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comparison spatyper.xml @ 2:267d7e73c047 draft default tip

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planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/tools/spatyper commit f3fb3601f726fd8f18dc42e6a83a9f92a7f27712
author nml
date Tue, 18 Apr 2023 23:06:41 +0000
parents 2c353e0dacae
children
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1:2c353e0dacae 2:267d7e73c047
1 <tool id="spatyper" name="Generate spa type identification" version="@VERSION@+galaxy0" profile="20.01"> 1 <tool id="spatyper" name="Generate spa type identification" version="@VERSION@+galaxy1" profile="20.01">
2 <macros> 2 <macros>
3 <token name="@VERSION@">0.3.3</token> 3 <token name="@VERSION@">0.3.3</token>
4 </macros> 4 </macros>
5 <requirements> 5 <requirements>
6 <requirement type="package" version="@VERSION@">spatyper</requirement> 6 <requirement type="package" version="@VERSION@">spatyper</requirement>
7 </requirements> 7 </requirements>
8 <command detect_errors="aggressive"> <![CDATA[ 8 <command detect_errors="aggressive"> <![CDATA[
9 spaTyper -f '${input1}' -r '${input2}' > '${output1}' 9 spaTyper -f '${input}' --output '${output}'
10 ]]> </command> 10 ]]> </command>
11 <inputs> 11 <inputs>
12 <param type="data" name="input1" format="fasta" label="SPA Fasta file" help="Staphylococcus aureus - staphylococcal protein A fasta file. This will be assigned a type based on its repeat region."/> 12 <param type="data" name="input" format="fasta" label="SPA Fasta file" help="Staphylococcus aureus - staphylococcal protein A fasta file. This will be assigned a type based on its repeat region."/>
13 <param type="data" name="input2" format="fasta" label="Repeats Library Multifasta" help="A multifasta representing a set of known repeat regions found in staphylococcal protein A. This can be downloaded at (http://spa.ridom.de/dynamic/sparepeats.fasta)"/>
14 </inputs> 13 </inputs>
15 <outputs> 14 <outputs>
16 <data name="output1" format="txt" /> 15 <data name="output" format="tsv"/>
17 </outputs> 16 </outputs>
18 <tests> 17 <tests>
19 <test> 18 <test>
20 <param name="input1" value="input.fasta"/> 19 <param name="input" value="input.fasta"/>
21 <param name="input2" value="sparepeats.fasta"/> 20 <output name="output" file="output.tsv" ftype="tsv"/>
22 <output name="output1">
23 <assert_contents>
24 <has_text text = "t11215" />
25 </assert_contents>
26 </output>
27 </test> 21 </test>
28 </tests> 22 </tests>
29 <help><![CDATA[ 23 <help><![CDATA[
30 :: 24 ::
31 25