Mercurial > repos > davidvanzessen > shm_csr

diff wrapper.sh @ 72:c787e79e8b90 draft

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Uploaded
author davidvanzessen
date Tue, 05 Feb 2019 03:26:41 -0500
parents 7b9481fa4a70
children
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--- a/wrapper.sh	Thu Jan 31 05:53:59 2019 -0500
+++ b/wrapper.sh	Tue Feb 05 03:26:41 2019 -0500
@@ -72,7 +72,7 @@
 echo "---------------- class identification ----------------"
 echo "---------------- class identification ----------------<br />" >> $log
 
-python2 $dir/gene_identification.py --input $PWD/summary.txt --output $outdir/identified_genes.txt
+python $dir/gene_identification.py --input $PWD/summary.txt --output $outdir/identified_genes.txt
 
 echo "---------------- merge_and_filter.r ----------------"
 echo "---------------- merge_and_filter.r ----------------<br />" >> $log
@@ -198,7 +198,7 @@
 echo "---------------- shm_csr.py ----------------"
 echo "---------------- shm_csr.py ----------------<br />" >> $log
 
-python2 $dir/shm_csr.py --input $outdir/merged.txt --genes $classes --empty_region_filter "${empty_region_filter}" --output $outdir/hotspot_analysis.txt
+python $dir/shm_csr.py --input $outdir/merged.txt --genes $classes --empty_region_filter "${empty_region_filter}" --output $outdir/hotspot_analysis.txt
 
 echo "---------------- aa_histogram.r ----------------"
 echo "---------------- aa_histogram.r ----------------<br />" >> $log