Mercurial > repos > cpt > cpt_xmfa_split
comparison lcb_split.xml @ 1:5d9bc33ec5d3 draft
planemo upload commit 94b0cd1fff0826c6db3e7dc0c91c0c5a8be8bb0c
author | cpt |
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date | Mon, 05 Jun 2023 02:54:34 +0000 |
parents | |
children | e4207a7661e7 |
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0:21d00cf83137 | 1:5d9bc33ec5d3 |
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1 <tool id="edu.tamu.cpt.xmfa.split" name="Split LCBs into smaller LCBs" version="@WRAPPER_VERSION@.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 'python $__tool_directory__/lcb_split.py' | |
10 @XMFA_INPUT@ | |
11 --window_size '$window_size' | |
12 --threshold '$threshold' | |
13 > '$output' | |
14 ]]></command> | |
15 <inputs> | |
16 <expand macro="xmfa_input"/> | |
17 <param type="integer" name="window_size" value="10" label="Default window size generating smaller LCBs"/> | |
18 <param type="float" name="threshold" value="0.7" min="0" max="1" label="Threshold at which a given genome is part of the new small LCBs"/> | |
19 </inputs> | |
20 <outputs> | |
21 <data format="xmfa" name="output"/> | |
22 </outputs> | |
23 <help><![CDATA[ | |
24 **What it does** | |
25 | |
26 Helps reduce large and non-sensical protein LCBs into real protein alignments. | |
27 | |
28 **WARNING** | |
29 | |
30 Probably does not work if you have - strand genes. Need to test. | |
31 | |
32 ]]></help> | |
33 <!-- TODO --> | |
34 <expand macro="citations"/> | |
35 </tool> |