Re: C++ help for latest version of flexbar needed
Hi Johannes,
thanks for the quick reply
Andreas.
On Tue, Oct 11, 2016 at 03:40:04PM +0200, Röhr, Johannes wrote:
> Hi Andreas,
>
> I used SeqAn 2.1.1 for Flexbar 2.7, but version 3.0 is almost ready.
> It is currently in beta status and uses SeqAn 2.2.0, which requires
> the c++14 standard compiler flag by the way.
>
> I will notify you as soon as the final version 3.0 is there.
>
> Best, Johannes
>
>
> > On 11 Oct 2016, at 09:30, Andreas Tille <andreas@an3as.eu> wrote:
> >
> > Hi,
> >
> > since we now have seqan2 available I tried to build the latest flexbar
> > from Github (watch file in SVN points to this location). Unfortunately
> > I get a build error when trying to build flexbar 2.7.0 agains seqan
> > 2.2.0:
> >
> > ...
> > /usr/include/seqan/align/dp_setup.h:286:29: required from 'typename seqan::Value<seqan::Score<TScoreValue2, TScoreSpec> >::Type seqan::_setUpAndRunAlignment(seqan::DPContext<TScoreValue, TGapCosts>&, TTrace&, seqan::DPScoutState_<TDPScoutStateSpec>&, const TSequenceH&, const TSequenceV&, const seqan::Score<TScoreValue2, TScoreSpec>&, const seqan::AlignConfig2<TDPType, TBand, TFreeEndGaps, TTraceConfig>&) [with TScoreValue = int; TGapModel = seqan::Tag<seqan::AffineGaps_>; TDPScoutStateSpec = seqan::Tag<seqan::Default_>; TTrace = seqan::String<seqan::TraceSegment_<long unsigned int, long unsigned int>, seqan::Alloc<> >; TSequenceH = seqan::String<seqan::SimpleType<unsigned char, seqan::Dna5_>, seqan::Alloc<> >; TSequenceV = seqan::String<seqan::SimpleType<unsigned char, seqan::Dna5_>, seqan::Alloc<> >; TScoreValue2 = int; TScoreSpec = seqan::ScoreMatrix<seqan::SimpleType<unsigned char, seqan::Dna5_>, seqan::Tag<seqan::Default_> >; TDPType = seqan::GlobalAlignment_<>; TBand = seqan::DPBandConfig<seqan::Tag<seqan::BandOff_> >; TFreeEndGaps = seqan::FreeEndGaps_<seqan::True, seqan::True, seqan::True, seqan::True>; TTraceConfig = seqan::TracebackOn<seqan::TracebackConfig_<seqan::Tag<seqan::SingleTrace_>, seqan::Tag<seqan::GapsLeft_> > >; typename seqan::Value<seqan::Score<TScoreValue2, TScoreSpec> >::Type = int]'
> > /usr/include/seqan/align/dp_setup.h:307:33: required from 'typename seqan::Value<seqan::Score<TScoreValue2, TScoreSpec> >::Type seqan::_setUpAndRunAlignment(TTrace&, seqan::DPScoutState_<TDPScoutStateSpec>&, const TSequenceH&, const TSequenceV&, const seqan::Score<TScoreValue2, TScoreSpec>&, const seqan::AlignConfig2<TDPType, TBand, TFreeEndGaps, TTraceConfig>&, const TGapModel&) [with TTrace = seqan::String<seqan::TraceSegment_<long unsigned int, long unsigned int>, seqan::Alloc<> >; TDPScoutStateSpec = seqan::Tag<seqan::Default_>; TSequenceH = seqan::String<seqan::SimpleType<unsigned char, seqan::Dna5_>, seqan::Alloc<> >; TSequenceV = seqan::String<seqan::SimpleType<unsigned char, seqan::Dna5_>, seqan::Alloc<> >; TScoreValue2 = int; TScoreSpec = seqan::ScoreMatrix<seqan::SimpleType<unsigned char, seqan::Dna5_>, seqan::Tag<seqan::Default_> >; TDPType = seqan::GlobalAlignment_<>; TBand = seqan::DPBandConfig<seqan::Tag<seqan::BandOff_> >; TFreeEndGaps = seqan::FreeEndGaps_<seqan::True, seqan::True, seqan::True, seqan::True>; TTraceConfig = seqan::TracebackOn<seqan::TracebackConfig_<seqan::Tag<seqan::SingleTrace_>, seqan::Tag<seqan::GapsLeft_> > >; TGapModel = seqan::Tag<seqan::AffineGaps_>; typename seqan::Valsrc/CMakeFiles/flexbar.dir/build.make:65: recipe for target 'src/CMakeFiles/flexbar.dir/Flexbar.cpp.o' failed
> > make[3]: *** [src/CMakeFiles/flexbar.dir/Flexbar.cpp.o] Error 1
> > make[3]: Leaving directory '/build/flexbar-2.7.0/obj-x86_64-linux-gnu'
> > CMakeFiles/Makefile2:88: recipe for target 'src/CMakeFiles/flexbar.dir/all' failed
> > make[2]: *** [src/CMakeFiles/flexbar.dir/all] Error 2
> >
> >
> > Any idea what might be wrong here?
> >
> > Kind regards
> >
> > Andreas.
> >
> > --
> > http://fam-tille.de
>
--
http://fam-tille.de
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