comparison hyphy_absrel.xml @ 24:9275e81b5590 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2742ee3b4e90f65352845265d2f85c4263e0eabb"

23:5a7c56a5cc08

<?xml version="1.0"?>
<tool id="hyphy_absrel" name="HyPhy-aBSREL" version="@VERSION@+galaxy0" profile="19.09">
    <description>adaptive Branch Site Random Effects Likelihood</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements"/>
    <command detect_errors="exit_code"><![CDATA[
        ln -s '$input_file' absrel_input.fa &&
        ln -s '$input_nhx' absrel_input.nhx &&
        @HYPHYMPI@ absrel
            --alignment ./absrel_input.fa
            --tree ./absrel_input.nhx
            --code '$gencodeid'
            --branches '$branches'
            --output '$absrel_output'
            --multiple-hits $multiple_hits
            #if $log:
                > '$absrel_log'
            #end if
            ;
        @CATCH_MPIERR@
        ]]></command>
    <inputs>
        <expand macro="inputs"/>
        <param name="log" type="boolean" truevalue="" falsevalue="" label="Output aBSREL log to history"/>
        <expand macro="gencode"/>

24:9275e81b5590

<?xml version="1.0"?>
<tool id="hyphy_absrel" name="HyPhy-aBSREL" version="@VERSION@+galaxy0" profile="19.09">
    <description>adaptive Branch Site Random Effects Likelihood</description>
    <macros>
        <import>macros.xml</import>
        <token name="@OPERATION@">aBSREL</token>
        <token name="@operation@">absrel</token>
    </macros>
    <expand macro="requirements"/>
    <command detect_errors="exit_code"><![CDATA[
        @SYMLINK_FILES@
        @HYPHYMPI@ absrel
            --alignment ./$input_file
            #if $input_nhx:
                --tree ./input.nhx
            #end if
            --code '$gencodeid'
            --branches '$branches'
            --output '$absrel_output'
            --multiple-hits $multiple_hits
            #if $log:
                > '$absrel_log'
            #end if
            ;
        @CATCH_ERROR@
        ]]></command>
    <inputs>
        <expand macro="inputs"/>
        <param name="log" type="boolean" truevalue="" falsevalue="" label="Output aBSREL log to history"/>
        <expand macro="gencode"/>