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###
### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/beachmat_1.4.0.tar.gz && rm -rf beachmat.buildbin-libdir && mkdir beachmat.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=beachmat.buildbin-libdir beachmat_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL beachmat_1.4.0.zip && rm beachmat_1.4.0.tar.gz beachmat_1.4.0.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 82917 100 82917 0 0 2206k 0 --:--:-- --:--:-- --:--:-- 2453k
install for i386
* installing *source* package 'beachmat' ...
** libs
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c HDF5_utils.cpp -o HDF5_utils.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c character_matrix.cpp -o character_matrix.o
character_matrix.cpp: In member function 'virtual beachmat::const_col_indexed_info<Rcpp::Vector<16> > beachmat::character_matrix::get_const_col_indexed(size_t, Rcpp::Vector<16>::iterator, size_t, size_t)':
character_matrix.cpp:43:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (indices.size()!=this->get_nrow()) {
^
In file included from all_readers.h:8:0,
from character_matrix.h:4,
from character_matrix.cpp:1:
simple_reader.h: In instantiation of 'beachmat::simple_reader<T, V>::simple_reader(const RObject&) [with T = Rcpp::String; V = Rcpp::Vector<16>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
character_matrix.h:60:78: required from 'beachmat::general_character_matrix<RDR>::general_character_matrix(const RObject&) [with RDR = beachmat::simple_reader<Rcpp::String, Rcpp::Vector<16> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
character_matrix.cpp:52:119: required from here
simple_reader.h:59:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (mat.size()!=(this->nrow)*NC) {
^
In file included from all_readers.h:12:0,
from character_matrix.h:4,
from character_matrix.cpp:1:
delayed_reader.h: In instantiation of 'static void beachmat::delayed_coord_transformer<T, V>::obtain_indices(const RObject&, size_t, bool&, size_t&, std::vector<unsigned int>&) [with T = Rcpp::String; V = Rcpp::Vector<16>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>; size_t = unsigned int]':
delayed_reader.h:115:80: required from 'beachmat::delayed_coord_transformer<T, V>::delayed_coord_transformer(const List&, const LogicalVector&, M) [with M = beachmat::character_matrix*; T = Rcpp::String; V = Rcpp::Vector<16>; Rcpp::List = Rcpp::Vector<19>; Rcpp::LogicalVector = Rcpp::Vector<10, Rcpp::PreserveStorage>]'
delayed_reader.h:371:20: required from 'beachmat::delayed_matrix<T, V, base_mat>::delayed_matrix(const RObject&) [with T = Rcpp::String; V = Rcpp::Vector<16>; base_mat = beachmat::character_matrix; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
character_matrix.h:60:78: required from 'beachmat::general_character_matrix<RDR>::general_character_matrix(const RObject&) [with RDR = beachmat::delayed_matrix<Rcpp::String, Rcpp::Vector<16>, beachmat::character_matrix>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
character_matrix.cpp:165:91: required from here
delayed_reader.h:154:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (i < 1 || i > original_dim) {
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c character_output.cpp -o character_output.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c dim_checker.cpp -o dim_checker.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c find_chunks.cpp -o find_chunks.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c functions.cpp -o functions.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c integer_matrix.cpp -o integer_matrix.o
In file included from all_readers.h:8:0,
from LIN_matrix.h:4,
from integer_matrix.h:4,
from integer_matrix.cpp:1:
simple_reader.h: In instantiation of 'beachmat::simple_reader<T, V>::simple_reader(const RObject&) [with T = int; V = Rcpp::Vector<13>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<13>; RDR = beachmat::simple_reader<int, Rcpp::Vector<13> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:181:100: required from 'beachmat::simple_lin_matrix<T, V>::simple_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<13>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
integer_matrix.cpp:49:78: required from here
simple_reader.h:59:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (mat.size()!=(this->nrow)*NC) {
^
In file included from all_readers.h:12:0,
from LIN_matrix.h:4,
from integer_matrix.h:4,
from integer_matrix.cpp:1:
delayed_reader.h: In instantiation of 'static void beachmat::delayed_coord_transformer<T, V>::obtain_indices(const RObject&, size_t, bool&, size_t&, std::vector<unsigned int>&) [with T = int; V = Rcpp::Vector<13>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>; size_t = unsigned int]':
delayed_reader.h:115:80: required from 'beachmat::delayed_coord_transformer<T, V>::delayed_coord_transformer(const List&, const LogicalVector&, M) [with M = beachmat::lin_matrix<int, Rcpp::Vector<13> >*; T = int; V = Rcpp::Vector<13>; Rcpp::List = Rcpp::Vector<19>; Rcpp::LogicalVector = Rcpp::Vector<10, Rcpp::PreserveStorage>]'
delayed_reader.h:371:20: required from 'beachmat::delayed_matrix<T, V, base_mat>::delayed_matrix(const RObject&) [with T = int; V = Rcpp::Vector<13>; base_mat = beachmat::lin_matrix<int, Rcpp::Vector<13> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<13>; RDR = beachmat::delayed_matrix<int, Rcpp::Vector<13>, beachmat::lin_matrix<int, Rcpp::Vector<13> > >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
integer_matrix.cpp:43:87: required from here
