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annotate cleansamwrapper.sh @ 143:b2ca2d181fb4 draft

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fixed downsample sam in picard1106 (accept bam)
author Rayan Chikhi <chikhi@psu.edu>
date Mon, 16 Jun 2014 17:38:15 -0400
parents 8b335563c71a
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
8b335563c71a Uploaded
devteam
parents:
diff changeset
1 java -jar $JAVA_JAR_PATH/CleanSam.jar QUIET=True INPUT=$1 OUTPUT=$2.sam
8b335563c71a Uploaded
devteam
parents:
diff changeset
2 mv $2.sam $2