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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/flowWorkspace_4.2.0.tar.gz && rm -rf flowWorkspace.buildbin-libdir && mkdir flowWorkspace.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=flowWorkspace.buildbin-libdir flowWorkspace_4.2.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL flowWorkspace_4.2.0.zip && rm flowWorkspace_4.2.0.tar.gz flowWorkspace_4.2.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 3303k 100 3303k 0 0 49.4M 0 --:--:-- --:--:-- --:--:-- 50.4M
install for i386
* installing *source* package 'flowWorkspace' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_API.cpp -o R_API.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from R_API.cpp:9:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from R_API.cpp:9:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from R_API.cpp:9:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_GatingHierarchy.cpp -o R_GatingHierarchy.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from R_GatingHierarchy.cpp:17:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from R_GatingHierarchy.cpp:17:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from R_GatingHierarchy.cpp:17:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_GatingSet.cpp -o R_GatingSet.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace.h:5,
from R_GatingSet.cpp:10:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace.h:5,
from R_GatingSet.cpp:10:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace.h:5,
from R_GatingSet.cpp:10:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace.h:5,
from RcppExports.cpp:4:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace.h:5,
from RcppExports.cpp:4:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace.h:5,
from RcppExports.cpp:4:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp.h:46,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:34,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:15,
from ../inst/include/flowWorkspace.h:6,
from RcppExports.cpp:4:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp/XPtr.h: In instantiation of 'void Rcpp::standard_delete_finalizer(T*) [with T = cytolib::CytoFrameView]':
RcppExports.cpp:607:45: required from here
C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp/XPtr.h:30:5: warning: deleting object of polymorphic class type 'cytolib::CytoFrameView' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
delete obj;
^~~~~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cytoframeAPI.cpp -o cytoframeAPI.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/H5CytoFrame.hpp:12,
from cytoframeAPI.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/H5CytoFrame.hpp:12,
from cytoframeAPI.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:12,
from cytoframeAPI.cpp:3:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp.h:46,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:34,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:15,
from cytoframeAPI.cpp:3:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp/XPtr.h: In instantiation of 'void Rcpp::standard_delete_finalizer(T*) [with T = cytolib::CytoFrameView]':
cytoframeAPI.cpp:9:45: required from here
C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp/XPtr.h:30:5: warning: deleting object of polymorphic class type 'cytolib::CytoFrameView' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
delete obj;
^~~~~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cytosetAPI.cpp -o cytosetAPI.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/H5CytoFrame.hpp:12,
from cytosetAPI.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/H5CytoFrame.hpp:12,
from cytosetAPI.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:12,
from cytosetAPI.cpp:2:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
cytosetAPI.cpp: In function 'Rcpp::XPtr<cytolib::CytoFrameView> get_cytoframe(Rcpp::XPtr<cytolib::GatingSet>, Rcpp::RObject, Rcpp::RObject)':
cytosetAPI.cpp:208:29: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'R_xlen_t' {aka 'int'} [-Wsign-compare]
for(unsigned i = 0; i < j_val.size(); i++){
~~^~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp.h:46,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:34,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:15,
from cytosetAPI.cpp:2:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp/XPtr.h: In instantiation of 'void Rcpp::standard_delete_finalizer(T*) [with T = cytolib::CytoFrameView]':
cytosetAPI.cpp:38:81: required from here
C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp/XPtr.h:30:5: warning: deleting object of polymorphic class type 'cytolib::CytoFrameView' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
delete obj;
^~~~~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c getDescendants.cpp -o getDescendants.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getDescendants.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getDescendants.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getDescendants.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c getPopStats.cpp -o getPopStats.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getPopStats.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getPopStats.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getPopStats.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c getSingleCellExpression.cpp -o getSingleCellExpression.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getSingleCellExpression.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getSingleCellExpression.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getSingleCellExpression.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
