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view ICGC_STAR_ALIGNMENT_PIPELINE/ICGC_pipeline_RUN.sh @ 0:0ea9868b554c draft default tip

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author daumsoft
date Mon, 10 Sep 2018 01:15:58 -0400
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#!/bin/bash

if [ "$#" -ne 1 ]; then
 echo "[usage:] ICGC_pipeline_RUN.sh  tar.gz(fastq in file)"
 exit 1;
fi

INPUT_TAR_GZ=$1

ln -s $INPUT_TAR_GZ  ${INPUT_TAR_GZ}.tar.gz
INPUT_TAR_GZ=${INPUT_TAR_GZ}.tar.gz

$GALAXY_HOME/package/DAUMSOFT/RNA-seq/ICGC_STAR_ALIGNMENT_PIPELINE/ICGC_pipeline.sh $INPUT_TAR_GZ > log.out 2>&1