Mercurial > repos > daumsoft > star_icgc_alignment

view ICGC_STAR_ALIGNMENT_PIPELINE/ICGC_pipeline_RUN.sh @ 0:0446d6f7d593 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author daumsoft
date Wed, 18 Apr 2018 02:38:42 -0400
parents
children
line wrap: on
line source

#!/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