Mercurial > repos > bcclaywell > microbiome_pplacer_suite

comparison classification.xml @ 6:3c50a937d7c1 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author bcclaywell
date Wed, 15 Apr 2015 19:14:23 -0400
parents d4690e65afcd
children
comparison
equal deleted inserted replaced
5:2d023c621bd0 6:3c50a937d7c1
1 <tool id="PHYLO_classification" name="Output classifications" version="2.1.0"> 1 <tool id="PHYLO_classification" name="Output classifications" version="2.1.0">
2 <description>in tabular format</description> 2 <description>in tabular format</description>
3 <macros>
4 <import>macros.xml</import>
5 </macros>
3 <requirements> 6 <requirements>
4 <requirement type="package">yapp_env</requirement> 7 <requirement type="package">yapp_env</requirement>
5 </requirements> 8 </requirements>
6 <macros> 9 <stdio>
7 <import>macros.xml</import> 10 <expand macro="basic_errors"/>
8 </macros> 11 </stdio>
9 <version_command>echo "guppy $(guppy --version)"</version_command> 12 <version_command>echo "pplacer $(pplacer --version)"</version_command>
10 <command interpreter="bash"> 13 <command interpreter="bash">
11 classification-wrapper.sh ${config} 14 classification-wrapper.sh ${config}
12 </command> 15 </command>
13 <stdio>
14 <expand macro="basic_errors"/>
15 </stdio>
16 <inputs> 16 <inputs>
17 <param name="split_map" type="data" format="csv" label="Read-to-specimen map"/> 17 <param name="split_map" type="data" format="csv" label="Read-to-specimen map"/>
18 <param name="label_map" type="data" format="csv" label="Specimen-to-label map"/> 18 <param name="label_map" type="data" format="csv" label="Specimen-to-label map"/>
19 <param name="class_db" type="data" format="sqlite3" label="Placement database"/> 19 <param name="class_db" type="data" format="sqlite3" label="Placement database"/>
20 <param name="want_rank" type="select" label="Desired classification rank"> 20 <param name="want_rank" type="select" label="Desired classification rank">
99 GLKT0ZE01CQ2BU below_species genus 1257 0.0732247 99 GLKT0ZE01CQ2BU below_species genus 1257 0.0732247
100 GLKT0ZE01CQ2BU below_species species 1261 0.853561 100 GLKT0ZE01CQ2BU below_species species 1261 0.853561
101 GLKT0ZE01CQ2BU below_species species 341694 0.073214 101 GLKT0ZE01CQ2BU below_species species 341694 0.073214
102 102
103 </help> 103 </help>
104 <citations>
105 <expand macro="cite_pplacer"/>
106 </citations>
104 </tool> 107 </tool>