Mercurial > repos > iuc > hyphy_slac

comparison hyphy_slac.xml @ 24:ec499ddce7a9 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"
author iuc
date Tue, 20 Apr 2021 10:28:55 +0000
parents dc9e52b2d0e1
children 0c6724c345d9
comparison
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23:599e492f8063 24:ec499ddce7a9
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="hyphy_slac" name="HyPhy-SLAC" version="@VERSION@+galaxy0" profile="19.09"> 2 <tool id="hyphy_slac" name="HyPhy-SLAC" version="@VERSION@+galaxy0" profile="19.09">
3 <description>Single Likelihood Ancestor Counting</description> 3 <description>Single Likelihood Ancestor Counting</description>
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 <token name="@OPERATION@">SLAC</token>
7 <token name="@operation@">slac</token>
6 </macros> 8 </macros>
7 <expand macro="requirements"/> 9 <expand macro="requirements"/>
8 <command detect_errors="exit_code"><![CDATA[ 10 <command detect_errors="exit_code"><![CDATA[
9 ln -s '$input_file' slac_input.fa && 11 @SYMLINK_FILES@
10 ln -s '$input_nhx' slac_input.nhx &&
11 hyphy slac 12 hyphy slac
12 --alignment ./slac_input.fa 13 --alignment ./$input_file
13 --tree ./slac_input.nhx 14 #if $input_nhx:
15 --tree ./input.nhx
16 #end if
14 --code '$gencodeid' 17 --code '$gencodeid'
15 --branches '$branches' 18 --branches '$branches'
16 --samples '$number_of_samples' 19 --samples '$number_of_samples'
17 --pvalue '$p_value' 20 --pvalue '$p_value'
18 --output '$slac_output' 21 --output '$slac_output'
19 > '$slac_log' 22 > '$slac_log' ;
23 @CATCH_ERROR@
20 ]]></command> 24 ]]></command>
21 <inputs> 25 <inputs>
22 <expand macro="inputs"/> 26 <expand macro="inputs"/>
23 <expand macro="gencode"/> 27 <expand macro="gencode"/>
24 <expand macro="branches"/> 28 <expand macro="branches"/>