Package: flipflop

Version: 1.24.0

Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data flipflop

StartedAt: 2020-04-14 20:41:01 -0400 (Tue, 14 Apr 2020)

EndedAt: 2020-04-14 20:41:04 -0400 (Tue, 14 Apr 2020)

EllapsedTime: 3.5 seconds

RetCode: 1

Status:  ERROR

PackageFile: None

PackageFileSize: NA

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data flipflop
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* checking for file ‘flipflop/DESCRIPTION’ ... OK
* preparing ‘flipflop’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
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* installing *source* package ‘flipflop’ ...
** using staged installation
** libs
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG   -I/usr/local/include -I. -Ispams/linalg -Ispams/prox -Ispams/decomp -Ispams/dags -fopenmp   -DUSE_BLAS_LIB -DNDEBUG -fpic  -g -O2  -Wall -c FileSplitter.cpp -o FileSplitter.o
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG   -I/usr/local/include  -fpic  -g -O2  -Wall -c R_init_flipflop.c -o R_init_flipflop.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG   -I/usr/local/include -I. -Ispams/linalg -Ispams/prox -Ispams/decomp -Ispams/dags -fopenmp   -DUSE_BLAS_LIB -DNDEBUG -fpic  -g -O2  -Wall -c align.cpp -o align.o
In file included from align.h:5:0,
                 from align.cpp:5:
commontype.h: In function ‘range_t make_range_t(long int, long int)’:
commontype.h:18:75: error: no matching function for call to ‘make_pair<long int, long int>(long int&, long int&)’
 inline range_t make_range_t(long a,long b){return make_pair<long,long>(a,b);}
                                                                           ^
In file included from /usr/include/c++/7/bits/stl_algobase.h:64:0,
                 from /usr/include/c++/7/bits/char_traits.h:39,
                 from /usr/include/c++/7/ios:40,
                 from /usr/include/c++/7/ostream:38,
                 from /usr/include/c++/7/iostream:39,
                 from align.cpp:1:
/usr/include/c++/7/bits/stl_pair.h:524:5: note: candidate: template<class _T1, class _T2> constexpr std::pair<typename std::__decay_and_strip<_Tp>::__type, typename std::__decay_and_strip<_T2>::__type> std::make_pair(_T1&&, _T2&&)
     make_pair(_T1&& __x, _T2&& __y)
     ^~~~~~~~~
/usr/include/c++/7/bits/stl_pair.h:524:5: note:   template argument deduction/substitution failed:
In file included from align.h:5:0,
                 from align.cpp:5:
commontype.h:18:75: note:   cannot convert ‘a’ (type ‘long int’) to type ‘long int&&’
 inline range_t make_range_t(long a,long b){return make_pair<long,long>(a,b);}
                                                                           ^
align.cpp: In function ‘std::ostream& operator<<(std::ostream&, Align&)’:
align.cpp:11:16: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0;i<a.start.size();i++) out<<a.start[i]<<"-"<<a.end[i]<<",";
               ~^~~~~~~~~~~~~~~
align.cpp: In member function ‘int Align::getReadLen() const’:
align.cpp:19:16: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=0;i<start.size();i++)
               ~^~~~~~~~~~~~~
/home/biocbuild/bbs-3.10-bioc/R/etc/Makeconf:177: recipe for target 'align.o' failed
make: *** [align.o] Error 1
ERROR: compilation failed for package ‘flipflop’
* removing ‘/tmp/Rtmp25HNLw/Rinst63cd8d345a7/flipflop’
      -----------------------------------
ERROR: package installation failed