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  • #16
    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!!!

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    • #17
      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?

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      • #18
        Sure; please email your queries to [email protected]. He will help you... thanks for using the software....

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