Mercurial > repos > petr-novak > repeat_annotation_pipeline3

view summarize_gff_by_attribute.xml @ 2:7f1032da7a0a draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author petr-novak
date Mon, 21 Feb 2022 10:35:13 +0000
parents ea6a3059a6af
children b53f5a456d01
line wrap: on
line source

<tool id="summarize_gff_by_attribute" name="Create summary of gff attribute" version="0.1.0" python_template_version="3.5">
    <requirements>
        <requirement type="package">bioconductor-rtracklayer</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
        $__tool_directory__/summarize_gff_by_attribute.R '$input_gff' $attribute_name '$output_table'
    ]]></command>
    <inputs>
      <param type="data" name="input_gff" format="gff" label="Input GFF">
        <sanitizer invalid_char="">
          <valid initial="string.ascii_letters,string.digits">
            <add value="_" />
          </valid>
        </sanitizer>
      </param>
        <param type="text" name="attribute_name" label="Name of attribute to summarize"/>
    </inputs>
    <outputs>
        <data name="output_table" format="tsv" />
    </outputs>
    <help><![CDATA[
        TODO: Fill in help.
    ]]></help>
</tool>