Mercurial > repos > petr-novak > repeat_annotation_pipeline3
diff summarize_gff_by_attribute.xml @ 11:5366d5ea04bc draft
planemo upload commit 9d1b19f98d8b7f0a0d1baf2da63a373d155626f8-dirty
author | petr-novak |
---|---|
date | Fri, 04 Aug 2023 12:35:32 +0000 |
parents | b53f5a456d01 |
children |
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--- a/summarize_gff_by_attribute.xml Thu May 04 09:27:43 2023 +0000 +++ b/summarize_gff_by_attribute.xml Fri Aug 04 12:35:32 2023 +0000 @@ -2,8 +2,11 @@ <requirements> <requirement type="package">bioconductor-rtracklayer</requirement> </requirements> + <required_files> + <include type="literal" path="summarize_gff_by_attribute.R"/> + </required_files> <command detect_errors="exit_code"><![CDATA[ - $__tool_directory__/summarize_gff_by_attribute.R '$input_gff' $attribute_name '$output_table' + Rscript $__tool_directory__/summarize_gff_by_attribute.R '$input_gff' $attribute_name '$output_table' ]]></command> <inputs> <param type="data" name="input_gff" format="gff" label="Input GFF"> @@ -13,12 +16,12 @@ </valid> </sanitizer> </param> - <param type="text" name="attribute_name" label="Name of attribute to summarize"/> + <param type="text" name="attribute_name" label="Name of attribute to summarize" optional="false" default="Name"/> </inputs> <outputs> <data name="output_table" format="tsv" /> </outputs> <help><![CDATA[ - TODO: Fill in help. + Calculate summary statistics on GFF3 attribute. Summary included total number of features and total lenght per attribute value. ]]></help> </tool>