Mercurial > repos > davidvanzessen > report_clonality_igg

comparison r_wrapper.sh @ 24:5454af6fece1 draft

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Uploaded
author davidvanzessen
date Fri, 23 Jan 2015 03:06:43 -0500
parents 5f0597a3fd8b
children f919965e8816
comparison
equal deleted inserted replaced
23:5f0597a3fd8b 24:5454af6fece1
63 echo "<img src='JFPlot.png'/>" >> $outputFile 63 echo "<img src='JFPlot.png'/>" >> $outputFile
64 echo "<img src='VPlot.png'/>" >> $outputFile 64 echo "<img src='VPlot.png'/>" >> $outputFile
65 if [[ "$useD" == "true" ]] ; then 65 if [[ "$useD" == "true" ]] ; then
66 echo "<img src='DPlot.png'/>" >> $outputFile 66 echo "<img src='DPlot.png'/>" >> $outputFile
67 fi 67 fi
68 echo "<img src='JPlot.png'/></div>" >> $outputFile 68 echo "<img src='JPlot.png'/>" >> $outputFile
69 echo "<img src='AAComposition.png'/></div>" >> $outputFile
69 70
70 count=1 71 count=1
71 echo "<div class='tabbertab' title='Heatmaps'><div class='tabber'>" >> $outputFile 72 echo "<div class='tabbertab' title='Heatmaps'><div class='tabber'>" >> $outputFile
72 for sample in $samples; do 73 for sample in $samples; do
73 echo "<div class='tabbertab' title='$sample'><table border='1'><tr>" >> $outputFile 74 echo "<div class='tabbertab' title='$sample'><table border='1'><tr>" >> $outputFile
168 echo "<tr><td>The dataset used to generate the V gene frequency graph</td><td><a href='VFrequency.csv'>Download</a></td></tr>" >> $outputFile 169 echo "<tr><td>The dataset used to generate the V gene frequency graph</td><td><a href='VFrequency.csv'>Download</a></td></tr>" >> $outputFile
169 if [[ "$useD" == "true" ]] ; then 170 if [[ "$useD" == "true" ]] ; then
170 echo "<tr><td>The dataset used to generate the D gene frequency graph</td><td><a href='DFrequency.csv'>Download</a></td></tr>" >> $outputFile 171 echo "<tr><td>The dataset used to generate the D gene frequency graph</td><td><a href='DFrequency.csv'>Download</a></td></tr>" >> $outputFile
171 fi 172 fi
172 echo "<tr><td>The dataset used to generate the J gene frequency graph</td><td><a href='JFrequency.csv'>Download</a></td></tr>" >> $outputFile 173 echo "<tr><td>The dataset used to generate the J gene frequency graph</td><td><a href='JFrequency.csv'>Download</a></td></tr>" >> $outputFile
174 echo "<tr><td>The dataset used to generate the AA composition graph</td><td><a href='AAComposition.csv'>Download</a></td></tr>" >> $outputFile
173 175
174 for sample in $samples; do 176 for sample in $samples; do
175 if [[ "$useD" == "true" ]] ; then 177 if [[ "$useD" == "true" ]] ; then
176 echo "<tr><td>The data used to generate the VD heatmap for $sample.</td><td><a href='HeatmapVD_$sample.csv'>Download</a></td></tr>" >> $outputFile 178 echo "<tr><td>The data used to generate the VD heatmap for $sample.</td><td><a href='HeatmapVD_$sample.csv'>Download</a></td></tr>" >> $outputFile
177 fi 179 fi