delayed_reader.h:154:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (i < 1 || i > original_dim) {
^
In file included from LIN_matrix.h:238:0,
from integer_matrix.h:4,
from integer_matrix.cpp:1:
LIN_methods_read.h: In instantiation of 'beachmat::const_col_indexed_info<V> beachmat::lin_matrix<T, V>::get_const_col_indexed(size_t, typename V::iterator, size_t, size_t) [with T = int; V = Rcpp::Vector<13>; beachmat::const_col_indexed_info<V> = std::tuple<unsigned int, int*, int*>; typename V::iterator = int*; size_t = unsigned int; typename V::iterator = int*]':
integer_matrix.cpp:70:1: required from here
LIN_methods_read.h:82:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (indices.size()!=this->get_nrow()) {
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c logical_matrix.cpp -o logical_matrix.o
In file included from all_readers.h:9:0,
from LIN_matrix.h:4,
from logical_matrix.h:4,
from logical_matrix.cpp:1:
dense_reader.h: In instantiation of 'beachmat::dense_reader<T, V>::dense_reader(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::dense_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:196:97: required from 'beachmat::dense_lin_matrix<T, V>::dense_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
logical_matrix.cpp:51:85: required from here
dense_reader.h:60:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (x.size()!=(this->nrow)*NC) {
^
In file included from all_readers.h:10:0,
from LIN_matrix.h:4,
from logical_matrix.h:4,
from logical_matrix.cpp:1:
Csparse_reader.h: In instantiation of 'beachmat::Csparse_reader<T, V>::Csparse_reader(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:211:103: required from 'beachmat::Csparse_lin_matrix<T, V>::Csparse_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
logical_matrix.cpp:53:87: required from here
Csparse_reader.h:78:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (NC+1!=p.size()) { throw_custom_error("length of 'p' slot in a ", ctype, " object should be equal to 'ncol+1'"); }
^
Csparse_reader.h:106:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (curi<0 || curi>=NR) {
^
In file included from all_readers.h:8:0,
from LIN_matrix.h:4,
from logical_matrix.h:4,
from logical_matrix.cpp:1:
simple_reader.h: In instantiation of 'beachmat::simple_reader<T, V>::simple_reader(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::simple_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:181:100: required from 'beachmat::simple_lin_matrix<T, V>::simple_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
logical_matrix.cpp:63:78: required from here
simple_reader.h:59:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (mat.size()!=(this->nrow)*NC) {
^
In file included from all_readers.h:12:0,
from LIN_matrix.h:4,
from logical_matrix.h:4,
from logical_matrix.cpp:1:
delayed_reader.h: In instantiation of 'static void beachmat::delayed_coord_transformer<T, V>::obtain_indices(const RObject&, size_t, bool&, size_t&, std::vector<unsigned int>&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>; size_t = unsigned int]':
delayed_reader.h:115:80: required from 'beachmat::delayed_coord_transformer<T, V>::delayed_coord_transformer(const List&, const LogicalVector&, M) [with M = beachmat::lin_matrix<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >*; T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::List = Rcpp::Vector<19>; Rcpp::LogicalVector = Rcpp::Vector<10, Rcpp::PreserveStorage>]'
delayed_reader.h:371:20: required from 'beachmat::delayed_matrix<T, V, base_mat>::delayed_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; base_mat = beachmat::lin_matrix<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::delayed_matrix<int, Rcpp::Vector<10, Rcpp::PreserveStorage>, beachmat::lin_matrix<int, Rcpp::Vector<10, Rcpp::PreserveStorage> > >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
logical_matrix.cpp:57:87: required from here
delayed_reader.h:154:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (i < 1 || i > original_dim) {
^
In file included from LIN_matrix.h:238:0,
from logical_matrix.h:4,
from logical_matrix.cpp:1:
LIN_methods_read.h: In instantiation of 'beachmat::const_col_indexed_info<V> beachmat::lin_matrix<T, V>::get_const_col_indexed(size_t, typename V::iterator, size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; beachmat::const_col_indexed_info<V> = std::tuple<unsigned int, int*, int*>; typename V::iterator = int*; size_t = unsigned int; typename V::iterator = int*]':
logical_matrix.cpp:86:1: required from here
LIN_methods_read.h:82:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (indices.size()!=this->get_nrow()) {
^
In file included from all_readers.h:10:0,
from LIN_matrix.h:4,
from logical_matrix.h:4,
from logical_matrix.cpp:1:
Csparse_reader.h: In instantiation of 'void beachmat::Csparse_reader<T, V>::get_row(size_t, Iter, size_t, size_t) [with Iter = int*; T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; size_t = unsigned int]':
LIN_methods_read.h:120:5: required from 'void beachmat::general_lin_matrix<T, V, RDR>::get_row(size_t, Rcpp::Vector<13>::iterator, size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; size_t = unsigned int; Rcpp::Vector<13>::iterator = int*; Rcpp::traits::storage_type<13>::type = int]'
logical_matrix.cpp:86:1: required from here
Csparse_reader.h:208:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (idex!=*pIt && i[idex]==r) { (*out)=x[idex]; }
^
Csparse_reader.h: In instantiation of 'void beachmat::Csparse_reader<T, V>::get_row(size_t, Iter, size_t, size_t) [with Iter = double*; T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; size_t = unsigned int]':