getSingleCellExpression.cpp: In function 'Rcpp::NumericMatrix getSingleCellExpressionByGate(Rcpp::XPtr<cytolib::GatingSet>, std::__cxx11::string, Rcpp::List, Rcpp::NumericMatrix, Rcpp::CharacterVector, bool)':
getSingleCellExpression.cpp:74:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'R_xlen_t' {aka 'int'} [-Wsign-compare]
for(unsigned j = 0; j < pops.size(); ++j){
~~^~~~~~~~~~~~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5_error_r_handler.cpp -o h5_error_r_handler.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:12,
from h5_error_r_handler.cpp:8:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:12,
from h5_error_r_handler.cpp:8:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:12,
from h5_error_r_handler.cpp:8:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c setCounts.cpp -o setCounts.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from setCounts.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from setCounts.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from setCounts.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
mkdir -p "C:/Users/biocbuild/bbs-3.12-bioc/meat/flowWorkspace.buildbin-libdir/00LOCK-flowWorkspace/00new/flowWorkspace/lib/i386"
"C:/rtools40/mingw32/bin/"ar rs "C:/Users/biocbuild/bbs-3.12-bioc/meat/flowWorkspace.buildbin-libdir/00LOCK-flowWorkspace/00new/flowWorkspace/lib/i386/libflowWorkspace.a" R_API.o R_GatingHierarchy.o R_GatingSet.o RcppExports.o cytoframeAPI.o cytosetAPI.o getDescendants.o getPopStats.o getSingleCellExpression.o h5_error_r_handler.o setCounts.o
C:\rtools40\mingw32\bin\ar.exe: creating C:/Users/biocbuild/bbs-3.12-bioc/meat/flowWorkspace.buildbin-libdir/00LOCK-flowWorkspace/00new/flowWorkspace/lib/i386/libflowWorkspace.a
C:/rtools40/mingw32/bin/g++ -shared -s -static-libgcc -o flowWorkspace.dll tmp.def R_API.o R_GatingHierarchy.o R_GatingSet.o RcppExports.o cytoframeAPI.o cytosetAPI.o getDescendants.o getPopStats.o getSingleCellExpression.o h5_error_r_handler.o setCounts.o -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/i386 -lRblas -lgfortran -lm -lquadmath C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/lib/i386/libcytolib.a C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/lib/i386/libprotobuf-lite.a -LC:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/lib/i386 -ltbb -ltbbmalloc -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/library/Rhdf5lib/lib/i386 -lhdf5_cpp -lhdf5 -lcurl -lssh2 -lssl -lcrypto -lwldap32 -lws2_32 -lcrypt32 -lszip -lz -lpsapi -lws2_32 -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/flowWorkspace.buildbin-libdir/00LOCK-flowWorkspace/00new/flowWorkspace/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'flowWorkspace'
finding HTML links ... done
GatingHierarchy-class html
GatingSet-class html
GatingSet-methods html
GatingSetList-class html
asinh_Gml2 html
asinhtGml2_trans html
booleanFilter-class html
finding level-2 HTML links ... done
brackets html
cf_append_cols html
cf_backend_type html
cf_get_uri html
cf_write_disk html
cf_write_h5 html
cf_write_tile html
cleanup html
cleanup_temp html
compensate html
convert html
convert_backend html
convert_legacy html
cs_add_cytoframe html
cs_get_uri html
cs_set_cytoframe html
cytoframe-labels html
cytoframe html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/cytoframe.Rd:16: file link 'flowFrame' in package 'flowCore' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/cytoframe.Rd:40: file link 'flowFrame' in package 'flowCore' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/cytoframe.Rd:203: file link 'filterResult' in package 'flowCore' does not exist and so has been treated as a topic
cytoset html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/cytoset.Rd:27: file link 'flowSet' in package 'flowCore' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/cytoset.Rd:142: file link 'AnnotatedDataFrame' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/cytoset.Rd:207: file link 'filter' in package 'flowCore' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/cytoset.Rd:215: file link 'filterResult' in package 'flowCore' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/cytoset.Rd:224: file link 'split' in package 'flowCore' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/cytoset.Rd:235: file link 'filterResult' in package 'flowCore' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/cytoset.Rd:236: file link 'Subset' in package 'flowCore' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/cytoset.Rd:253: file link 'spillover' in package 'flowStats' does not exist and so has been treated as a topic
default_backend html
delete_gs html
estimateLogicle html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/estimateLogicle.Rd:23: file link 'estimateLogicle' in package 'flowCore' does not exist and so has been treated as a topic
extract_cluster_pop_name_from_node html
filter_to_list html
flowWorkspace-deprecated html
flowWorkspace-package html
flow_breaks html
flow_trans html
flowjo_biexp html
flowjo_biexp_trans html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/flowjo_biexp_trans.Rd:13: file link 'flowJoTrans' in package 'flowWorkspace' does not exist and so has been treated as a topic
flowjo_fasinh html
flowjo_fasinh_trans html
flowjo_log_trans html
gh_apply_to_cs html
gh_apply_to_new_fcs html
gh_copy_gate html
gh_get_cluster_labels html
gh_get_compensations html
gh_get_transformations html
gh_pop_compare_stats html
gh_pop_get_cluster_name html
gh_pop_get_data html
gh_pop_get_descendants html
gh_pop_get_full_path html
gh_pop_get_indices html
