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--- juicer-software [2021/01/19 07:50] – created aorth
+++ juicer-software [2021/01/19 07:54] (current) – aorth
@@ Line 18: / Line 18: @@
 <code>$ module load juicer/1.6
 $ juicer.sh -h</code>
+==== Example ====
+Testing juicer with the included sample data:
+<code>$ module load juicer/1.6
+$ mkdir -p 2021-01-18-juicer/fastq
+$ cd 2021-01-18-juicer/fastq
+$ wget http://juicerawsmirror.s3.amazonaws.com/opt/juicer/work/HIC003/fastq/HIC003_S2_L001_R1_001.fastq.gz http://juicerawsmirror.s3.amazonaws.com/opt/juicer/work/HIC003/fastq/HIC003_S2_L001_R2_001.fastq.gz
+$ cd -
+$ juicer.sh -d ~/2021-01-18-juicer</code>
 ===== Installation ======
@@ Line 50: / Line 61: @@
 **Note 1:** There are several modifications we need to do to get juicer.sh to run on our cluster. First, the addition of a check to see if it is running at ILRI versus Aiden lab, and second to remove the SBATCH memory options because we don't use those on our cluster.
-Testing juicer with the included sample data:
-<code>$ module load juicer/1.6
-$ mkdir -p 2021-01-18-juicer/fastq
-$ cd 2021-01-18-juicer/fastq
-$ wget http://juicerawsmirror.s3.amazonaws.com/opt/juicer/work/HIC003/fastq/HIC003_S2_L001_R1_001.fastq.gz http://juicerawsmirror.s3.amazonaws.com/opt/juicer/work/HIC003/fastq/HIC003_S2_L001_R2_001.fastq.gz
-$ cd -
-$ juicer.sh -d ~/2021-01-18-juicer</code>