Re: [Seqan-dev] Fatal Error in Banded Chain Alignment Traceback
- From: Rahn, René <rene.maerker@fu-berlin.de>
- To: SeqAn Development <seqan-dev@lists.fu-berlin.de>
- Date: Sun, 16 Nov 2014 11:57:57 +0100
- Reply-to: SeqAn Development <seqan-dev@lists.fu-berlin.de>
- Subject: Re: [Seqan-dev] Fatal Error in Banded Chain Alignment Traceback
Hey Brett,
It could have multiple reasons.
In general, it means that there was a traceback path from a seed or a gap, that couldn’t be connected with one of the so far generated traceback paths. Note, that the traceback is computed incrementally to reduce the space requirements.
If you could send me a simple text file containing the seeds of the seed chain (one seed per row using the <<-operator), that is input to the banded chain alignment function, I could have a look at it and fix the problem.
Also, I opened an issue in github: https://github.com/seqan/seqan/issues/699, for tracking the issue.
Kind regards,
René Rahn
---
René Rahn
Ph.D. Student
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Institute of Computer Science
Algorithmic Bioinformatics (ABI)
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Freie Universität Berlin
Takustraße 9
14195 Berlin
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- From: Brett Bowman <bnbowman@gmail.com>
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- From: Brett Bowman <bnbowman@gmail.com>
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