LIN_methods_read.h:126:5: required from 'void beachmat::general_lin_matrix<T, V, RDR>::get_row(size_t, Rcpp::Vector<14, Rcpp::PreserveStorage>::iterator, size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; size_t = unsigned int; Rcpp::Vector<14, Rcpp::PreserveStorage>::iterator = double*; Rcpp::traits::storage_type<14>::type = double]'
logical_matrix.cpp:86:1: required from here
Csparse_reader.h:208:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
Csparse_reader.h: In instantiation of 'T beachmat::Csparse_reader<T, V>::get(size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; size_t = unsigned int]':
LIN_methods_read.h:132:27: required from 'T beachmat::general_lin_matrix<T, V, RDR>::get(size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; size_t = unsigned int]'
logical_matrix.cpp:86:1: required from here
Csparse_reader.h:121:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (loc!=iend && *loc==r) {
^
Csparse_reader.h: In instantiation of 'void beachmat::Csparse_reader<T, V>::update_indices(size_t, size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; size_t = unsigned int]':
Csparse_reader.h:202:34: required from 'void beachmat::Csparse_reader<T, V>::get_row(size_t, Iter, size_t, size_t) [with Iter = int*; T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; size_t = unsigned int]'
LIN_methods_read.h:120:5: required from 'void beachmat::general_lin_matrix<T, V, RDR>::get_row(size_t, Rcpp::Vector<13>::iterator, size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; size_t = unsigned int; Rcpp::Vector<13>::iterator = int*; Rcpp::traits::storage_type<13>::type = int]'
logical_matrix.cpp:86:1: required from here
Csparse_reader.h:164:43: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (curdex!=*pIt && i[curdex] < r) {
^
Csparse_reader.h:171:45: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (curdex!=*pIt && i[curdex-1] >= r) {
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c numeric_matrix.cpp -o numeric_matrix.o
In file included from all_readers.h:9:0,
from LIN_matrix.h:4,
from numeric_matrix.h:4,
from numeric_matrix.cpp:1:
dense_reader.h: In instantiation of 'beachmat::dense_reader<T, V>::dense_reader(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::dense_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:196:97: required from 'beachmat::dense_lin_matrix<T, V>::dense_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
numeric_matrix.cpp:51:85: required from here
dense_reader.h:60:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (x.size()!=(this->nrow)*NC) {
^
In file included from all_readers.h:10:0,
from LIN_matrix.h:4,
from numeric_matrix.h:4,
from numeric_matrix.cpp:1:
Csparse_reader.h: In instantiation of 'beachmat::Csparse_reader<T, V>::Csparse_reader(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:211:103: required from 'beachmat::Csparse_lin_matrix<T, V>::Csparse_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
numeric_matrix.cpp:53:87: required from here
Csparse_reader.h:78:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (NC+1!=p.size()) { throw_custom_error("length of 'p' slot in a ", ctype, " object should be equal to 'ncol+1'"); }
^
Csparse_reader.h:106:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (curi<0 || curi>=NR) {
^
In file included from all_readers.h:8:0,
from LIN_matrix.h:4,
from numeric_matrix.h:4,
from numeric_matrix.cpp:1:
simple_reader.h: In instantiation of 'beachmat::simple_reader<T, V>::simple_reader(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::simple_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:181:100: required from 'beachmat::simple_lin_matrix<T, V>::simple_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
numeric_matrix.cpp:63:78: required from here
simple_reader.h:59:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (mat.size()!=(this->nrow)*NC) {
^
In file included from all_readers.h:12:0,
from LIN_matrix.h:4,
from numeric_matrix.h:4,
from numeric_matrix.cpp:1:
delayed_reader.h: In instantiation of 'static void beachmat::delayed_coord_transformer<T, V>::obtain_indices(const RObject&, size_t, bool&, size_t&, std::vector<unsigned int>&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>; size_t = unsigned int]':
delayed_reader.h:115:80: required from 'beachmat::delayed_coord_transformer<T, V>::delayed_coord_transformer(const List&, const LogicalVector&, M) [with M = beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >*; T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::List = Rcpp::Vector<19>; Rcpp::LogicalVector = Rcpp::Vector<10, Rcpp::PreserveStorage>]'
delayed_reader.h:371:20: required from 'beachmat::delayed_matrix<T, V, base_mat>::delayed_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; base_mat = beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::delayed_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage>, beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> > >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
numeric_matrix.cpp:57:87: required from here
delayed_reader.h:154:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (i < 1 || i > original_dim) {
^
In file included from LIN_matrix.h:238:0,
from numeric_matrix.h:4,
from numeric_matrix.cpp:1:
LIN_methods_read.h: In instantiation of 'beachmat::const_col_indexed_info<V> beachmat::lin_matrix<T, V>::get_const_col_indexed(size_t, typename V::iterator, size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; beachmat::const_col_indexed_info<V> = std::tuple<unsigned int, int*, double*>; typename V::iterator = double*; size_t = unsigned int; typename V::iterator = double*]':
