Mercurial > repos > davidvanzessen > report_clonality_igg
comparison r_wrapper.sh @ 15:c6d0ee9b3d91 draft
Uploaded
| author | davidvanzessen |
|---|---|
| date | Thu, 04 Dec 2014 10:53:23 -0500 |
| parents | 24a80d4eff0c |
| children | 8bdf54f37286 |
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| 14:8002401b83c4 | 15:c6d0ee9b3d91 |
|---|---|
| 17 cp $dir/tabber.js $outputDir | 17 cp $dir/tabber.js $outputDir |
| 18 cp $dir/style.css $outputDir | 18 cp $dir/style.css $outputDir |
| 19 cp $dir/script.js $outputDir | 19 cp $dir/script.js $outputDir |
| 20 cp $dir/jquery-1.11.0.min.js $outputDir | 20 cp $dir/jquery-1.11.0.min.js $outputDir |
| 21 samples=`cat $outputDir/samples.txt` | 21 samples=`cat $outputDir/samples.txt` |
| 22 echo "<html><center><h1><a href='index.html'>Click here for the results</a></h1>Tip: Open it in a new tab (middle mouse button or right mouse button -> 'open in new tab' on the link above)</center></html>" > $2 | 22 echo "<html><center><h1><a href='index.html'>Click here for the results</a></h1>Tip: Open it in a new tab (middle mouse button or right mouse button -> 'open in new tab' on the link above)<br />" > $2 |
| 23 echo "<table border = 1>" >> $2 | |
| 24 echo "<thead><tr><th>Sample/Replicate</th><th>All</th><th>Productive</th><th>Unique Productive</th><th>Unproductive</th><th>Unique Unproductive</th></tr></thead>" >> $2 | |
| 25 while IFS=, read sample all productive perc_prod productive_unique perc_prod_un unproductive perc_unprod unproductive_unique perc_unprod_un | |
| 26 do | |
| 27 echo "<tr><td>$sample</td>" >> $2 | |
| 28 echo "<td>$all</td>" >> $2 | |
| 29 echo "<td>$productive (%${perc_prod})</td>" >> $2 | |
| 30 echo "<td>$productive_unique (%${perc_prod_un})</td>" >> $2 | |
| 31 echo "<td>$unproductive (%${perc_unprod})</td>" >> $2 | |
| 32 echo "<td>$unproductive_unique (%${perc_unprod_un})</td></tr>" >> $2 | |
| 33 done < $outputDir/productive_counting.txt | |
| 34 echo "</table border></center></html>" >> $2 | |
| 35 | |
| 36 echo "productive_counting.txt" | |
| 23 echo "<html><head><title>Report on:" >> $outputFile | 37 echo "<html><head><title>Report on:" >> $outputFile |
| 24 for sample in $samples; do | 38 for sample in $samples; do |
| 25 echo " $sample" >> $outputFile | 39 echo " $sample" >> $outputFile |
| 26 done | 40 done |
| 27 echo "</title><script type='text/javascript' src='jquery-1.11.0.min.js'></script>" >> $outputFile | 41 echo "</title><script type='text/javascript' src='jquery-1.11.0.min.js'></script>" >> $outputFile |