Re: [Seqan-dev] conversion tà std::string

[Rahn, René <Rene.Rahn@fu-berlin.de>]

Hi Sacha,

our sequence containers do not offer implicit or explicit conversion to STL containers.

At least not that I am aware of. 

Also the conversion by toCString does not imply a conversion to const char *.

It is merely a function to access the underlying data, like std::data, but with a kind of confusing naming. 

In your case, you can simply call  the range constructor of the std::string class:

std::string test1{begin(record.seq, Standard{}), end{record.seq, Standard{}}};

Also while doing this, you need to be sure, that whatever is stored in the seqan::String is also convertible to your target type. Converting a seqan alphabet to char implicitly is fine in SeqAn2.

But please be aware of the fact, that a seqan::String is more like a std::vector then the std::string. 

I would also like to ask you to file an issue on our issue tracker: https://github.com/seqan/seqan/issues in the future.

I hope this helps.

cheers,

René

On 16. Mar 2018, at 15:12, labsquare <sacha@labsquare.org> wrote:

I would like to convert seqan String to std::string or QString ... unsucessfully. 

could you help  me ?  I don't understand . seqan::toCString is supposed to return char *

with std : 

        seqan::readRecord(record, bamFileIn);        
        std::string test1 = seqan::toCString(record.seq);

with Qt : 

        QString test2 = QString::fromLocal8Bit(seqan::toCString(record.seq));

error : 

../bamviewer-poc/bamviewer.cpp:147:45: error: conversion from ‘seqan::SimpleType<unsigned char, seqan::Iupac_>*’ to non-scalar type ‘std::__cxx11::string {aka std::__cxx11::basic_string<char>}’ requested

std::string test1 = seqan::toCString(record.seq);

--

--
Dr Sacha Schutz

médecine / génétique moléculaire

Bioinformaticien

+33651571606

dridk.me

www.labsquare.org

Fork me on github

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René Rahn

Ph.D. Student (de.NBI - CIBI)

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Tel:  (+49) 30 838 72974

Mail: rene.rahn@fu-berlin.de

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