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 <[email protected]> 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
