Mercurial > repos > davidvanzessen > mutation_analysis

comparison wrapper.sh @ 76:becea91089ed draft

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Uploaded
author davidvanzessen
date Mon, 09 May 2016 03:45:39 -0400
parents 7acdcd5c52ef
children c5c86d15cb94
comparison
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75:14749ced7ff2 76:becea91089ed
227 Rscript --verbose $dir/imgt_loader.r $PWD/summary.txt $PWD/aa.txt $PWD/junction.txt ${naive_output_ca} 2>&1 227 Rscript --verbose $dir/imgt_loader.r $PWD/summary.txt $PWD/aa.txt $PWD/junction.txt ${naive_output_ca} 2>&1
228 echo "---------------- naive_output.r ----------------" 228 echo "---------------- naive_output.r ----------------"
229 Rscript $dir/naive_output.r $naive_output_ca $outdir/merged.txt $naive_output_ca $naive_output_cg $naive_output_cm 2>&1 229 Rscript $dir/naive_output.r $naive_output_ca $outdir/merged.txt $naive_output_ca $naive_output_cg $naive_output_cm 2>&1
230 fi 230 fi
231 231
232 232 echo "---------------- sequence_overview.r ----------------"
233
234 mkdir $outdir/sequence_overview
235
236 Rscript $dir/sequence_overview.r $outdir/identified_genes.txt $PWD/sequences.txt $outdir/sequence_overview 2>&1
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