii = begin; ii < end; ii++){
| ~~~^~~~~
load.cpp: In instantiation of 'void FARRSubsetter<T, B>::operator_fread(std::size_t, std::size_t) [with T = double; B = double; std::size_t = long unsigned int]':
load.cpp:545:19: required from 'void FARRSubsetter<T, B>::operator()(std::size_t, std::size_t) [with T = double; B = double; std::size_t = long unsigned int]'
545 | this->operator_fread(begin, end);
| ~~~~~~^~~~~~~~~~~~~~
load.cpp:540:10: required from here
540 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
load.cpp:443:37: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
443 | for(R_xlen_t ii = begin; ii < end; ii++){
| ~~~^~~~~
load.cpp: In instantiation of 'void FARRSubsetter<T, B>::operator_mmap(std::size_t, std::size_t) [with T = int; B = int; std::size_t = long unsigned int]':
load.cpp:543:19: required from 'void FARRSubsetter<T, B>::operator()(std::size_t, std::size_t) [with T = int; B = int; std::size_t = long unsigned int]'
543 | this->operator_mmap(begin, end);
| ~~~~~~^~~~~~~~~~~~~
load.cpp:540:10: required from here
540 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
load.cpp:342:37: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
342 | for(R_xlen_t ii = begin; ii < end; ii++){
| ~~~^~~~~
load.cpp: In instantiation of 'void FARRSubsetter<T, B>::operator_fread(std::size_t, std::size_t) [with T = int; B = int; std::size_t = long unsigned int]':
load.cpp:545:19: required from 'void FARRSubsetter<T, B>::operator()(std::size_t, std::size_t) [with T = int; B = int; std::size_t = long unsigned int]'
545 | this->operator_fread(begin, end);
| ~~~~~~^~~~~~~~~~~~~~
load.cpp:540:10: required from here
540 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
load.cpp:443:37: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
443 | for(R_xlen_t ii = begin; ii < end; ii++){
| ~~~^~~~~
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -DR_NO_REMAP -c save.cpp -o save.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -DR_NO_REMAP -c serialize.cpp -o serialize.o
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -DR_NO_REMAP -c threadSettings.cpp -o threadSettings.o
save.cpp: In instantiation of 'void FARRAssigner<T>::operator()(std::size_t, std::size_t) [with T = unsigned char; std::size_t = long unsigned int]':
save.cpp:358:10: required from here
358 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
save.cpp:364:41: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
364 | for(R_xlen_t iter = begin; iter < end; iter++){
| ~~~~~^~~~~
save.cpp: In instantiation of 'void FARRAssigner<T>::operator()(std::size_t, std::size_t) [with T = float; std::size_t = long unsigned int]':
save.cpp:358:10: required from here
358 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
save.cpp:364:41: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
364 | for(R_xlen_t iter = begin; iter < end; iter++){
| ~~~~~^~~~~
save.cpp: In instantiation of 'void FARRAssigner<T>::operator()(std::size_t, std::size_t) [with T = double; std::size_t = long unsigned int]':
save.cpp:358:10: required from here
358 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
save.cpp:364:41: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
364 | for(R_xlen_t iter = begin; iter < end; iter++){
| ~~~~~^~~~~
save.cpp: In instantiation of 'void FARRAssigner<T>::operator()(std::size_t, std::size_t) [with T = int; std::size_t = long unsigned int]':
save.cpp:358:10: required from here
358 | void operator()(std::size_t begin, std::size_t end) {
| ^~~~~~~~
save.cpp:364:41: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
364 | for(R_xlen_t iter = begin; iter < end; iter++){
| ~~~~~^~~~~
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -DR_NO_REMAP -c utils.cpp -o utils.o
utils.cpp: In function 'void set_buffer(SEXP, int, size_t, int)':
utils.cpp:42:23: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare]
42 | if( buf_bytes > buffer_bytes ){
| ~~~~~~~~~~^~~~~~~~~~~~~~
g++-14 -std=gnu++17 -shared -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o filearray.so RcppExports.o collapse.o conversion.o core.o interfaces.o load.o map.o mapreduce.o save.o serialize.o threadSettings.o utils.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/filearray/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/filearray/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/filearray/src'
installing to /data/gannet/ripley/R/packages/tests-devel/filearray.Rcheck/00LOCK-filearray/00new/filearray/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 (filearray)