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There was a call to cufflinks that wasn't outputting STDOUT to a log …

…file.
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1 parent ca259fd commit 0f1f13a29578cd7b33c5bc51f40cb0dfaaff32bb @sgivan committed Oct 10, 2013
Showing with 1 addition and 1 deletion.
  1. +1 −1 bin/RNAseq.sh
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@@ -435,7 +435,7 @@ then
# echo $cufflinks $cufflinksflgs */accepted_hits.bam
# $cufflinks $cufflinksflgs */accepted_hits.bam
echo $cufflinks $cufflinksflgs merged/merged.bam
- $cufflinks $cufflinksflgs merged/merged.bam
+ $cufflinks $cufflinksflgs merged/merged.bam > cufflinks.log 2>&1
else
echo "using cufflinks to build gene models with SE alignment data"
# ln -fs ../singles_tophat_out/accepted_hits.bam ./merged.bam

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