Mercurial > repos > timpalpant > java_genomics_toolkit
diff galaxy-conf/GaussianSmooth.xml @ 15:3e477c7e0e73 draft
Update normalization tools to allow normalizing by chromosome (Z-scorer, scale, etc.) Add new tool to convert any interval file to Bed format. Miscellaneous bug fixes.
| author | timpalpant |
|---|---|
| date | Sat, 09 Jun 2012 16:03:59 -0400 |
| parents | 81d5b81fb3c2 |
| children |
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--- a/galaxy-conf/GaussianSmooth.xml Sat May 19 10:40:16 2012 -0400 +++ b/galaxy-conf/GaussianSmooth.xml Sat Jun 09 16:03:59 2012 -0400 @@ -1,4 +1,4 @@ -<tool id="GaussianSmoother" name="Gaussian smooth" version="1.0.0"> +<tool id="WigGaussianSmooth" name="Gaussian smooth" version="1.1.0"> <description>a (Big)Wig file</description> <command interpreter="sh">galaxyToolRunner.sh wigmath.GaussianSmooth -i $input -s $S -o $output</command> <inputs> @@ -9,48 +9,21 @@ <data format="wig" name="output" metadata_source="input" /> </outputs> <tests> - <!--<test> - <param name="input" value="test.wig"/> - <param name="dbkey" value="sacCer2"/> + <test> + <param name="input" value="wigmath1.wig"/> <param name="S" value="20"/> - <param name="W" value="3"/> - <output name="output" file="smoother.output1"/> - </test> - <test> - <param name="input" value="test.bw"/> - <param name="dbkey" value="sacCer2"/> - <param name="S" value="20"/> - <param name="W" value="3"/> - <output name="output" file="smoother.output1"/> + <output name="output" file="gaussian1.wig"/> </test> <test> - <param name="input" value="test.wig"/> - <param name="dbkey" value="sacCer2"/> - <param name="S" value="10"/> - <param name="W" value="2"/> - <output name="output" file="smoother.output2"/> - </test> - <test> - <param name="input" value="test.bw"/> - <param name="dbkey" value="sacCer2"/> - <param name="S" value="10"/> - <param name="W" value="2"/> - <output name="output" file="smoother.output2"/> + <param name="input" value="wigmath2.bw"/> + <param name="S" value="3"/> + <output name="output" file="gaussian2.wig"/> </test> <test> - <param name="input" value="test.wig"/> - <param name="dbkey" value="sacCer2"/> - <param name="S" value="50"/> - <param name="W" value="1"/> - <output name="output" file="smoother.output3"/> + <param name="input" value="wigmath3.wig"/> + <param name="S" value="40"/> + <output name="output" file="gaussian3.wig"/> </test> - <test> - <param name="input" value="test.bw"/> - <param name="dbkey" value="sacCer2"/> - <param name="S" value="5"/> - <param name="W" value="1"/> - <output name="output" file="smoother.output3"/> - </test>--> </tests> <help>