From 6eda7b21639ec4a10d08e7de149d08f60d623504 Mon Sep 17 00:00:00 2001 From: Don Armstrong Date: Tue, 26 May 2015 09:21:57 -0700 Subject: [PATCH] fix wrong SRR variable name --- fpkm_from_srr | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/fpkm_from_srr b/fpkm_from_srr index eabc970..dab329d 100755 --- a/fpkm_from_srr +++ b/fpkm_from_srr @@ -26,7 +26,7 @@ function set_up_the_run { mkdir -p "$FROM_SRR_SRR"; set -e; (cd $FROM_SRR_SRR; - wget -O ${FROM_SRR_SRR}.sra ftp://ftp-trace.ncbi.nlm.nih.gov:/sra/sra-instant/reads/ByRun/sra/SRR/${SRR:0:6}/${FROM_SRR_SRR}/${FROM_SRR_SRR}.sra; + wget -O ${FROM_SRR_SRR}.sra ftp://ftp-trace.ncbi.nlm.nih.gov:/sra/sra-instant/reads/ByRun/sra/SRR/${FROM_SRR_SRR:0:6}/${FROM_SRR_SRR}/${FROM_SRR_SRR}.sra; ); qsub -q budget -v FROM_SRR_SRR,FROM_SRR_GTF,FROM_SRR_REF -S /bin/bash -d $(pwd) -M donarm@illinois.edu -l "nodes=1:ppn=${CORES},mem=${MAX_MEM}" "$0" }; -- 2.39.2