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comparison wrapper.sh @ 50:8ba6afa1247a draft

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Uploaded
author davidvanzessen
date Thu, 28 Jan 2016 09:21:25 -0500
parents 5c6b9e99d576
children d3542f87a304
comparison
equal deleted inserted replaced
49:5c6b9e99d576 50:8ba6afa1247a
145 #optional output for naive 145 #optional output for naive
146 146
147 if [[ "$naive_output" != "None" ]] 147 if [[ "$naive_output" != "None" ]]
148 then 148 then
149 echo "naive_output: $naive_output" 149 echo "naive_output: $naive_output"
150 python $dir/imgt_loader.py --summ $PWD/summary.txt --aa $PWD/aa.txt --junction $PWD/junction.txt --output $naive_output 150 #python $dir/imgt_loader.py --summ $PWD/summary.txt --aa $PWD/aa.txt --junction $PWD/junction.txt --output $naive_output
151 Rscript --verbose $dir/imgt_loader.r $PWD/summary.txt $PWD/aa.txt $PWD/junction.txt ${naive_output} 2>&1
151 Rscript $dir/naive_output.r $naive_output $outdir/merged.txt $naive_output 2>&1 152 Rscript $dir/naive_output.r $naive_output $outdir/merged.txt $naive_output 2>&1
152 fi 153 fi
153 154
154 155
155 156