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annotate SMART/bacteriaRegulatoryRegion_Detection/writeResToHTML.xml @ 31:0ab839023fe4

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author m-zytnicki
date Tue, 30 Apr 2013 14:33:21 -0400
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1 <tool id="writeResToHTML" name="writeResToHTML">
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2 <description>Write all ncRNAs analysis results into an HTML file (Only for ncRNAs analysis pipeline).</description>
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3 <command interpreter="python"> writeResToHTML.py
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4 --input1Gff1 $input1GffFile1 --input1Gff2 $input1GffFile2 --input1PNG1 $input1PNGFile1 --input1PNG2 $input1PNGFile2
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5 --input2Gff1 $input2GffFile1 --input2Gff2 $input2GffFile2 --input2PNG1 $input2PNGFile1 --input2PNG2 $input2PNGFile2
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6 --input3Gff1 $input3GffFile1 --input3Gff2 $input3GffFile2 --input3PNG1 $input3PNGFile1 --input3PNG2 $input3PNGFile2
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7 --outHTML $outHTML
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8 --outImgDir $outHTML.files_path
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9 2> $log </command>
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11 <inputs>
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12 <param name="input1GffFile1" type="data" label="First gff3 result in intergenic sRNAs analysis. (TRANS detection) " format="gff3"/>
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13 <param name="input1GffFile2" type="data" label="Second gff3 result in intergenic sRNAs analyse. (TRANS detection) " format="gff3"/>
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14 <param name="input1PNGFile1" type="data" label="PNG (getSize) result intergenic sRNAs analyse.(TRANS detection)" format="png"/>
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15 <param name="input1PNGFile2" type="data" label="PNG (plot) result in intergenic sRNAs analyse. (TRANS detection) " format="png"/>
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17 <param name="input2GffFile1" type="data" label="First gff3 result in asRNAs analysis. (ANTISENSE detection) " format="gff3"/>
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18 <param name="input2GffFile2" type="data" label="Second gff3 result in asRNAs analyse. (ANTISENSE detection) " format="gff3"/>
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19 <param name="input2PNGFile1" type="data" label="PNG (getSize) result asRNAs analyse.(ANTISENSE detection)" format="png"/>
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20 <param name="input2PNGFile2" type="data" label="PNG (plot) result in asRNAs analyse. (ANTISENSE detection) " format="png"/>
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22 <param name="input3GffFile1" type="data" label="First gff3 result in long 5'UTRs analysis. (CIS detection) " format="gff3"/>
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23 <param name="input3GffFile2" type="data" label="Second gff3 result in long 5'UTRs analysis. (CIS detection) " format="gff3"/>
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24 <param name="input3PNGFile1" type="data" label="PNG (getSize) result in long 5'UTRs analysis. (CIS detection) " format="png"/>
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25 <param name="input3PNGFile2" type="data" label="PNG (plot) result in long 5'UTRs analysis. (CIS detection) " format="png"/>
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27 </inputs>
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29 <outputs>
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30 <data format="HTML" name="outHTML" label="[writeRes2HTML] Output HTML File" help="This output file shows all results by ncRNAs detection analysis."/>
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31 <data format="txt" name="log" label="[writeRes2HTML] Output log File"/>
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32 </outputs>
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33
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34 <help>
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35 </help>
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36 </tool>