Mercurial > repos > cpt > cpt_fix_aragorn

comparison fix-aragorn-gff3.xml @ 3:f0f0ab9db43f draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload commit 94b0cd1fff0826c6db3e7dc0c91c0c5a8be8bb0c
author cpt
date Mon, 05 Jun 2023 02:42:12 +0000
parents
children 733cb0807083
comparison
equal deleted inserted replaced
2:dc22c76a57bd 3:f0f0ab9db43f
1 <tool id="edu.tamu.cpt.external.aragorn-gff3" name="Fix tRNA model" version="19.1.0.0">
2 <description/>
3 <macros>
4 <import>macros.xml</import>
5 <import>cpt-macros.xml</import>
6 </macros>
7 <expand macro="requirements"/>
8 <command detect_errors="aggressive"><![CDATA[
9 '$__tool_directory__/fix-aragorn-gff3.py'
10 @INPUT_GFF@
11 > '$default']]></command>
12 <inputs>
13 <expand macro="gff3_input"/>
14 </inputs>
15 <outputs>
16 <data format="gff3" name="default"/>
17 </outputs>
18 <tests>
19 <test>
20 <param name="gff3_data" value="FixAra_In.gff3"/>
21 <output name="default" file="FixAra_Out.gff3"/>
22 </test>
23 </tests>
24 <help><![CDATA[
25 **What it does**
26
27 For an input GFF3 file with tRNAs from the Aragorn or converted from the tRNAscan-SE tools, this tool modifies
28 the gene model to reflect a gene-tRNA-exon hierarchy. That change is needed
29 to allow for creation of proper tRNA features in Apollo.
30 ]]></help>
31 <expand macro="citations"/>
32 </tool>