Mercurial > repos > davidvanzessen > mutation_analysis

comparison wrapper.sh @ 100:ff5be711382b draft

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Uploaded
author davidvanzessen
date Fri, 17 Jun 2016 05:36:32 -0400
parents 86206431cbb0
children 3cffb8a38bb1
comparison
equal deleted inserted replaced
99:86206431cbb0 100:ff5be711382b
157 echo "---------------- sequence_overview.r ----------------" >> $output 157 echo "---------------- sequence_overview.r ----------------" >> $output
158 158
159 mkdir $outdir/sequence_overview 159 mkdir $outdir/sequence_overview
160 160
161 #Rscript $dir/sequence_overview.r $outdir/identified_genes.txt $PWD/sequences.txt $outdir/merged.txt $outdir/sequence_overview $classes $outdir/hotspot_analysis_sum.txt 2>&1 161 #Rscript $dir/sequence_overview.r $outdir/identified_genes.txt $PWD/sequences.txt $outdir/merged.txt $outdir/sequence_overview $classes $outdir/hotspot_analysis_sum.txt 2>&1
162 Rscript $dir/sequence_overview.r $outdir/before_unique_filter.txt $outdir/sequence_overview $classes $outdir/hotspot_analysis_sum.txt 2>&1 162 Rscript $dir/sequence_overview.r $outdir/before_unique_filter.txt $outdir/merged.txt $outdir/sequence_overview $classes $outdir/hotspot_analysis_sum.txt 2>&1
163 163
164 echo "<table border='1'>" > $outdir/base_overview.html 164 echo "<table border='1'>" > $outdir/base_overview.html
165 165
166 while IFS=$'\t' read ID class seq A C G T 166 while IFS=$'\t' read ID class seq A C G T
167 do 167 do