Mercurial > repos > davidvanzessen > mutation_analysis

comparison wrapper.sh @ 84:041f94f50b34 draft

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Uploaded
author davidvanzessen
date Tue, 24 May 2016 03:59:44 -0400
parents 564c4f6da203
children 07f7da724a77
comparison
equal deleted inserted replaced
83:e1114c791eb7 84:041f94f50b34
79 fi 79 fi
80 80
81 echo "---------------- merge_and_filter.r ----------------" 81 echo "---------------- merge_and_filter.r ----------------"
82 echo "---------------- merge_and_filter.r ----------------<br />" >> $output 82 echo "---------------- merge_and_filter.r ----------------<br />" >> $output
83 83
84 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/unmatched.txt $method $functionality $unique ${filter_unique} ${class_filter} 84 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/unmatched.txt $method $functionality $unique ${filter_unique} ${class_filter} 2>&1
85 85
86 echo "---------------- mutation_analysis.r ----------------" 86 echo "---------------- mutation_analysis.r ----------------"
87 echo "---------------- mutation_analysis.r ----------------<br />" >> $output 87 echo "---------------- mutation_analysis.r ----------------<br />" >> $output
88 88
89 classes="ca,ca1,ca2,cg,cg1,cg2,cg3,cg4,cm,unmatched" 89 classes="ca,ca1,ca2,cg,cg1,cg2,cg3,cg4,cm,unmatched"