[geschickten]

Ms@New - It works with MAQ 0.6.8; the source is not available; but I can send you the executable. CloudMAQ is a wrapper around MAQ and we have not modified the original MAQ; hence the results of CloudMAQ will be no different from MAQ.

BTW CloudMAQ works for 125bp Illumina reads too!!!

[Ms@New]

Thanks for the reply
I downloaded the files from the link you provided, but I have trouble running it.

in the cloudmaq.sh, there is

$HADOOP_HOME/bin/hadoop jar $HADOOP_HOME/contrib/streaming/hadoop-0.20.2-streaming.jar -file $HOME/mapper1.pyc -mapper $HOME/mapper1.pyc -jobconf mapred.reduce.tasks=0 -jobconf mapred.map.tasks=2 -input /data/cloudmaq/input1 -output /data/cloudmaq/output1;

scp $node2:./*bfq $node1:./;


after the first line, when I run "scp $node2:./*bfq $node1:./;" I get
"./*bfq: No such file or directory"

right now /i have a pseudo distributed hadoop, and both node1 and node2 are local host, but I don't think that is the problem.

Can you help me with this?

[geschickten]

Sure; please email your queries to [email protected]. He will help you... thanks for using the software....