Mercurial > repos > iuc > hyphy_prime

comparison hyphy_prime.xml @ 15:296f6bc03fa6 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 10:30:38 +0000
parents 1d9d3c6bc246
children 6d29207a32c5
comparison
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14:02f0dfb10421 15:296f6bc03fa6
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="hyphy_prime" name="HyPhy-PRIME" version="@VERSION@+galaxy0" profile="19.09"> 2 <tool id="hyphy_prime" name="HyPhy-PRIME" version="@VERSION@+galaxy0" profile="19.09">
3 <description>Property Informed Models of Evolution</description> 3 <description>Property Informed Models of Evolution</description>
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 <token name="@OPERATION@">PRIME</token>
7 <token name="@operation@">prime</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 '$input_file' prime_input.fa && 11 @SYMLINK_FILES@
10 ln -s '$input_nhx' prime_input.nhx &&
11 @HYPHYMPI@ prime 12 @HYPHYMPI@ prime
12 --alignment ./prime_input.fa 13 --alignment ./$input_file
13 --tree ./prime_input.nhx 14 #if $input_nhx:
15 --tree ./input.nhx
16 #end if
14 --code '$gencodeid' 17 --code '$gencodeid'
15 --branches '$branches' 18 --branches '$branches'
16 --pvalue '$p_value' 19 --pvalue '$p_value'
17 --properties '$prop_set' 20 --properties '$prop_set'
18 --output '$prime_output' 21 --output '$prime_output'
19 > '$prime_log' 22 > '$prime_log'
20 ; 23 ;
21 @CATCH_MPIERR@ 24 @CATCH_ERROR@
22 ]]></command> 25 ]]></command>
23 <inputs> 26 <inputs>
24 <expand macro="inputs"/> 27 <expand macro="inputs"/>
25 <expand macro="gencode"/> 28 <expand macro="gencode"/>
26 <expand macro="branches"/> 29 <expand macro="branches"/>