Mosaikbuild fails to process PE SOLiD reads.

What steps will reproduce the problem?
1. curl -s 
ftp://ftp-trace.ncbi.nih.gov/1000genomes/ftp/data/HG00101/sequence_read/ERR02008
8.filt.fastq.gz
curl -s 
ftp://ftp-trace.ncbi.nih.gov/1000genomes/ftp/data/HG00101/sequence_read/ERR02008
8_1.filt.fastq.gz
2. MosaikBuild -fr ../human_g1k_v37.fasta -cs -oa human_g1k_v37_mosaik_CS.dat 
3. MosaikBuild -q ERR020088.filt.fastq -q2 ERR020088_1.filt.fastq -cs -st solid 
-p 1kG_  -out ERR020088_PE_mosB.dat

What is the expected output? What do you see instead?
.dat file

What version of the product are you using? On what operating system?
MosaikJump 1.1.0021     OpenSuSe x64 Linux

Please provide any additional information below.
MosaikBuild -q ERR020088.filt.fastq -q2 ERR020088_1.filt.fastq -cs -st solid -p 
1kG_  -out ERR020088_PE_mosB.dat
------------------------------------------------------------------------------
MosaikBuild 1.1.0021                                                2010-11-10
Michael Stromberg & Wan-Ping Lee  Marth Lab, Boston College Biology Department
------------------------------------------------------------------------------

- setting read group ID to: ZDY5U1BVD7A
- 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.
- prepending all read names with "1kG_"

- parsing paired-end/mate-pair FASTQ files:
reads: 98 |ERROR: The mate1 read name did not match the mate2 read name. 
Resynchronization support needs to be implemented.

Original issue reported on code.google.com by 2007...@gmail.com on 30 Dec 2010 at 10:05

duncanca / mosaik-aligner

Mosaikbuild fails to process PE SOLiD reads. #86