numeric_matrix.cpp:86:1: required from here
LIN_methods_read.h:82:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (indices.size()!=this->get_nrow()) {
^
In file included from all_readers.h:10:0,
from LIN_matrix.h:4,
from numeric_matrix.h:4,
from numeric_matrix.cpp:1:
Csparse_reader.h: In instantiation of 'void beachmat::Csparse_reader<T, V>::get_row(size_t, Iter, size_t, size_t) [with Iter = int*; T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; size_t = unsigned int]':
LIN_methods_read.h:120:5: required from 'void beachmat::general_lin_matrix<T, V, RDR>::get_row(size_t, Rcpp::Vector<13>::iterator, size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; size_t = unsigned int; Rcpp::Vector<13>::iterator = int*; Rcpp::traits::storage_type<13>::type = int]'
numeric_matrix.cpp:86:1: required from here
Csparse_reader.h:208:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (idex!=*pIt && i[idex]==r) { (*out)=x[idex]; }
^
Csparse_reader.h: In instantiation of 'void beachmat::Csparse_reader<T, V>::get_row(size_t, Iter, size_t, size_t) [with Iter = double*; T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; size_t = unsigned int]':
LIN_methods_read.h:126:5: required from 'void beachmat::general_lin_matrix<T, V, RDR>::get_row(size_t, Rcpp::Vector<14, Rcpp::PreserveStorage>::iterator, size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; size_t = unsigned int; Rcpp::Vector<14, Rcpp::PreserveStorage>::iterator = double*; Rcpp::traits::storage_type<14>::type = double]'
numeric_matrix.cpp:86:1: required from here
Csparse_reader.h:208:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
Csparse_reader.h: In instantiation of 'T beachmat::Csparse_reader<T, V>::get(size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; size_t = unsigned int]':
LIN_methods_read.h:132:27: required from 'T beachmat::general_lin_matrix<T, V, RDR>::get(size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; size_t = unsigned int]'
numeric_matrix.cpp:86:1: required from here
Csparse_reader.h:121:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (loc!=iend && *loc==r) {
^
Csparse_reader.h: In instantiation of 'void beachmat::Csparse_reader<T, V>::update_indices(size_t, size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; size_t = unsigned int]':
Csparse_reader.h:202:34: required from 'void beachmat::Csparse_reader<T, V>::get_row(size_t, Iter, size_t, size_t) [with Iter = int*; T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; size_t = unsigned int]'
LIN_methods_read.h:120:5: required from 'void beachmat::general_lin_matrix<T, V, RDR>::get_row(size_t, Rcpp::Vector<13>::iterator, size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; size_t = unsigned int; Rcpp::Vector<13>::iterator = int*; Rcpp::traits::storage_type<13>::type = int]'
numeric_matrix.cpp:86:1: required from here
Csparse_reader.h:164:43: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (curdex!=*pIt && i[curdex] < r) {
^
Csparse_reader.h:171:45: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (curdex!=*pIt && i[curdex-1] >= r) {
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c output_param.cpp -o output_param.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c repacker.cpp -o repacker.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c utils.cpp -o utils.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o beachmat.dll tmp.def HDF5_utils.o character_matrix.o character_output.o dim_checker.o find_chunks.o functions.o integer_matrix.o logical_matrix.o numeric_matrix.o output_param.o repacker.o utils.o -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/Rhdf5lib/lib/i386 -lhdf5_cpp -lhdf5 -lszip -lz -lpsapi -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR -lm -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o libbeachmat.dll dim_checker.o character_matrix.o character_output.o integer_matrix.o logical_matrix.o numeric_matrix.o utils.o HDF5_utils.o output_param.o -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/Rhdf5lib/lib/i386 -lhdf5_cpp -lhdf5 -lszip -lz -lpsapi -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR -lm
C:/Rtools/mingw_32/bin/ar crs libbeachmat.a dim_checker.o character_matrix.o character_output.o integer_matrix.o logical_matrix.o numeric_matrix.o utils.o HDF5_utils.o output_param.o
mkdir -p "C:/Users/biocbuild/bbs-3.8-bioc/meat/beachmat.buildbin-libdir/beachmat/lib/i386" "C:/Users/biocbuild/bbs-3.8-bioc/meat/beachmat.buildbin-libdir/beachmat/include/beachmat"
cp dim_checker.h utils.h beachmat.h HDF5_utils.h output_param.h HDF5_reader.h Csparse_reader.h dense_reader.h simple_reader.h all_readers.h delayed_reader.h unknown_reader.h external_reader.h simple_writer.h Csparse_writer.h HDF5_writer.h all_writers.h LIN_matrix.h LIN_methods_read.h LIN_methods_write.h LIN_output.h logical_matrix.h integer_matrix.h character_matrix.h numeric_matrix.h character_output.h "C:/Users/biocbuild/bbs-3.8-bioc/meat/beachmat.buildbin-libdir/beachmat/include/beachmat"
mv libbeachmat.* "C:/Users/biocbuild/bbs-3.8-bioc/meat/beachmat.buildbin-libdir/beachmat/lib/i386"
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/beachmat.buildbin-libdir/beachmat/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'beachmat'
finding HTML links ... done
getBestChunkDims html
pkgconfig html
rechunkByMargins html
finding level-2 HTML links ... done
supportCppAccess html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'beachmat' ...
