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comparison c_calls.xml @ 30:ecd88ec22fe3 draft default tip

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author bzonnedda
date Fri, 07 Jul 2017 06:07:20 -0400
parents 09ef072c4070
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29:2e8281109e79 30:ecd88ec22fe3
1 <tool id="conifer_call" name="CoNIFER CNVs caller" version="1.0"> 1 <tool id="conifer_call" name="CoNIFER CNVs caller" version="1.0">
2 <description></description> 2 <description></description>
3 <command> 3 <command>
4 python \$CONIFER_PATH/conifer.py call 4 python $__tool_directory__/conifer.py call
5 --input $input 5 --input $input
6 --output temporary 6 --output temporary
7 --threshold $threshold 7 --threshold $threshold
8 2&gt;&amp;1 8 2&gt;&amp;1
9 &amp;&amp; awk '{print \$2,\$3,\$4,\$5,\$1}' OFS="\t" temporary &gt; $outputFile 9 &amp;&amp; awk '{print \$2,\$3,\$4,\$5,\$1}' OFS="\t" temporary &gt; $outputFile