Mercurial > repos > bgruening > chemical_data_sources
comparison jmoleditor/jmoleditor.xml @ 1:17a3f755d472 draft
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author | bgruening |
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date | Wed, 21 Aug 2013 03:07:12 -0400 |
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children | c2055dd1927b |
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0:f653fd06f055 | 1:17a3f755d472 |
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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 |