** libs
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c HDF5_utils.cpp -o HDF5_utils.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c character_matrix.cpp -o character_matrix.o
character_matrix.cpp: In member function 'virtual beachmat::const_col_indexed_info<Rcpp::Vector<16> > beachmat::character_matrix::get_const_col_indexed(size_t, Rcpp::Vector<16>::iterator, size_t, size_t)':
character_matrix.cpp:43:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (indices.size()!=this->get_nrow()) {
^
In file included from all_readers.h:8:0,
from character_matrix.h:4,
from character_matrix.cpp:1:
simple_reader.h: In instantiation of 'beachmat::simple_reader<T, V>::simple_reader(const RObject&) [with T = Rcpp::String; V = Rcpp::Vector<16>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
character_matrix.h:60:78: required from 'beachmat::general_character_matrix<RDR>::general_character_matrix(const RObject&) [with RDR = beachmat::simple_reader<Rcpp::String, Rcpp::Vector<16> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
character_matrix.cpp:52:119: required from here
simple_reader.h:59:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (mat.size()!=(this->nrow)*NC) {
^
In file included from all_readers.h:12:0,
from character_matrix.h:4,
from character_matrix.cpp:1:
delayed_reader.h: In instantiation of 'static void beachmat::delayed_coord_transformer<T, V>::obtain_indices(const RObject&, size_t, bool&, size_t&, std::vector<long long unsigned int>&) [with T = Rcpp::String; V = Rcpp::Vector<16>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>; size_t = long long unsigned int]':
delayed_reader.h:115:80: required from 'beachmat::delayed_coord_transformer<T, V>::delayed_coord_transformer(const List&, const LogicalVector&, M) [with M = beachmat::character_matrix*; T = Rcpp::String; V = Rcpp::Vector<16>; Rcpp::List = Rcpp::Vector<19>; Rcpp::LogicalVector = Rcpp::Vector<10, Rcpp::PreserveStorage>]'
delayed_reader.h:371:20: required from 'beachmat::delayed_matrix<T, V, base_mat>::delayed_matrix(const RObject&) [with T = Rcpp::String; V = Rcpp::Vector<16>; base_mat = beachmat::character_matrix; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
character_matrix.h:60:78: required from 'beachmat::general_character_matrix<RDR>::general_character_matrix(const RObject&) [with RDR = beachmat::delayed_matrix<Rcpp::String, Rcpp::Vector<16>, beachmat::character_matrix>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
character_matrix.cpp:165:91: required from here
delayed_reader.h:154:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (i < 1 || i > original_dim) {
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c character_output.cpp -o character_output.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c dim_checker.cpp -o dim_checker.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c find_chunks.cpp -o find_chunks.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c functions.cpp -o functions.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c integer_matrix.cpp -o integer_matrix.o
In file included from all_readers.h:8:0,
from LIN_matrix.h:4,
from integer_matrix.h:4,
from integer_matrix.cpp:1:
simple_reader.h: In instantiation of 'beachmat::simple_reader<T, V>::simple_reader(const RObject&) [with T = int; V = Rcpp::Vector<13>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<13>; RDR = beachmat::simple_reader<int, Rcpp::Vector<13> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:181:100: required from 'beachmat::simple_lin_matrix<T, V>::simple_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<13>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
integer_matrix.cpp:49:78: required from here
simple_reader.h:59:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (mat.size()!=(this->nrow)*NC) {
^
In file included from all_readers.h:12:0,
from LIN_matrix.h:4,
from integer_matrix.h:4,
from integer_matrix.cpp:1:
delayed_reader.h: In instantiation of 'static void beachmat::delayed_coord_transformer<T, V>::obtain_indices(const RObject&, size_t, bool&, size_t&, std::vector<long long unsigned int>&) [with T = int; V = Rcpp::Vector<13>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>; size_t = long long unsigned int]':
delayed_reader.h:115:80: required from 'beachmat::delayed_coord_transformer<T, V>::delayed_coord_transformer(const List&, const LogicalVector&, M) [with M = beachmat::lin_matrix<int, Rcpp::Vector<13> >*; T = int; V = Rcpp::Vector<13>; Rcpp::List = Rcpp::Vector<19>; Rcpp::LogicalVector = Rcpp::Vector<10, Rcpp::PreserveStorage>]'
delayed_reader.h:371:20: required from 'beachmat::delayed_matrix<T, V, base_mat>::delayed_matrix(const RObject&) [with T = int; V = Rcpp::Vector<13>; base_mat = beachmat::lin_matrix<int, Rcpp::Vector<13> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<13>; RDR = beachmat::delayed_matrix<int, Rcpp::Vector<13>, beachmat::lin_matrix<int, Rcpp::Vector<13> > >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
integer_matrix.cpp:43:87: required from here
delayed_reader.h:154:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (i < 1 || i > original_dim) {
^
In file included from LIN_matrix.h:238:0,
from integer_matrix.h:4,
from integer_matrix.cpp:1:
LIN_methods_read.h: In instantiation of 'beachmat::const_col_indexed_info<V> beachmat::lin_matrix<T, V>::get_const_col_indexed(size_t, typename V::iterator, size_t, size_t) [with T = int; V = Rcpp::Vector<13>; beachmat::const_col_indexed_info<V> = std::tuple<long long unsigned int, int*, int*>; typename V::iterator = int*; size_t = long long unsigned int; typename V::iterator = int*]':
