[khmer] Use diginorm to delete identical reads

[Karl Nordström]

Hi Daniel,

I had the same error recently and learned that the maximum boundary of for
khmer is 32. I was told that a relaxation of this limitation is in the
pipeline.

Best,

Karl


On Mon, Aug 5, 2013 at 8:38 AM, cy_jiang <cy_jiang at 126.com> wrote:

> Hi all,
>
> I am wondering if I can use diginorm to remove identical reads from my
> dataset.* *
> *
> *
> Precisely, I got paired-end reads of length 100bp. I first interleaved the
> reads into one file, then ran diginorm with -k 100 -C 1 -x 7.2e9 -N 4. Then
> the following information prompted up:
> python: ktable.cc:21: khmer::HashIntoType khmer::_hash(const char*,
> khmer::WordLength, khmer::HashIntoType&, khmer::HashIntoType&): Assertion
> `k <= sizeof(HashIntoType)*4' failed.
> What did this exactly mean? Is there anything I can do to achieve the
> goal?
>
> Thanks in advance!
>
> Daniel
>
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