Mercurial > repos > tduigou > rpranker
comparison rpranker.xml @ 4:0b6c315489e4 draft default tip
planemo upload commit 3bc34bfc82850daa2229724c396dcd9454039273-dirty
author | tduigou |
---|---|
date | Fri, 18 Nov 2022 16:04:21 +0000 |
parents | 422a5c9f3583 |
children |
comparison
equal
deleted
inserted
replaced
3:422a5c9f3583 | 4:0b6c315489e4 |
---|---|
1 <tool id="rpranker" name="Rank Pathways" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.09"> | 1 <tool id="rpranker" name="Rank Pathways" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.09"> |
2 <description>Rank heterologous pathways according to their global score</description> | 2 <description>Rank heterologous pathways according to their global score</description> |
3 <macros> | 3 <macros> |
4 <token name="@VERSION_SUFFIX@">0</token> | 4 <token name="@VERSION_SUFFIX@">0</token> |
5 <token name="@TOOL_VERSION@">5.13.1</token> | 5 <token name="@TOOL_VERSION@">6.0.1</token> |
6 </macros> | 6 </macros> |
7 <requirements> | 7 <requirements> |
8 <requirement type="package" version="@TOOL_VERSION@">rptools</requirement> | 8 <requirement type="package" version="@TOOL_VERSION@">rptools</requirement> |
9 </requirements> | 9 </requirements> |
10 <stdio> | 10 <stdio> |
11 <regex match="WARNING" level="warning" /> | 11 <regex match="WARNING" level="warning" /> |
12 <regex match="ERROR" level="fatal" /> | 12 <regex match="ERROR" level="fatal" /> |
13 </stdio> | 13 </stdio> |
14 <command detect_errors="exit_code"><![CDATA[ | 14 <command detect_errors="exit_code"><![CDATA[ |
15 #for $file in $pathway_collection | |
16 ln -s $file $file.name && | |
17 #end for | |
18 | |
15 python -m rptools.rprank | 19 python -m rptools.rprank |
16 --pathways | 20 --pathways |
17 #set files = '" "'.join([str($file) for $file in $pathway_collection]) | 21 |
18 "${files}" | 22 #for $file in $pathway_collection |
23 $file.name | |
24 #end for | |
25 | |
19 > '$sorted_pathways' | 26 > '$sorted_pathways' |
20 ]]></command> | 27 ]]></command> |
21 <inputs> | 28 <inputs> |
22 <param name="pathway_collection" type="data" format="sbml" multiple="true" min="2" label="Pathways" /> | 29 <param name="pathway_collection" type="data" format="sbml" multiple="true" min="2" label="Pathways" /> |
23 </inputs> | 30 </inputs> |