integer_matrix.cpp:70:1: required from here
LIN_methods_read.h:82:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (indices.size()!=this->get_nrow()) {
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c logical_matrix.cpp -o logical_matrix.o
In file included from all_readers.h:9:0,
from LIN_matrix.h:4,
from logical_matrix.h:4,
from logical_matrix.cpp:1:
dense_reader.h: In instantiation of 'beachmat::dense_reader<T, V>::dense_reader(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::dense_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:196:97: required from 'beachmat::dense_lin_matrix<T, V>::dense_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
logical_matrix.cpp:51:85: required from here
dense_reader.h:60:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (x.size()!=(this->nrow)*NC) {
^
In file included from all_readers.h:10:0,
from LIN_matrix.h:4,
from logical_matrix.h:4,
from logical_matrix.cpp:1:
Csparse_reader.h: In instantiation of 'beachmat::Csparse_reader<T, V>::Csparse_reader(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:211:103: required from 'beachmat::Csparse_lin_matrix<T, V>::Csparse_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
logical_matrix.cpp:53:87: required from here
Csparse_reader.h:78:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (NC+1!=p.size()) { throw_custom_error("length of 'p' slot in a ", ctype, " object should be equal to 'ncol+1'"); }
^
Csparse_reader.h:106:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (curi<0 || curi>=NR) {
^
In file included from all_readers.h:8:0,
from LIN_matrix.h:4,
from logical_matrix.h:4,
from logical_matrix.cpp:1:
simple_reader.h: In instantiation of 'beachmat::simple_reader<T, V>::simple_reader(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::simple_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:181:100: required from 'beachmat::simple_lin_matrix<T, V>::simple_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
logical_matrix.cpp:63:78: required from here
simple_reader.h:59:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (mat.size()!=(this->nrow)*NC) {
^
In file included from all_readers.h:12:0,
from LIN_matrix.h:4,
from logical_matrix.h:4,
from logical_matrix.cpp:1:
delayed_reader.h: In instantiation of 'static void beachmat::delayed_coord_transformer<T, V>::obtain_indices(const RObject&, size_t, bool&, size_t&, std::vector<long long unsigned int>&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>; size_t = long long unsigned int]':
delayed_reader.h:115:80: required from 'beachmat::delayed_coord_transformer<T, V>::delayed_coord_transformer(const List&, const LogicalVector&, M) [with M = beachmat::lin_matrix<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >*; T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; Rcpp::List = Rcpp::Vector<19>; Rcpp::LogicalVector = Rcpp::Vector<10, Rcpp::PreserveStorage>]'
delayed_reader.h:371:20: required from 'beachmat::delayed_matrix<T, V, base_mat>::delayed_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; base_mat = beachmat::lin_matrix<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::delayed_matrix<int, Rcpp::Vector<10, Rcpp::PreserveStorage>, beachmat::lin_matrix<int, Rcpp::Vector<10, Rcpp::PreserveStorage> > >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
logical_matrix.cpp:57:87: required from here
delayed_reader.h:154:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (i < 1 || i > original_dim) {
^
In file included from LIN_matrix.h:238:0,
from logical_matrix.h:4,
from logical_matrix.cpp:1:
LIN_methods_read.h: In instantiation of 'beachmat::const_col_indexed_info<V> beachmat::lin_matrix<T, V>::get_const_col_indexed(size_t, typename V::iterator, size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; beachmat::const_col_indexed_info<V> = std::tuple<long long unsigned int, int*, int*>; typename V::iterator = int*; size_t = long long unsigned int; typename V::iterator = int*]':
logical_matrix.cpp:86:1: required from here
LIN_methods_read.h:82:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (indices.size()!=this->get_nrow()) {
^
In file included from all_readers.h:10:0,
from LIN_matrix.h:4,
from logical_matrix.h:4,
from logical_matrix.cpp:1:
Csparse_reader.h: In instantiation of 'void beachmat::Csparse_reader<T, V>::get_row(size_t, Iter, size_t, size_t) [with Iter = int*; T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; size_t = long long unsigned int]':
LIN_methods_read.h:120:5: required from 'void beachmat::general_lin_matrix<T, V, RDR>::get_row(size_t, Rcpp::Vector<13>::iterator, size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; size_t = long long unsigned int; Rcpp::Vector<13>::iterator = int*; Rcpp::traits::storage_type<13>::type = int]'
logical_matrix.cpp:86:1: required from here
Csparse_reader.h:208:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (idex!=*pIt && i[idex]==r) { (*out)=x[idex]; }
^
Csparse_reader.h: In instantiation of 'void beachmat::Csparse_reader<T, V>::get_row(size_t, Iter, size_t, size_t) [with Iter = double*; T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; size_t = long long unsigned int]':
LIN_methods_read.h:126:5: required from 'void beachmat::general_lin_matrix<T, V, RDR>::get_row(size_t, Rcpp::Vector<14, Rcpp::PreserveStorage>::iterator, size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; size_t = long long unsigned int; Rcpp::Vector<14, Rcpp::PreserveStorage>::iterator = double*; Rcpp::traits::storage_type<14>::type = double]'
logical_matrix.cpp:86:1: required from here
Csparse_reader.h:208:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
