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comparison jmoleditor/jmoleditor.xml @ 1:17a3f755d472 draft

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author bgruening
date Wed, 21 Aug 2013 03:07:12 -0400
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0:f653fd06f055 1:17a3f755d472
1 <tool id="jmoleditor" name="JMol Editor" tool_type="data_source">
2 <description>A Chemical Structure Editor</description>
3 <command interpreter="python">jmoleditor.py $output</command>
4 <inputs action="http://localhost:8000/Jmoleditor/editor.htm" check_values="false" method="GET">
5 <param name="GALAXY_URL" type="baseurl" value="/tool_runner" />
6 <param name="URL" type="hidden" value="http://localhost:8000/Jmoleditor/editor.htm" />
7 <param name="tool_id" type="hidden" value="jmoleditor" />
8 </inputs>
9 <request_param_translation>
10 <request_param galaxy_name="URL_method" remote_name="URL_method" missing="post" />
11 <request_param galaxy_name="URL" remote_name="URL" missing="" />
12 <request_param galaxy_name="galaxyData" remote_name="galaxyData" missing="?" />
13 <request_param galaxy_name="data_type" remote_name="data_type" missing="txt" />
14 <request_param galaxy_name="output_label" remote_name="data_type" missing="txt" >
15 <value_translation>
16 <value galaxy_value="Molecule" remote_value="mol" />
17 <value galaxy_value="SMILES" remote_value="smi" />
18 </value_translation>
19 </request_param>
20 </request_param_translation>
21 <uihints minwidth="800"/>
22 <outputs>
23 <data name="output" format="smi" label='imported ${output_label} file'>
24 <change_format>
25 <when input="output_label" value="SMILES" format="smi"/>
26 </change_format>
27 </data>
28 </outputs>
29 <options sanitize="False" refresh="True"/>
30 <help>
31
32 .. class:: infomark
33
34 **What this tool does**
35
36 Paint a structure and load it into your Galaxy history.
37
38 -----
39
40 .. class:: infomark
41
42 **Cite**
43
44 Jmol_: an open-source Java viewer for chemical structures in 3D
45
46 .. _Jmol: http://jmol.sourceforge.net/
47
48 </help>
49 </tool>
50
51