Re: [Seqan-dev] Infix of const String

[Fadhlan Rizal <fadhlan.fari@gmail.com>]

hi,

hmm, i never use that for pointer.

sorry i can't help you.

best regards.

2015-06-03 21:56 GMT+07:00 Alexander Vowinkel <vowinkel.alexander@gmail.com>:

Hi Fadhlan,

your example also works for me.

The difference is, that you use as first parameter a DnaString.

I use representative(indexIt), which is according to the error message

a pointer to a Dna5String.

I would say that this should work as well.

Best,

Alexander

2015-06-02 23:42 GMT-05:00 Fadhlan Rizal <fadhlan.fari@gmail.com>:

i don't know, but when i using my program it's work perfectly, of course i using another type (not TBarcodeString).

here my example:

DnaString mySekuens  = "ACGTACGTACGT";

startPosition = 0;

endPosition = startPosition + 5;

Infix<String<Dna> >::Type inf;

inf = infix(mySekuens, startPosition, endPosition);

the output  ACGTA;

2015-06-03 6:46 GMT+07:00 Alexander Vowinkel <vowinkel.alexander@gmail.com>:

Hi Team,

adopting from IndexIterators Tutorial, following problem came up:

When I want to save an Infix of an representative in an Index Iterator:

seqan::Infix<TBarcodeString>::Type referenceIfx = infix(representative(indexIt), parentRepLength(indexIt) + 1, endPos);

the error pops up, that I can't use a const String for this:

/opt/seqan/seqan-src/include/seqan/sequence/segment_infix.h:135:42: error: invalid conversion from ‘seqan::Pointer_<const seqan::String<seqan::SimpleType<unsigned char, seqan::Dna5_>, seqan::Alloc<> > >::Type {aka const seqan::String<seqan::SimpleType<unsigned char, seqan::Dna5_>, seqan::Alloc<> >*}’ to ‘seqan::Pointer_<seqan::String<seqan::SimpleType<unsigned char, seqan::Dna5_>, seqan::Alloc<> > >::Type {aka seqan::String<seqan::SimpleType<unsigned char, seqan::Dna5_>, seqan::Alloc<> >*}’ [-fpermissive]
         data_host(_toPointer(host(_other))),

Solutions?

Best,

Alexander 

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