gh_pop_get_indices_mat html
gh_pop_get_proportion html
gh_pop_move html
gh_pop_set_indices html
gh_pop_set_xml_count html
gs_check_redundant_nodes html
gs_cyto_data html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/gs_cyto_data.Rd:33: file link 'flowSet' in package 'flowCore' does not exist and so has been treated as a topic
gs_get_compensation_internal html
gs_get_leaf_nodes html
gs_get_pop_paths html
gs_get_singlecell_expression html
gs_is_persistent html
gs_plot_diff_tree html
gs_plot_pop_count_cv html
gs_pop_add html
gs_pop_get_children html
gs_pop_get_count_fast html
gs_pop_get_gate html
gs_pop_get_gs html
gs_pop_get_stats html
gs_pop_get_stats_tfilter html
gs_pop_set_gate html
gs_pop_set_name html
gs_pop_set_visibility html
gs_remove_redundant_channels html
gs_remove_redundant_nodes html
gs_split_by_channels html
gs_split_by_tree html
gs_update_channels html
gslist_to_gs html
identifier-methods html
is_subsetted html
is_tiledb_support html
keyword-mutators html
keyword html
lapply-methods html
length html
load_cytoframe html
load_cytoframe_from_fcs html
load_cytoset_from_fcs html
load_meta html
lock html
logicleGml2_trans html
logicle_trans html
loglevel html
logtGml2_trans html
markernames html
merge_list_to_gs html
ncFlowSet-methods html
nodeflags html
openWorkspace html
pData-methods html
plot-methods html
plotGate-methods-defunct html
pop_add html
prettyAxis html
recompute html
rotate_gate html
sampleNames html
save_cytoset html
save_gs html
scale_gate html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/Rtmp0qbVOK/R.INSTALL1a201ce44e5b/flowWorkspace/man/scale_gate.Rd:31: file link 'filter' in package 'flowCore' does not exist and so has been treated as a topic
shift_gate html
standardize-GatingSet html
stats.fun html
subset html
swap_data_cols html
transform html
transform_gate html
transformerList html
** 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
install for x64
* installing *source* package 'flowWorkspace' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_API.cpp -o R_API.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from R_API.cpp:9:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from R_API.cpp:9:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from R_API.cpp:9:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_GatingHierarchy.cpp -o R_GatingHierarchy.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from R_GatingHierarchy.cpp:17:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from R_GatingHierarchy.cpp:17:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from R_GatingHierarchy.cpp:17:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_GatingSet.cpp -o R_GatingSet.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace.h:5,
from R_GatingSet.cpp:10:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace.h:5,
from R_GatingSet.cpp:10:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace.h:5,
from R_GatingSet.cpp:10:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace.h:5,
from RcppExports.cpp:4:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace.h:5,
from RcppExports.cpp:4:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace.h:5,
from RcppExports.cpp:4:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp.h:46,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:34,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:15,
from ../inst/include/flowWorkspace.h:6,
from RcppExports.cpp:4:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp/XPtr.h: In instantiation of 'void Rcpp::standard_delete_finalizer(T*) [with T = cytolib::CytoFrameView]':
RcppExports.cpp:607:45: required from here
C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp/XPtr.h:30:5: warning: deleting object of polymorphic class type 'cytolib::CytoFrameView' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
delete obj;
^~~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cytoframeAPI.cpp -o cytoframeAPI.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/H5CytoFrame.hpp:12,
from cytoframeAPI.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/H5CytoFrame.hpp:12,
from cytoframeAPI.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:12,
from cytoframeAPI.cpp:3:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp.h:46,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:34,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:15,
from cytoframeAPI.cpp:3:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp/XPtr.h: In instantiation of 'void Rcpp::standard_delete_finalizer(T*) [with T = cytolib::CytoFrameView]':
cytoframeAPI.cpp:9:45: required from here
C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp/XPtr.h:30:5: warning: deleting object of polymorphic class type 'cytolib::CytoFrameView' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
delete obj;
^~~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cytosetAPI.cpp -o cytosetAPI.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/H5CytoFrame.hpp:12,
from cytosetAPI.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/H5CytoFrame.hpp:12,
from cytosetAPI.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:12,
from cytosetAPI.cpp:2:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp.h:46,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:34,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:15,
from cytosetAPI.cpp:2:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp/XPtr.h: In instantiation of 'void Rcpp::standard_delete_finalizer(T*) [with T = cytolib::CytoFrameView]':
cytosetAPI.cpp:38:81: required from here
C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include/Rcpp/XPtr.h:30:5: warning: deleting object of polymorphic class type 'cytolib::CytoFrameView' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor]
