[Seqan-dev] Strange Warning Message with SeqAn 2.0 / gcc 4.8

[Brett Bowman <bnbowman@gmail.com>]

Has anyone seen this before?

"""

In file included from /home/UNIXHOME/bbowman/p4/software/smrtanalysis/bioinformatics/staging/PostPrimary/sparsealignment/third-party/seqan-library-2.0.0/include/seqan/seeds.h:83:0,

                 from /home/UNIXHOME/bbowman/p4/software/smrtanalysis/bioinformatics/staging/PostPrimary/sparsealignment/include/pbsparse/FindSeedsConfig.h:43,

                 from /home/UNIXHOME/bbowman/p4/software/smrtanalysis/bioinformatics/staging/PostPrimary/polylabel/src/../include/postprimary/polylabel/labeler/control/ControlFilter.h:44,

                 from /home/UNIXHOME/bbowman/p4/software/smrtanalysis/bioinformatics/staging/PostPrimary/polylabel/src/ControlFilter.cpp:45:

/home/UNIXHOME/bbowman/p4/software/smrtanalysis/bioinformatics/staging/PostPrimary/sparsealignment/third-party/seqan-library-2.0.0/include/seqan/seeds/banded_chain_alignment_traceback.h: In instantiation of ‘void seqan::_glueTracebacks(TTraceSet&, TTraceSet&) [with TTraceSet = seqan::StringSet<seqan::String<seqan::TraceSegment_<long unsigned int, long unsigned int>, seqan::Alloc<> >, seqan::Owner<> >]’:

/home/UNIXHOME/bbowman/p4/software/smrtanalysis/bioinformatics/staging/PostPrimary/sparsealignment/third-party/seqan-library-2.0.0/include/seqan/seeds/banded_chain_alignment_impl.h:1246:58:   required from ‘TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const seqan::Score<TScoreValue, TScoreSpec>&, const seqan::Score<TScoreValue, TScoreSpecGap>&, unsigned int, const seqan::DPProfile_<seqan::BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapSpec, seqan::TracebackOn<TTracebackConfig> >&) [with TTraceSet = seqan::StringSet<seqan::String<seqan::TraceSegment_<long unsigned int, long unsigned int>, seqan::Alloc<> >, seqan::Owner<> >; TSeedSet = seqan::String<seqan::Seed<seqan::Tag<seqan::Simple_> > >; TSequenceH = seqan::String<seqan::SimpleType<unsigned char, seqan::Dna_>, seqan::Alloc<> >; TSequenceV = seqan::String<seqan::SimpleType<unsigned char, seqan::Dna_>, seqan::Alloc<> >; TScoreValue = long int; TScoreSpecAnchor = const seqan::Tag<seqan::BiAffine_>; TScoreSpecGap = const seqan::Tag<seqan::BiAffine_>; TFreeEndGaps = seqan::FreeEndGaps_<seqan::True, seqan::True, seqan::True, seqan::True>; TDPMatrixLocation = seqan::Tag<seqan::BandedChainInnerDPMatrix_>; TGapSpec = seqan::Tag<seqan::AffineGaps_>; TTracebackConfig = seqan::TracebackConfig_<seqan::Tag<seqan::CompleteTrace_>, seqan::Tag<seqan::GapsLeft_> >]’

