Mercurial > repos > jpayne > refchooser

comparison refchooser.xml @ 5:b23f76d954e5 draft

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planemo upload commit 9b0280377fda46503e57d9a777f08327ae794625
author galaxytrakr
date Mon, 16 Mar 2026 15:17:45 +0000
parents 806262ab8081
children 1ef3318b933d
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4:a657c8343dd0 5:b23f76d954e5
1 <tool id="refchooser" name="Refchooser" version="0.2.1+galaxy0.1" python_template_version="3.5" profile="21.05"> 1 <tool id="refchooser" name="Refchooser" version="0.2.1+galaxy0.1" python_template_version="3.5" profile="21.05">
2 <description>Select centroidal assembly from a collection of closely-related assemblies, for reference purposes</description> 2 <description>Select centroidal assembly from a collection of closely-related assemblies, for reference purposes</description>
3 <requirements> 3 <requirements>
4 <container type="docker">quay.io/galaxytrakr/refchooser:92689f5</container> 4 <container type="docker">quay.io/galaxytrakr/refchooser:92689f5</container>
5
6 </requirements> 5 </requirements>
7 <command detect_errors="exit_code"><![CDATA[ 6 <command detect_errors="exit_code"><![CDATA[
8 mkdir ./assemblies && 7 mkdir ./assemblies &&
9 #for assembly in $assemblies 8 #for assembly in $assemblies
10 ln -sf '$assembly' ./assemblies/${assembly.element_identifier.replace(": ", ".").replace(" ", "_")}.fasta && 9 ln -sf '$assembly' ./assemblies/${assembly.element_identifier.replace(": ", ".").replace(" ", "_")}.fasta &&