Mercurial > repos > davidvanzessen > mutation_analysis

comparison wrapper.sh @ 123:0453ea4d9f14 draft

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Uploaded
author davidvanzessen
date Mon, 22 Aug 2016 07:00:23 -0400
parents 3d64b3efd352
children 4a93146f87aa
comparison
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122:3d64b3efd352 123:0453ea4d9f14
234 234
235 echo "---------------- $func table ----------------" 235 echo "---------------- $func table ----------------"
236 echo "---------------- $func table ----------------<br />" >> $log 236 echo "---------------- $func table ----------------<br />" >> $log
237 237
238 cat $outdir/mutations_${func}.txt $outdir/hotspot_analysis_${func}.txt > $outdir/data_${func}.txt 238 cat $outdir/mutations_${func}.txt $outdir/hotspot_analysis_${func}.txt > $outdir/data_${func}.txt
239 239
240 echo "<table class='pure-table pure-table-striped'>" >> $output 240 echo "<table class='pure-table pure-table-striped'>" >> $output
241 echo "<thead><tr><th>info</th>" >> $output 241 echo "<thead><tr><th>info</th>" >> $output
242 for gene in ${genes[@]} 242 for gene in ${genes[@]}
243 do 243 do
244 tmp=`cat $outdir/${gene}_${func}_n.txt` 244 tmp=`cat $outdir/${gene}_${func}_n.txt`
358 echo "<div class='tabbertab' title='Downloads'>" >> $output 358 echo "<div class='tabbertab' title='Downloads'>" >> $output
359 359
360 echo "<table class='pure-table pure-table-striped'>" >> $output 360 echo "<table class='pure-table pure-table-striped'>" >> $output
361 echo "<thead><tr><th>info</th><th>link</th></tr></thead>" >> $output 361 echo "<thead><tr><th>info</th><th>link</th></tr></thead>" >> $output
362 echo "<tr><td>The complete dataset</td><td><a href='merged.txt'>Download</a></td></tr>" >> $output 362 echo "<tr><td>The complete dataset</td><td><a href='merged.txt'>Download</a></td></tr>" >> $output
363 echo "<tr><td>The SHM Overview table as a dataset</td><td><a href='data_sum.txt'>Download</a></td></tr>" >> $output
363 echo "<tr><td>The alignment info on the unmatched sequences</td><td><a href='unmatched.txt'>Download</a></td></tr>" >> $output 364 echo "<tr><td>The alignment info on the unmatched sequences</td><td><a href='unmatched.txt'>Download</a></td></tr>" >> $output
364 echo "<tr><td>Motif data per sequence ID</td><td><a href='motif_per_seq.txt'>Download</a></td></tr>" >> $output 365 echo "<tr><td>Motif data per sequence ID</td><td><a href='motif_per_seq.txt'>Download</a></td></tr>" >> $output
365 echo "<tr><td>Mutation data per sequence ID</td><td><a href='mutation_by_id.txt'>Download</a></td></tr>" >> $output 366 echo "<tr><td>Mutation data per sequence ID</td><td><a href='mutation_by_id.txt'>Download</a></td></tr>" >> $output
366 echo "<tr><td>AA mutation data per sequence ID</td><td><a href='aa_id_mutations.txt'>Download</a></td></tr>" >> $output 367 echo "<tr><td>AA mutation data per sequence ID</td><td><a href='aa_id_mutations.txt'>Download</a></td></tr>" >> $output
367 echo "<tr><td>Absent AA location data per sequence ID</td><td><a href='absent_aa_id.txt'>Download</a></td></tr>" >> $output 368 echo "<tr><td>Absent AA location data per sequence ID</td><td><a href='absent_aa_id.txt'>Download</a></td></tr>" >> $output