delete obj;
^~~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c getDescendants.cpp -o getDescendants.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getDescendants.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getDescendants.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getDescendants.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c getPopStats.cpp -o getPopStats.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getPopStats.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getPopStats.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getPopStats.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c getSingleCellExpression.cpp -o getSingleCellExpression.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getSingleCellExpression.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getSingleCellExpression.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from getSingleCellExpression.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c h5_error_r_handler.cpp -o h5_error_r_handler.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:12,
from h5_error_r_handler.cpp:8:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:12,
from h5_error_r_handler.cpp:8:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from ../inst/include/flowWorkspace/pairVectorRcppWrap.h:12,
from h5_error_r_handler.cpp:8:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -DRCPP_PARALLEL_USE_TBB=1 -fpermissive -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rhdf5lib/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c setCounts.cpp -o setCounts.o
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/iterator_range.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/range/as_literal.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string/trim.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/algorithm/string.hpp:19,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/transformation.hpp:18,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:15,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from setCounts.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/CytoFrame.hpp:16,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/MemCytoFrame.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/gate.hpp:12,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from setCounts.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp: In constructor 'cytolib::compensation::compensation(const string&)':
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:50:20: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() != 1+n+n*n){
~~~~~~~~~~~~~~^~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:54:21: warning: comparison of integer expressions of different signedness: 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
if(valVec.size() == 1+n+2*n*n){
~~~~~~~~~~~~~~^~~~~~~~~~~~
C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/compensation.hpp:60:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char>, std::allocator<std::__cxx11::basic_string<char> > >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
for(int i = 1+n, j = 1+n; i < valVec_fixed.size(); i++, j+=2)
~~^~~~~~~~~~~~~~~~~~~~~
In file included from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_iterator.hpp:13,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/detail/adjacency_list.hpp:37,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:255,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:14,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:17,
from C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:14,
from setCounts.cpp:1:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp: At global scope:
C:/Users/biocbuild/bbs-3.12-bioc/R/library/BH/include/boost/detail/iterator.hpp:13:37: note: #pragma message: This header is deprecated. Use <iterator> instead.
BOOST_HEADER_DEPRECATED("<iterator>")
^
mkdir -p "C:/Users/biocbuild/bbs-3.12-bioc/meat/flowWorkspace.buildbin-libdir/flowWorkspace/lib/x64"
"C:/rtools40/mingw64/bin/"ar rs "C:/Users/biocbuild/bbs-3.12-bioc/meat/flowWorkspace.buildbin-libdir/flowWorkspace/lib/x64/libflowWorkspace.a" R_API.o R_GatingHierarchy.o R_GatingSet.o RcppExports.o cytoframeAPI.o cytosetAPI.o getDescendants.o getPopStats.o getSingleCellExpression.o h5_error_r_handler.o setCounts.o
C:\rtools40\mingw64\bin\ar.exe: creating C:/Users/biocbuild/bbs-3.12-bioc/meat/flowWorkspace.buildbin-libdir/flowWorkspace/lib/x64/libflowWorkspace.a
C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o flowWorkspace.dll tmp.def R_API.o R_GatingHierarchy.o R_GatingSet.o RcppExports.o cytoframeAPI.o cytosetAPI.o getDescendants.o getPopStats.o getSingleCellExpression.o h5_error_r_handler.o setCounts.o -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/x64 -lRblas -lgfortran -lm -lquadmath C:/Users/biocbuild/bbs-3.12-bioc/R/library/cytolib/lib/x64/libcytolib.a C:/Users/biocbuild/bbs-3.12-bioc/R/library/RProtoBufLib/lib/x64/libprotobuf-lite.a -LC:/Users/biocbuild/bbs-3.12-bioc/R/library/RcppParallel/lib/x64 -ltbb -ltbbmalloc -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/library/Rhdf5lib/lib/x64 -lhdf5_cpp -lhdf5 -lcurl -lssh2 -lssl -lcrypto -lwldap32 -lws2_32 -lcrypt32 -lszip -lz -lpsapi -lws2_32 -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/flowWorkspace.buildbin-libdir/flowWorkspace/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'flowWorkspace' as flowWorkspace_4.2.0.zip
* DONE (flowWorkspace)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'flowWorkspace' successfully unpacked and MD5 sums checked
