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Old 10-22-2009, 06:19 AM   #1
Location: Oxford

Join Date: Apr 2009
Posts: 28
Default Mosaik assembler error

I am using the Mosaik assembler with some 454 reads and carried out the


steps with no problems.
When I try to do the MosaikAssembler step I get the following error:

alignment count reference sequence
2983 mitochondria

Processing reference sequence mitochondria:
- inserting gaps into reference sequence... finished.
- creating ungapped to gapped conversion table... finished.
- writing assembly header... finished.
- locating first read for this reference sequence... ERROR: Expected more reads to assemble.

Has anyone else had this error or knows how to solve it? Any advice would be appreciated, thanks.
lindseyjane is offline   Reply With Quote
Old 10-22-2009, 01:11 PM   #2
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Location: SLC

Join Date: Oct 2009
Posts: 1

I have had the exact error with Illumina reads. I posted an issue alert to Michael on this link
He is aware of this error and is currently working on it.
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Old 10-22-2009, 06:23 PM   #3
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Location: Boston, MA

Join Date: Oct 2009
Posts: 9

Hi Jeff and Lindsey,

I was swamped earlier this week, but tomorrow will be dedicated to fixing the MosaikAssembler bug.


// Michael
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Old 11-18-2009, 03:35 PM   #4
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Location: Adelaide / London

Join Date: Nov 2009
Posts: 2


I am experiencing the same problem when I try to align 65bp Illumina reads to the whole Human genome - all of the initial steps work with no problems, but MosaikAssembler stalls after the 1st chromosome in the reference file with the same error. Does anyone know of a way around this problem?

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