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我尝试从 Seqan 网站复制迷你领结的示例。请注意,该示例来自版本 1.4.2,而不是当前版本。

当我编译时,我有一个错误。最小的可重现示例是:

#include <seqan/index.h>
#include <seqan/store.h>

using namespace seqan;

int main()
{   
    typedef Index<StringSet<Dna5String>, FMIndex<> > TIndex;
    typedef Iterator<TIndex, TopDown<ParentLinks<> > >::Type TIter;

    FragmentStore<> fragStore;
    StringSet<Dna5String> text;

    TIndex fmIndex(text);
    TIter it(fmIndex);

    it = TIter(fmIndex); // This does not work

    return 0;
}

编译错误很长。它开始于:

In file included from test.cpp:1:
In file included from /usr/include/seqan/index.h:172:
/usr/include/seqan/index/index_fm_stree.h:469:16: error: no matching constructor for initialization of 'TVertexDescriptor' (aka 'VertexFM<unsigned long, seqan::SimpleType<unsigned char, seqan::Dna5_> >')
        return TVertexDescriptor(back(it.history).range, back(it.history).repLen, back(it.history).lastChar);
               ^                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/seqan/index/index_esa_stree.h:245:27: note: in instantiation of function template specialization 'seqan::nodeUp<seqan::StringSet<seqan::String<seqan::SimpleType<unsigned char, seqan::Dna5_>,
      seqan::Alloc<void> >, seqan::Owner<seqan::Tag<seqan::Default_> > >, void, seqan::FMIndexConfig<void, unsigned long, 1, 1>, seqan::Preorder>' requested here
            _parentDesc = nodeUp(_origin);
                          ^
/usr/include/seqan/index/index_esa_stree.h:366:29: note: in instantiation of function template specialization 'seqan::Iter<seqan::Index<seqan::StringSet<seqan::String<seqan::SimpleType<unsigned char,
      seqan::Dna5_>, seqan::Alloc<void> >, seqan::Owner<seqan::Tag<seqan::Default_> > >, seqan::FMIndex<void, seqan::FMIndexConfig<void, unsigned long, 1, 1> > >, seqan::VSTree<seqan::TopDown<seqan::Preorder> >
      >::operator=<seqan::ParentLinks<seqan::Preorder> >' requested here
            *(TBase*)(this) = _origin;
                            ^
test.cpp:17:8: note: in instantiation of member function 'seqan::Iter<seqan::Index<seqan::StringSet<seqan::String<seqan::SimpleType<unsigned char, seqan::Dna5_>, seqan::Alloc<void> >,
      seqan::Owner<seqan::Tag<seqan::Default_> > >, seqan::FMIndex<void, seqan::FMIndexConfig<void, unsigned long, 1, 1> > >, seqan::VSTree<seqan::TopDown<seqan::ParentLinks<seqan::Preorder> > > >::operator='
      requested here
    it = TIter(fmIndex);
       ^

API 似乎略有变化,但我不能完全确定它。

我编译:

clang++ -Wall -Wextra -Weffc++ -O2 -o testSeqan test.cpp -lrt

with clang++ 6.0.0-1ubuntu2 x86_64-pc-linux-gnu, 但g++ Ubuntu 7.3.0-16ubuntu3给出了类似的(尽管可读性较差)结果,以及 Seqan 版本 2.3.2。

我应该改变什么?

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