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MosaikBuild ERROR with SOLiD data, The lengths of bases(49) and qualities(50) of Read didn't match. #72

Closed GoogleCodeExporter closed 8 years ago

GoogleCodeExporter commented 8 years ago 
What steps will reproduce the problem?

MosaikBuild -fr data.csfasta.gz -fq data.qual.gz -cs -st solid -out data.cs.dat

(Works with MosaikBuild 1.0.1388, but not with 1.1.0017)

What is the expected output? What do you see instead?

ERROR OUTPUT:
------------------------------------------------------------------------------
MosaikBuild 1.1.0017                                                2010-10-24
Michael Stromberg & Wan-Ping Lee  Marth Lab, Boston College Biology Department
------------------------------------------------------------------------------

- setting read group ID to: ZDEZPOPWU84
- setting sample name to: unknown
- setting sequencing technology to: solid
- trimming leading and lagging N's. Mates with >4 interior N's will be deleted.

- parsing FASTA files:
reads: 0 |ERROR: The lengths of bases(49) and qualities(50) of Read 
(853_30_1202_F3) didn't match.

EXPECTED OUTPUT:
------------------------------------------------------------------------------
MosaikBuild 1.0.1388                                                2010-02-01
Michael Stromberg                 Marth Lab, Boston College Biology Department
------------------------------------------------------------------------------

- setting read group ID to: ZDEZP3H44Q4
- setting sample name to: unknown
- setting sequencing technology to: solid
- trimming leading and lagging N's. Mates with >4 interior N's will be deleted.

- parsing FASTA files:
reads: 4 (8.00 reads/s)

Filtering statistics:
============================================
# reads written:                 4
# bases written:               196

MosaikBuild CPU time: 0.000 s, wall time: 0.502 s

What version of the product are you using? On what operating system?

Works with MosaikBuild 1.0.1388, but not with 1.1.0017.

My system:
Linux 2.6.33-gentoo-r2 x86_64 Intel(R) Xeon(R) CPU E5420 @ 2.50GHz GenuineIntel 
GNU/Linux

Original issue reported on code.google.com by dr.isaks...@gmail.com on 29 Oct 2010 at 9:48

Attachments:

GoogleCodeExporter commented 8 years ago 
Hi there,

Thank you so much for this bug report. It has been resolved in 1.1.0018.

Original comment by WanPing....@gmail.com on 29 Oct 2010 at 7:19