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實作十 Lab10

jazz@hadoop:~$ wget http://nchc.dl.sourceforge.net/project/cloudburst-bio/cloudburst/CloudBurst-1.1.0/CloudBurst-1.1.0.tgz
jazz@hadoop:~$ tar zxvf CloudBurst-1.1.0.tgz
jazz@hadoop:~$ cd CloudBurst-1.1.0
jazz@hadoop:~/CloudBurst-1.1.0$ wget "http://nchc.dl.sourceforge.net/project/cloudburst-bio/cloudburst-data/CloudBurst-sample-data/CloudBurst-small-sample.tgz"
jazz@hadoop:~/CloudBurst-1.1.0$ tar zxvf CloudBurst-small-sample.tgz
jazz@hadoop:~/CloudBurst-1.1.0$ hadoop fs -mkdir cloudburst
jazz@hadoop:~/CloudBurst-1.1.0$ hadoop fs -put CloudBurst-small-sample/100k.br cloudburst/
jazz@hadoop:~/CloudBurst-1.1.0$ hadoop fs -put CloudBurst-small-sample/s_suis.br cloudburst/
jazz@hadoop:~/CloudBurst-1.1.0$ hadoop fs -lsr
drwxr-xr-x   - jazz supergroup          0 2010-04-30 10:55 /user/jazz/cloudburst
-rw-r--r--   2 jazz supergroup    4493593 2010-04-30 10:55 /user/jazz/cloudburst/100k.br
-rw-r--r--   2 jazz supergroup     579773 2010-04-30 10:55 /user/jazz/cloudburst/s_suis.br
jazz@hadoop:~/CloudBurst-1.1.0$ hadoop jar CloudBurst.jar /user/$(whoami)/cloudburst/s_suis.br /user/$(whoami)/cloudburst/100k.br results 36 3 0 1 240 48 24 24 128 16 2 >& cloudburst.err
jazz@hadoop:~/CloudBurst-1.0$ tail -n 1 cloudburst.err
Total Running time:  102.68
jazz@hadoop:~/CloudBurst-1.1.0$ hadoop fs -get results .
jazz@hadoop:~/CloudBurst-1.1.0$ java -jar PrintAlignments.jar results | sort -nk4 > 100k.3.txt
Printing results