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comparison legsta.xml @ 2:0411fca1d681 draft default tip

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planemo upload for repository https://github.com/tseemann/legsta commit ba53da012895c122e1fb7576c68d18c1a70320b4
author iuc
date Tue, 12 Mar 2024 11:16:20 +0000
parents 579f1cabfe79
children
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1:579f1cabfe79 2:0411fca1d681
1 <tool id="legsta" name="legsta" version="@TOOL_VERSION@+galaxy1" profile="20.01"> 1 <tool id="legsta" name="legsta" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01">
2 <description>Legionella pneumophila sequence based typing</description> 2 <description>Legionella pneumophila sequence based typing</description>
3 3
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 <xrefs>
8 <xref type="bio.tools">legsta</xref>
9 </xrefs>
7 <expand macro="requirements"/> 10 <expand macro="requirements"/>
8 11
9 <command detect_errors="exit_code"><![CDATA[ 12 <command detect_errors="exit_code"><![CDATA[
10 #import re 13 #import re
11 #set safe_names=[] 14 #set safe_names=[]
28 > '$output' 31 > '$output'
29 ]]></command> 32 ]]></command>
30 33
31 <inputs> 34 <inputs>
32 <param type="data" name="contigs" format="genbank,embl,gff,gff3,fasta,fasta.gz,fastq,fastq.gz,clustal,stockholm" multiple="true" label="Contigs" help="One or more input files in FASTA, FASTQ, Genbank, EMBL, Clustal, Stockholm or GFF format." /> 35 <param type="data" name="contigs" format="genbank,embl,gff,gff3,fasta,fasta.gz,fastq,fastq.gz,clustal,stockholm" multiple="true" label="Contigs" help="One or more input files in FASTA, FASTQ, Genbank, EMBL, Clustal, Stockholm or GFF format." />
33 <param name="noheader" type="boolean" argument="--noheader" truevalue="--noheader" falsevalue="" label="Remove table header" help="Removes the table header from the output (ie. FILE SBT flaA ...)" /> 36 <param argument="--noheader" type="boolean" truevalue="--noheader" falsevalue="" label="Remove table header" help="Removes the table header from the output (ie. FILE SBT flaA ...)" />
34 <param name="csv" type="boolean" argument="--csv" truevalue="--csv" falsevalue="" label="CSV output" help="Prints the output in comma-separated value format instead of tab-separated value format." /> 37 <param argument="--csv" type="boolean" truevalue="--csv" falsevalue="" label="CSV output" help="Prints the output in comma-separated value format instead of tab-separated value format." />
35 </inputs> 38 </inputs>
36 39
37 <outputs> 40 <outputs>
38 <data name="output" format="tabular"> 41 <data name="output" format="tabular">
39 <change_format> 42 <change_format>
40 <when input="csv" value="--csv" format="csv" /> 43 <when input="csv" value="--csv" format="csv" />
41 <when input="csv" value="" format="tabular" />
42 </change_format> 44 </change_format>
43 </data> 45 </data>
44 </outputs> 46 </outputs>
45 47
46 <tests> 48 <tests>