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###
### Running command:
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### F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL garfield
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* installing to library 'F:/biocbuild/bbs-3.19-bioc/R/library'
* installing *source* package 'garfield' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 13.2.0'
using C++ compiler: 'G__~1.EXE (GCC) 13.2.0'
gcc -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c garfield_init.c -o garfield_init.o
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c garfield_perm.cpp -o garfield_perm.o
garfield_perm.cpp: In function 'void batchfeep(std::vector<std::vector<double> >&, std::vector<std::vector<double> >&, const std::vector<bin>&, const std::vector<double>&, int, int, bool, int, double, int, std::vector<bool>)':
garfield_perm.cpp:306:29: warning: format '%s' expects argument of type 'char*', but argument 2 has type 'long int' [-Wformat=]
306 | Rprintf("\r%s/%s\t\t%s\%\t\t%s annotations/s\t\t Time remaining: %s s",j+1,nannot, 100.0 * (j+1) / nannot, nannot,1.0 * (nannot - (j+1)) / perms_per_sec );
| ~^ ~~~
| | |
| char* long int
| %ld
garfield_perm.cpp:306:32: warning: format '%s' expects argument of type 'char*', but argument 3 has type 'int' [-Wformat=]
306 | Rprintf("\r%s/%s\t\t%s\%\t\t%s annotations/s\t\t Time remaining: %s s",j+1,nannot, 100.0 * (j+1) / nannot, nannot,1.0 * (nannot - (j+1)) / perms_per_sec );
| ~^ ~~~~~~
| | |
| char* int
| %d
garfield_perm.cpp:306:38: warning: format '%s' expects argument of type 'char*', but argument 4 has type 'double' [-Wformat=]
306 | Rprintf("\r%s/%s\t\t%s\%\t\t%s annotations/s\t\t Time remaining: %s s",j+1,nannot, 100.0 * (j+1) / nannot, nannot,1.0 * (nannot - (j+1)) / perms_per_sec );
| ~^ ~~~~~~~~~~~~~~~~~~~~~~
| | |
| char* double
| %f
garfield_perm.cpp:306:41: warning: unknown conversion type character '\x09' in format [-Wformat=]
306 | Rprintf("\r%s/%s\t\t%s\%\t\t%s annotations/s\t\t Time remaining: %s s",j+1,nannot, 100.0 * (j+1) / nannot, nannot,1.0 * (nannot - (j+1)) / perms_per_sec );
| ^~
garfield_perm.cpp:306:46: warning: format '%s' expects argument of type 'char*', but argument 5 has type 'int' [-Wformat=]
306 | Rprintf("\r%s/%s\t\t%s\%\t\t%s annotations/s\t\t Time remaining: %s s",j+1,nannot, 100.0 * (j+1) / nannot, nannot,1.0 * (nannot - (j+1)) / perms_per_sec );
| ~^ ~~~~~~
| | |
| char* int
| %d
garfield_perm.cpp:306:83: warning: format '%s' expects argument of type 'char*', but argument 6 has type 'double' [-Wformat=]
306 | Rprintf("\r%s/%s\t\t%s\%\t\t%s annotations/s\t\t Time remaining: %s s",j+1,nannot, 100.0 * (j+1) / nannot, nannot,1.0 * (nannot - (j+1)) / perms_per_sec );
| ~^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| | |
| char* double
| %f
garfield_perm.cpp: In function 'int garfield_perm(char**, char**, char**, char**, char**, char**, char**, char**, char**, char**, char**, char**, char**)':
garfield_perm.cpp:356:27: warning: format '%s' expects argument of type 'char*', but argument 2 has type 'int' [-Wformat=]
356 | Rprintf("%s",nannot);
| ~^ ~~~~~~
| | |
| | int
| char*
| %d
g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c garfield_prep.cpp -o garfield_prep.o
garfield_prep.cpp:144:28: warning: 'template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator' is deprecated [-Wdeprecated-declarations]
144 | struct Enumerator : public iterator<input_iterator_tag, typename Iterator::value_type> {
| ^~~~~~~~
In file included from C:/rtools44/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/13.2.0/include/c++/bits/stl_algobase.h:65,
from C:/rtools44/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/13.2.0/include/c++/algorithm:60,
from garfield_prep.cpp:19:
C:/rtools44/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/13.2.0/include/c++/bits/stl_iterator_base_types.h:127:34: note: declared here
127 | struct _GLIBCXX17_DEPRECATED iterator
| ^~~~~~~~
garfield_prep.cpp:225:37: warning: 'template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator' is deprecated [-Wdeprecated-declarations]
225 | struct TagsOutputIterator1 : public iterator<output_iterator_tag,void,void,void,void> {
| ^~~~~~~~
C:/rtools44/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/13.2.0/include/c++/bits/stl_iterator_base_types.h:127:34: note: declared here
127 | struct _GLIBCXX17_DEPRECATED iterator
| ^~~~~~~~
garfield_prep.cpp:234:37: warning: 'template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator' is deprecated [-Wdeprecated-declarations]
234 | struct TagsOutputIterator2 : public iterator<output_iterator_tag,void,void,void,void> {
| ^~~~~~~~
C:/rtools44/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/13.2.0/include/c++/bits/stl_iterator_base_types.h:127:34: note: declared here
127 | struct _GLIBCXX17_DEPRECATED iterator
| ^~~~~~~~
garfield_prep.cpp:245:38: warning: 'template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator' is deprecated [-Wdeprecated-declarations]
245 | struct TagRefOutputIterator : public iterator<output_iterator_tag,void,void,void,void> {
| ^~~~~~~~
C:/rtools44/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/13.2.0/include/c++/bits/stl_iterator_base_types.h:127:34: note: declared here
127 | struct _GLIBCXX17_DEPRECATED iterator
| ^~~~~~~~
garfield_prep.cpp:273:37: warning: 'template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator' is deprecated [-Wdeprecated-declarations]
273 | struct PrintOutputIterator : public iterator<output_iterator_tag,void,void,void,void> {
| ^~~~~~~~
C:/rtools44/x86_64-w64-mingw32.static.posix/lib/gcc/x86_64-w64-mingw32.static.posix/13.2.0/include/c++/bits/stl_iterator_base_types.h:127:34: note: declared here
127 | struct _GLIBCXX17_DEPRECATED iterator
| ^~~~~~~~
g++ -std=gnu++17 -shared -s -static-libgcc -o garfield.dll tmp.def garfield_init.o garfield_perm.o garfield_prep.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.19-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.19-bioc/R/library/00LOCK-garfield/00new/garfield/libs/x64
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (garfield)
