Mercurial > repos > yufei-luo > s_mart
diff SMART/bacteriaRegulatoryRegion_Detection/writeResToHTML.xml @ 18:94ab73e8a190
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author | m-zytnicki |
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date | Mon, 29 Apr 2013 03:20:15 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/SMART/bacteriaRegulatoryRegion_Detection/writeResToHTML.xml Mon Apr 29 03:20:15 2013 -0400 @@ -0,0 +1,36 @@ +<tool id="writeResToHTML" name="writeResToHTML"> + <description>Write all ncRNAs analysis results into an HTML file (Only for ncRNAs analysis pipeline).</description> + <command interpreter="python"> writeResToHTML.py + --input1Gff1 $input1GffFile1 --input1Gff2 $input1GffFile2 --input1PNG1 $input1PNGFile1 --input1PNG2 $input1PNGFile2 + --input2Gff1 $input2GffFile1 --input2Gff2 $input2GffFile2 --input2PNG1 $input2PNGFile1 --input2PNG2 $input2PNGFile2 + --input3Gff1 $input3GffFile1 --input3Gff2 $input3GffFile2 --input3PNG1 $input3PNGFile1 --input3PNG2 $input3PNGFile2 + --outHTML $outHTML + --outImgDir $outHTML.files_path + 2> $log </command> + + <inputs> + <param name="input1GffFile1" type="data" label="First gff3 result in intergenic sRNAs analysis. (TRANS detection) " format="gff3"/> + <param name="input1GffFile2" type="data" label="Second gff3 result in intergenic sRNAs analyse. (TRANS detection) " format="gff3"/> + <param name="input1PNGFile1" type="data" label="PNG (getSize) result intergenic sRNAs analyse.(TRANS detection)" format="png"/> + <param name="input1PNGFile2" type="data" label="PNG (plot) result in intergenic sRNAs analyse. (TRANS detection) " format="png"/> + + <param name="input2GffFile1" type="data" label="First gff3 result in asRNAs analysis. (ANTISENSE detection) " format="gff3"/> + <param name="input2GffFile2" type="data" label="Second gff3 result in asRNAs analyse. (ANTISENSE detection) " format="gff3"/> + <param name="input2PNGFile1" type="data" label="PNG (getSize) result asRNAs analyse.(ANTISENSE detection)" format="png"/> + <param name="input2PNGFile2" type="data" label="PNG (plot) result in asRNAs analyse. (ANTISENSE detection) " format="png"/> + + <param name="input3GffFile1" type="data" label="First gff3 result in long 5'UTRs analysis. (CIS detection) " format="gff3"/> + <param name="input3GffFile2" type="data" label="Second gff3 result in long 5'UTRs analysis. (CIS detection) " format="gff3"/> + <param name="input3PNGFile1" type="data" label="PNG (getSize) result in long 5'UTRs analysis. (CIS detection) " format="png"/> + <param name="input3PNGFile2" type="data" label="PNG (plot) result in long 5'UTRs analysis. (CIS detection) " format="png"/> + + </inputs> + + <outputs> + <data format="HTML" name="outHTML" label="[writeRes2HTML] Output HTML File" help="This output file shows all results by ncRNAs detection analysis."/> + <data format="txt" name="log" label="[writeRes2HTML] Output log File"/> + </outputs> + + <help> + </help> +</tool>