Re: [Seqan-dev] bug report readSequence()
Hello,
Could you please create a GitHub issue (https://github.com/seqan/seqan/issues/new) including a small example to reproduce your problem?
Thanks,
Enrico
On 05 Nov 2015, at 13:17, Eik Dahms <eik.dahms@gmail.com> wrote:
> Hello,
> my sequence alphabet uses strictly "ACTG". This seems not to be causing this allocation error. Also it shouldn't work on any system then.
>
> Cordially
> Eik Dahms
>
> Christophe VROLAND <christophe.vroland@ed.univ-lille1.fr> schrieb am Fr., 30. Okt. 2015 um 13:49 Uhr:
> On 30/10/2015 13:21, Eik Dahms wrote:
>> Dear all,
>>
>> i recently upgraded sequan from 1.4.0 to 2.0.0. I did not change my code.
>>
>> When i now try to run the program i get the following allocation error when i try to read a sequence via readSequence() from a FaiIndex:
>>
>> /seqan/basic/basic_exception.h:368 FAILED! (Uncaught exception of type std::bad_alloc: std::bad_alloc)
>>
>> This error occurs only on my laptop with 4GB RAM. When i run the program on a Server with 500GB RAM - it works.
>>
>> It seems that the memory that is allocated, for the string that the sequence is read in, is to high.
>>
>> I appended the stacktrace from gnu debugger.
>>
>> Thanks in advance !
>> Eik
>>
>>
>>
>>
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>>
>> seqan-dev@lists.fu-berlin.de
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> Hello,
> I have ever got this problem when my sequence alphabet used in the code doesn't include all the alphabet of the sequence I try to read.
> You use a Dna5 alphabet, maybe, there's an other letter than "ACGTN" in your sequence (a "X" ?).
>
> Cordially
>
>
> --
> Christophe VROLAND
>
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