/home/UNIXHOME/bbowman/p4/software/smrtanalysis/bioinformatics/staging/PostPrimary/sparsealignment/third-party/seqan-library-2.0.0/include/seqan/seeds/banded_chain_alignment_profile.h:255:47:   required from ‘TScoreValue seqan::_setupAndRunBandedChainAlignment(seqan::StringSet<seqan::String<TString>, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const seqan::Score<TScoreValue2, TScoreSpec>&, const seqan::Score<TScoreValue, TScoreSpecGap>&, const seqan::AlignConfig<TFirstRow, TFirstColumn, TLastColumn, TLastRow, TACSpec>&, unsigned int, const TGapsPlacement&) [with TTraceSegment = seqan::TraceSegment_<long unsigned int, long unsigned int>; TStringSetSpec = seqan::Owner<>; TSeeds = seqan::String<seqan::Seed<seqan::Tag<seqan::Simple_> > >; TSequenceH = seqan::String<seqan::SimpleType<unsigned char, seqan::Dna_>, seqan::Alloc<> >; TSequenceV = seqan::String<seqan::SimpleType<unsigned char, seqan::Dna_>, seqan::Alloc<> >; TScoreValue = long int; TScoreSpecAnchor = const seqan::Tag<seqan::BiAffine_>; TScoreSpecGap = const seqan::Tag<seqan::BiAffine_>; bool TFirstRow = true; bool TFirstColumn = true; bool TLastColumn = true; bool TLastRow = true; TACSpec = seqan::Tag<seqan::Default_>; TGapsPlacement = seqan::Tag<seqan::GapsLeft_>]’

/home/UNIXHOME/bbowman/p4/software/smrtanalysis/bioinformatics/staging/PostPrimary/sparsealignment/third-party/seqan-library-2.0.0/include/seqan/seeds/banded_chain_alignment.h:202:115:   required from ‘TScoreValue seqan::bandedChainAlignment(seqan::Align<TSource, TSpec>&, const TSeeds&, const seqan::Score<TScoreValue, TScoreSpec>&, const seqan::Score<TScoreValue, TScoreSpecGap>&, const seqan::AlignConfig<TOP, LEFT, RIGHT, BOTTOM, TACSpec>&, unsigned int) [with TSequence = seqan::String<seqan::SimpleType<unsigned char, seqan::Dna_>, seqan::Alloc<> >; TAlignSpec = seqan::Tag<seqan::ArrayGaps_>; TSeeds = seqan::String<seqan::Seed<seqan::Tag<seqan::Simple_> > >; TScoreValue = long int; TScoreSpecAnchor = const seqan::Tag<seqan::BiAffine_>; TScoreSpecGap = const seqan::Tag<seqan::BiAffine_>; bool TFirstRow = true; bool TFirstColumn = true; bool TLastColumn = true; bool TLastRow = true; TACSpec = seqan::Tag<seqan::Default_>]’

/home/UNIXHOME/bbowman/p4/software/smrtanalysis/bioinformatics/staging/PostPrimary/sparsealignment/third-party/seqan-library-2.0.0/include/seqan/seeds/banded_chain_alignment.h:221:101:   required from ‘TScoreValue seqan::bandedChainAlignment(seqan::Align<TSource, TSpec>&, const TSeeds&, const seqan::Score<TScoreValue, TScoreSpec>&, const seqan::AlignConfig<TOP, LEFT, RIGHT, BOTTOM, TACSpec>&, unsigned int) [with TSequence = seqan::String<seqan::SimpleType<unsigned char, seqan::Dna_>, seqan::Alloc<> >; TAlignSpec = seqan::Tag<seqan::ArrayGaps_>; TSeeds = seqan::String<seqan::Seed<seqan::Tag<seqan::Simple_> > >; TScoreValue = long int; TScoreSpec = const seqan::Tag<seqan::BiAffine_>; bool TFirstRow = true; bool TFirstColumn = true; bool TLastColumn = true; bool TLastRow = true; TACSpec = seqan::Tag<seqan::Default_>]’

/home/UNIXHOME/bbowman/p4/software/smrtanalysis/bioinformatics/staging/PostPrimary/sparsealignment/include/pbsparse/BandedAligner.h:190:49:   required from here

/home/UNIXHOME/bbowman/p4/software/smrtanalysis/bioinformatics/staging/PostPrimary/sparsealignment/third-party/seqan-library-2.0.0/include/seqan/seeds/banded_chain_alignment_traceback.h:126:10: warning: variable ‘isGlued’ set but not used [-Wunused-but-set-variable]

     bool isGlued = false;

"""

--Brett