comparison MetaMA.xml @ 0:27ffdb495852 draft default tip

Imported from capsule None

0:27ffdb495852

<tool id="metaMA" name="MetaMA" version="0.1.0">
	<description>metaMA wrapper</description>
	<requirements>
	  <container type="docker">sblanck/testtool:latest</container>
	</requirements>
	<command>

		/galaxy-tools/stderr_wrapper.py Rscript 
		/galaxy-tools/transcriptomics/MetaMA/MetaMA.R
		#for $currentInput in $inputList
        	"${currentInput.rdataset}"
		 	"${currentInput.selectCondition}"
        #end for
       		$result_html 
			$result_html.extra_files_path
		/galaxy-tools/transcriptomics/MetaMA/MetaMa_tpl.html
	</command>
	
	<inputs>
	
		<repeat name="inputList" title="Datasets">
		<param name="rdataset" type="data" format="rdata" label="RData" help="RData to be used"/>

		<param name="conditions" type="data" format="cond" label="Conditions" help="conditions associated with the rData file"/>
				
		<param name="selectCondition" type="select" label="tumor condition">
			<options from_dataset="conditions">
    		<column name="name" index="0"/>
    		<column name="value" index="0"/>
		</options>
		</param>	
		
	
	
	</repeat>
	
	</inputs>
	<outputs>
		<data format="html" name="result_html" label="Annotations"/>
	    </outputs>

	<help>
		NOTE: This metaMA wrapper performs p-value combination from multiples studies with the same probes. If you need to normalize your data, use "matrix_normalisation" tool on each file. Then, use "Merge Standard datasets(copied)" tool to make a multiple file dataset.
	</help>

</tool>