Question: Failure in Tophat fusion installation
gravatar for deepakchoubey16
3.2 years ago by
deepakchoubey160 wrote:

Hi ,

I am new to bioinformatics. I am trying to install tool name Tophat fusion but it is continuously throwing me an error o step "make"

make  all-recursive
make[1]: Entering directory `/home/deepak/Tools/Tophat-fusion/tophatfusion-0.1.0'
Making all in src
make[2]: Entering directory `/home/deepak/Tools/Tophat-fusion/tophatfusion-0.1.0/src'
make[3]: Entering directory `/home/deepak/Tools/Tophat-fusion/tophatfusion-0.1.0'
make[3]: Leaving directory `/home/deepak/Tools/Tophat-fusion/tophatfusion-0.1.0'
if g++ -DHAVE_CONFIG_H -I. -I. -I..   -I/usr/include -Wall -m64 -O3  -DNDEBUG -I/home/deepak/Tools/samtools/include -I./SeqAn-1.2 -Wall -m64 -O3  -DNDEBUG -I/home/deepak/Tools/samtools/include -MT gff.o -MD -MP -MF ".deps/gff.Tpo" -c -o gff.o gff.cpp; \
    then mv -f ".deps/gff.Tpo" ".deps/gff.Po"; else rm -f ".deps/gff.Tpo"; exit 1; fi
In file included from GFaSeqGet.h:4:0,
                 from gff.h:7,
                 from gff.cpp:1:
GList.hh: In instantiation of ‘int GArray<OBJ>::Add(OBJ*) [with OBJ = GffCDSeg]’:
GList.hh:107:42:   required from ‘int GArray<OBJ>::Add(OBJ&) [with OBJ = GffCDSeg]’
gff.cpp:1384:22:   required from here
GList.hh:507:27: error: ‘idxInsert’ was not declared in this scope, and no declarations were found by argument-dependent lookup at the point of instantiation [-fpermissive]
    idxInsert(result, *item);
GList.hh:507:27: note: declarations in dependent base ‘GVec<GffCDSeg>’ are not found by unqualified lookup
GList.hh:507:27: note: use ‘this->idxInsert’ instead
make[2]: *** [gff.o] Error 1
make[2]: Leaving directory `/home/deepak/Tools/Tophat-fusion/tophatfusion-0.1.0/src'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/home/deepak/Tools/Tophat-fusion/tophatfusion-0.1.0'
make: *** [all] Error 2

can some please explain me what this error is all about?


ADD COMMENTlink modified 3.1 years ago by Biostar ♦♦ 20 • written 3.2 years ago by deepakchoubey160
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