Mercurial > repos > melpetera > generic_filter
diff GalFilter/generic_filter.xml @ 2:12cf1eed21f4 draft
Uploaded
author | melpetera |
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date | Tue, 27 Jun 2017 05:57:04 -0400 |
parents | b1fa45bd2b44 |
children | cfd7c4aa5c26 |
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--- a/GalFilter/generic_filter.xml Tue May 02 04:49:24 2017 -0400 +++ b/GalFilter/generic_filter.xml Tue Jun 27 05:57:04 2017 -0400 @@ -1,7 +1,10 @@ -<tool id="generic_filter" name="Generic_Filter" version="2017.04"> +<tool id="generic_filter" name="Generic_Filter" version="2017.06"> <description>Removes elements according to numerical or qualitative values</description> - <command interpreter="Rscript"> - filter_wrap.R + <requirements> + <requirement type="package" version="1.1_4">r-batch</requirement> + </requirements> + <command> + Rscript '$__tool_directory__/filter_wrap.R' dataMatrix_in "$dataMatrix_in" sampleMetadata_in "$sampleMetadata_in" variableMetadata_in "$variableMetadata_in" @@ -111,6 +114,30 @@ <data name="variableMetadata_out" label="${tool.name}_${variableMetadata_in.name}" format="tabular" ></data> </outputs> + <tests> + <test> + <param name="dataMatrix_in" value="in_DM1.tabular"/> + <param name="sampleMetadata_in" value="in_SM1.tabular"/> + <param name="variableMetadata_in" value="in_VM1.tabular"/> + <conditional name="numeric_condition"> + <param name="Factors" value="TRUE"/> + <param name="numeric_repeat_0|num_file" value="variable"/> + <param name="numeric_repeat_0|parm_col_num" value="rt"/> + <param name="numeric_repeat_0|interval_condition|interval" value="lower"/> + <param name="numeric_repeat_0|interval_condition|low_value" value="1.2"/> + </conditional> + <conditional name="qualitative_condition"> + <param name="Factors" value="TRUE"/> + <param name="qualitative_repeat_0|qual_file" value="sample"/> + <param name="qualitative_repeat_0|factor_col" value="Time"/> + <param name="qualitative_repeat_0|factors_value" value="3"/> + </conditional> + <output name="dataMatrix_out" file="out_DM1.tabular"/> + <output name="sampleMetadata_out" file="out_SM1.tabular"/> + <output name="variableMetadata_out" file="out_VM1.tabular"/> + </test> + </tests> + <help> .. class:: infomark @@ -254,4 +281,7 @@ Soon see the corresponding "Page" </help> + <citations> + <citation type="doi">10.1093/bioinformatics/btu813</citation> + </citations> </tool> \ No newline at end of file