Csparse_reader.h: In instantiation of 'T beachmat::Csparse_reader<T, V>::get(size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; size_t = long long unsigned int]':
LIN_methods_read.h:132:27: required from 'T beachmat::general_lin_matrix<T, V, RDR>::get(size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; size_t = long long unsigned int]'
logical_matrix.cpp:86:1: required from here
Csparse_reader.h:121:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (loc!=iend && *loc==r) {
^
Csparse_reader.h: In instantiation of 'void beachmat::Csparse_reader<T, V>::update_indices(size_t, size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; size_t = long long unsigned int]':
Csparse_reader.h:202:34: required from 'void beachmat::Csparse_reader<T, V>::get_row(size_t, Iter, size_t, size_t) [with Iter = int*; T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; size_t = long long unsigned int]'
LIN_methods_read.h:120:5: required from 'void beachmat::general_lin_matrix<T, V, RDR>::get_row(size_t, Rcpp::Vector<13>::iterator, size_t, size_t) [with T = int; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<int, Rcpp::Vector<10, Rcpp::PreserveStorage> >; size_t = long long unsigned int; Rcpp::Vector<13>::iterator = int*; Rcpp::traits::storage_type<13>::type = int]'
logical_matrix.cpp:86:1: required from here
Csparse_reader.h:164:43: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (curdex!=*pIt && i[curdex] < r) {
^
Csparse_reader.h:171:45: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (curdex!=*pIt && i[curdex-1] >= r) {
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c numeric_matrix.cpp -o numeric_matrix.o
In file included from all_readers.h:9:0,
from LIN_matrix.h:4,
from numeric_matrix.h:4,
from numeric_matrix.cpp:1:
dense_reader.h: In instantiation of 'beachmat::dense_reader<T, V>::dense_reader(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::dense_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:196:97: required from 'beachmat::dense_lin_matrix<T, V>::dense_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
numeric_matrix.cpp:51:85: required from here
dense_reader.h:60:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (x.size()!=(this->nrow)*NC) {
^
In file included from all_readers.h:10:0,
from LIN_matrix.h:4,
from numeric_matrix.h:4,
from numeric_matrix.cpp:1:
Csparse_reader.h: In instantiation of 'beachmat::Csparse_reader<T, V>::Csparse_reader(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:211:103: required from 'beachmat::Csparse_lin_matrix<T, V>::Csparse_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
numeric_matrix.cpp:53:87: required from here
Csparse_reader.h:78:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (NC+1!=p.size()) { throw_custom_error("length of 'p' slot in a ", ctype, " object should be equal to 'ncol+1'"); }
^
Csparse_reader.h:106:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (curi<0 || curi>=NR) {
^
In file included from all_readers.h:8:0,
from LIN_matrix.h:4,
from numeric_matrix.h:4,
from numeric_matrix.cpp:1:
simple_reader.h: In instantiation of 'beachmat::simple_reader<T, V>::simple_reader(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]':
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::simple_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:181:100: required from 'beachmat::simple_lin_matrix<T, V>::simple_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
numeric_matrix.cpp:63:78: required from here
simple_reader.h:59:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (mat.size()!=(this->nrow)*NC) {
^
In file included from all_readers.h:12:0,
from LIN_matrix.h:4,
from numeric_matrix.h:4,
from numeric_matrix.cpp:1:
delayed_reader.h: In instantiation of 'static void beachmat::delayed_coord_transformer<T, V>::obtain_indices(const RObject&, size_t, bool&, size_t&, std::vector<long long unsigned int>&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>; size_t = long long unsigned int]':
delayed_reader.h:115:80: required from 'beachmat::delayed_coord_transformer<T, V>::delayed_coord_transformer(const List&, const LogicalVector&, M) [with M = beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >*; T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; Rcpp::List = Rcpp::Vector<19>; Rcpp::LogicalVector = Rcpp::Vector<10, Rcpp::PreserveStorage>]'
delayed_reader.h:371:20: required from 'beachmat::delayed_matrix<T, V, base_mat>::delayed_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; base_mat = beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
LIN_methods_read.h:92:99: required from 'beachmat::general_lin_matrix<T, V, RDR>::general_lin_matrix(const RObject&) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::delayed_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage>, beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> > >; Rcpp::RObject = Rcpp::RObject_Impl<Rcpp::PreserveStorage>]'
numeric_matrix.cpp:57:87: required from here
delayed_reader.h:154:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (i < 1 || i > original_dim) {
^
In file included from LIN_matrix.h:238:0,
from numeric_matrix.h:4,
from numeric_matrix.cpp:1:
LIN_methods_read.h: In instantiation of 'beachmat::const_col_indexed_info<V> beachmat::lin_matrix<T, V>::get_const_col_indexed(size_t, typename V::iterator, size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; beachmat::const_col_indexed_info<V> = std::tuple<long long unsigned int, int*, double*>; typename V::iterator = double*; size_t = long long unsigned int; typename V::iterator = double*]':
numeric_matrix.cpp:86:1: required from here
