Mercurial > repos > iuc > hyphy_absrel

comparison hyphy_absrel.xml @ 24:9275e81b5590 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 10:30:06 +0000
parents 0b58ef9e84b2
children 5f2ca10db92a
comparison
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23:5a7c56a5cc08 24:9275e81b5590
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="hyphy_absrel" name="HyPhy-aBSREL" version="@VERSION@+galaxy0" profile="19.09"> 2 <tool id="hyphy_absrel" name="HyPhy-aBSREL" version="@VERSION@+galaxy0" profile="19.09">
3 <description>adaptive Branch Site Random Effects Likelihood</description> 3 <description>adaptive Branch Site Random Effects Likelihood</description>
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 <token name="@OPERATION@">aBSREL</token>
7 <token name="@operation@">absrel</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 '$input_file' absrel_input.fa && 11 @SYMLINK_FILES@
10 ln -s '$input_nhx' absrel_input.nhx &&
11 @HYPHYMPI@ absrel 12 @HYPHYMPI@ absrel
12 --alignment ./absrel_input.fa 13 --alignment ./$input_file
13 --tree ./absrel_input.nhx 14 #if $input_nhx:
15 --tree ./input.nhx
16 #end if
14 --code '$gencodeid' 17 --code '$gencodeid'
15 --branches '$branches' 18 --branches '$branches'
16 --output '$absrel_output' 19 --output '$absrel_output'
17 --multiple-hits $multiple_hits 20 --multiple-hits $multiple_hits
18 #if $log: 21 #if $log:
19 > '$absrel_log' 22 > '$absrel_log'
20 #end if 23 #end if
21 ; 24 ;
22 @CATCH_MPIERR@ 25 @CATCH_ERROR@
23 ]]></command> 26 ]]></command>
24 <inputs> 27 <inputs>
25 <expand macro="inputs"/> 28 <expand macro="inputs"/>
26 <param name="log" type="boolean" truevalue="" falsevalue="" label="Output aBSREL log to history"/> 29 <param name="log" type="boolean" truevalue="" falsevalue="" label="Output aBSREL log to history"/>
27 <expand macro="gencode"/> 30 <expand macro="gencode"/>