From 98affeec50d3a50371d11dec2b691f68a2939893 Mon Sep 17 00:00:00 2001
From: Don Armstrong <don@donarmstrong.com>
Date: Tue, 26 May 2015 09:46:53 -0700
Subject: [PATCH] load samtools

---
 fpkm_from_srr | 1 +
 1 file changed, 1 insertion(+)

diff --git a/fpkm_from_srr b/fpkm_from_srr
index a7ab6e0..4f75cf3 100755
--- a/fpkm_from_srr
+++ b/fpkm_from_srr
@@ -9,6 +9,7 @@ function actually_run_the_alignment {
     module load sratoolkit/2.3.5-2;
     module load bwa/0.7.10;
     module load cufflinks/2.2.1;
+    module load samtools/0.1.18
     (cd $FROM_SRR_SRR;
      fastq-dump ${FROM_SRR_SRR}.sra;
      bwa mem -t ${CORES} $FROM_SRR_REF ${FROM_SRR_SRR}.fastq.gz | samtools view -b -o ${FROM_SRR_SRR}.bam;
-- 
2.39.2