LIN_methods_read.h:82:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (indices.size()!=this->get_nrow()) {
^
In file included from all_readers.h:10:0,
from LIN_matrix.h:4,
from numeric_matrix.h:4,
from numeric_matrix.cpp:1:
Csparse_reader.h: In instantiation of 'void beachmat::Csparse_reader<T, V>::get_row(size_t, Iter, size_t, size_t) [with Iter = int*; T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; size_t = long long unsigned int]':
LIN_methods_read.h:120:5: required from 'void beachmat::general_lin_matrix<T, V, RDR>::get_row(size_t, Rcpp::Vector<13>::iterator, size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; size_t = long long unsigned int; Rcpp::Vector<13>::iterator = int*; Rcpp::traits::storage_type<13>::type = int]'
numeric_matrix.cpp:86:1: required from here
Csparse_reader.h:208:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (idex!=*pIt && i[idex]==r) { (*out)=x[idex]; }
^
Csparse_reader.h: In instantiation of 'void beachmat::Csparse_reader<T, V>::get_row(size_t, Iter, size_t, size_t) [with Iter = double*; T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; size_t = long long unsigned int]':
LIN_methods_read.h:126:5: required from 'void beachmat::general_lin_matrix<T, V, RDR>::get_row(size_t, Rcpp::Vector<14, Rcpp::PreserveStorage>::iterator, size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; size_t = long long unsigned int; Rcpp::Vector<14, Rcpp::PreserveStorage>::iterator = double*; Rcpp::traits::storage_type<14>::type = double]'
numeric_matrix.cpp:86:1: required from here
Csparse_reader.h:208:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
Csparse_reader.h: In instantiation of 'T beachmat::Csparse_reader<T, V>::get(size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; size_t = long long unsigned int]':
LIN_methods_read.h:132:27: required from 'T beachmat::general_lin_matrix<T, V, RDR>::get(size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; size_t = long long unsigned int]'
numeric_matrix.cpp:86:1: required from here
Csparse_reader.h:121:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (loc!=iend && *loc==r) {
^
Csparse_reader.h: In instantiation of 'void beachmat::Csparse_reader<T, V>::update_indices(size_t, size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; size_t = long long unsigned int]':
Csparse_reader.h:202:34: required from 'void beachmat::Csparse_reader<T, V>::get_row(size_t, Iter, size_t, size_t) [with Iter = int*; T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; size_t = long long unsigned int]'
LIN_methods_read.h:120:5: required from 'void beachmat::general_lin_matrix<T, V, RDR>::get_row(size_t, Rcpp::Vector<13>::iterator, size_t, size_t) [with T = double; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; RDR = beachmat::Csparse_reader<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; size_t = long long unsigned int; Rcpp::Vector<13>::iterator = int*; Rcpp::traits::storage_type<13>::type = int]'
numeric_matrix.cpp:86:1: required from here
Csparse_reader.h:164:43: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (curdex!=*pIt && i[curdex] < r) {
^
Csparse_reader.h:171:45: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (curdex!=*pIt && i[curdex-1] >= r) {
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c output_param.cpp -o output_param.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c repacker.cpp -o repacker.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rhdf5lib/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c utils.cpp -o utils.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o beachmat.dll tmp.def HDF5_utils.o character_matrix.o character_output.o dim_checker.o find_chunks.o functions.o integer_matrix.o logical_matrix.o numeric_matrix.o output_param.o repacker.o utils.o -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/Rhdf5lib/lib/x64 -lhdf5_cpp -lhdf5 -lszip -lz -lpsapi -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR -lm -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o libbeachmat.dll dim_checker.o character_matrix.o character_output.o integer_matrix.o logical_matrix.o numeric_matrix.o utils.o HDF5_utils.o output_param.o -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/Rhdf5lib/lib/x64 -lhdf5_cpp -lhdf5 -lszip -lz -lpsapi -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR -lm
C:/Rtools/mingw_64/bin/ar crs libbeachmat.a dim_checker.o character_matrix.o character_output.o integer_matrix.o logical_matrix.o numeric_matrix.o utils.o HDF5_utils.o output_param.o
mkdir -p "C:/Users/biocbuild/bbs-3.8-bioc/meat/beachmat.buildbin-libdir/beachmat/lib/x64" "C:/Users/biocbuild/bbs-3.8-bioc/meat/beachmat.buildbin-libdir/beachmat/include/beachmat"
cp dim_checker.h utils.h beachmat.h HDF5_utils.h output_param.h HDF5_reader.h Csparse_reader.h dense_reader.h simple_reader.h all_readers.h delayed_reader.h unknown_reader.h external_reader.h simple_writer.h Csparse_writer.h HDF5_writer.h all_writers.h LIN_matrix.h LIN_methods_read.h LIN_methods_write.h LIN_output.h logical_matrix.h integer_matrix.h character_matrix.h numeric_matrix.h character_output.h "C:/Users/biocbuild/bbs-3.8-bioc/meat/beachmat.buildbin-libdir/beachmat/include/beachmat"
mv libbeachmat.* "C:/Users/biocbuild/bbs-3.8-bioc/meat/beachmat.buildbin-libdir/beachmat/lib/x64"
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/beachmat.buildbin-libdir/beachmat/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'beachmat' as beachmat_1.4.0.zip
* DONE (beachmat)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'beachmat' successfully unpacked and MD5 sums checked
In R CMD INSTALL
