Mercurial > repos > davidvanzessen > report_clonality_igg

comparison r_wrapper.sh @ 15:c6d0ee9b3d91 draft

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Uploaded
author davidvanzessen
date Thu, 04 Dec 2014 10:53:23 -0500
parents 24a80d4eff0c
children 8bdf54f37286
comparison
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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