Hi,
is this tools still being maintained? Suggestions for other tools if not?
I am having difficulty installing. I am using R 3.2.1 and boost 1.48.0 on a
Linux box.
R CMD INSTALL spp_1.10.1.tar.gz
* installing to library â/home/rsettlage/R/libraryâ
* installing *source* package âsppâ ...
checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for BZ2_bzDecompressInit in -lbz2... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
g++ -I/apps/packages/stats/R/3.2.1/lib64/R/include -DNDEBUG
-I/usr/local/include -I./ -D_FASTMAP -DMAQ_LONGREADS -fpic -g -O2 -c
BGZF.cpp -o BGZF.o
g++ -I/apps/packages/stats/R/3.2.1/lib64/R/include -DNDEBUG
-I/usr/local/include -I./ -D_FASTMAP -DMAQ_LONGREADS -fpic -g -O2 -c
BamAlignment.cpp -o BamAlignment.o
g++ -I/apps/packages/stats/R/3.2.1/lib64/R/include -DNDEBUG
-I/usr/local/include -I./ -D_FASTMAP -DMAQ_LONGREADS -fpic -g -O2 -c
BamIndex.cpp -o BamIndex.o
In file included from BamIndex.cpp:13:0:
./BamIndex.h:77:23: error: âoff_tâ does not name a type
virtual const off_t DataBeginOffset(void) const =0;
^
In file included from ./BamIndex.h:15:0,
from BamIndex.cpp:13:
BamIndex.cpp: In member function âbool BamTools::BamIndex::Rewind()â:
BamIndex.cpp:149:53: error: âDataBeginOffsetâ was not declared in this scope
return ( fseek64(m_indexStream, DataBeginOffset(), SEEK_SET) == 0 );
^
./BamAux.h:30:41: note: in definition of macro âfseek64â
#define fseek64(a,b,c) fseeko(a,b,c)
^
make: *** [BamIndex.o] Error 1
ERROR: compilation failed for package âsppâ
* removing â/home/rsettlage/R/library/sppâ
Original issue reported on code.google.com by bobsettl...@gmail.com on 19 Aug 2015 at 1:20
Original issue reported on code.google.com by
bobsettl...@gmail.com
on 19 Aug 2015 at 1:20