comparison get_pdb.xml @ 0:538790c6c21b draft default tip

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/chemicaltoolbox/data_source/get_pdb commit 678c8fe83eb51fb36538c0719fceb9a97999c10f
author bgruening
date Fri, 31 May 2019 06:22:47 -0400
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-1:000000000000 0:538790c6c21b
1 <tool id="get_pdb" name="Get PDB file" version="0.1.0">
2 <description>from Protein Data Bank</description>
3 <requirements>
4 <requirement type="package" version="1.20.1">wget</requirement>
5 </requirements>
6 <command detect_errors="exit_code"><![CDATA[
7 wget https://files.rcsb.org/download/${pdb_id}.pdb -O '$output'
8 ]]></command>
9 <inputs>
10 <param name="pdb_id" type="text" label="PDB accession code">
11 <validator type="regex" message="Invalid accession code">^[0-9][a-zA-Z0-9]{3}$</validator>
12 </param>
13 </inputs>
14 <outputs>
15 <data name="output" format="pdb" />
16 </outputs>
17 <tests>
18 <test>
19 <param name="pdb_id" value="1AKI"/>
20 <output name="output" file="1AKI.pdb"/>
21 </test>
22 </tests>
23 <help><![CDATA[
24 Download a protein structure in PDB format from the Protein Data Bank using its four-letter accession code.
25 ]]></help>
26 <citations>
27 <citation type="doi">10.1093/nar/28.1.235</citation>
28 </citations>
29 </tool>