Mercurial > repos > davidvanzessen > shm_csr

diff wrapper.sh @ 14:59765d2c8890 draft

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author davidvanzessen
date Fri, 11 Nov 2016 07:31:48 -0500
parents ad9be244b104
children 4e596473c25c
line wrap: on
line diff
--- a/wrapper.sh	Fri Nov 11 03:49:30 2016 -0500
+++ b/wrapper.sh	Fri Nov 11 07:31:48 2016 -0500
@@ -62,7 +62,7 @@
 echo "---------------- merge_and_filter.r ----------------"
 echo "---------------- merge_and_filter.r ----------------<br />" >> $log
 
-Rscript $dir/merge_and_filter.r $PWD/summary.txt $PWD/sequences.txt $PWD/mutationanalysis.txt $PWD/mutationstats.txt $PWD/hotspots.txt $outdir/identified_genes.txt $outdir/merged.txt $outdir/before_unique_filter.txt $outdir/unmatched.txt $method $functionality $unique ${filter_unique} ${class_filter} ${empty_region_filter} 2>&1
+Rscript $dir/merge_and_filter.r $PWD/summary.txt $PWD/sequences.txt $PWD/mutationanalysis.txt $PWD/mutationstats.txt $PWD/hotspots.txt $PWD/aa.txt $outdir/identified_genes.txt $outdir/merged.txt $outdir/before_unique_filter.txt $outdir/unmatched.txt $method $functionality $unique ${filter_unique} ${class_filter} ${empty_region_filter} 2>&1
 
 if [[ "$fast" == "no" ]] ; then