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author elixir-it
date Tue, 27 Oct 2020 14:48:56 +0000
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<tool id="BubblePlot" name="Bubbleplot" version="1">
  <description> </description>
  <requirements>
    <requirement type="package" >perl</requirement>
    <requirement type="package" >r-base</requirement>
  </requirements>
  <command> <![CDATA[
	ln -s $__tool_directory__/bubbleplot.R 2>$log &&
	ln -s $__tool_directory__/MatData.csv 2>>$log &&
	ln -s $__tool_directory__/VirData.csv 2>>$log &&
        perl $__tool_directory__/plotMdata.pl $outfile_tabular $plot1 $plot2 ${" ".join(map(str, $input_file))} 2>>$log
          ]]>
  </command>
  <inputs>
	<param name="input_file" format="txt" type="data" multiple="true" label="show-snps tabular ouput" help="Clustering of SARS-CoV-2 isolates based on high-freq alleles" />
  </inputs>
  <outputs>
	<data format="txt" name="outfile_tabular" label="AF prevalence in SARS-CoV-2 types, as defined in Chiara et tabular format " />
	<data format="pdf" name="plot1" label="Bubbleplot " />
	<data format="pdf" name="plot2" label="Heatmap " />
	<data format="txt" name="log" label="${tool.name} on ${on_string}: log file "/>
  </outputs>
  <help>
  </help>
  <citations>
  </citations>
</tool>