Mercurial > repos > bgruening > chemical_data_sources
diff jmoleditor/jmoleditor.xml @ 1:17a3f755d472 draft
Uploaded
author | bgruening |
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date | Wed, 21 Aug 2013 03:07:12 -0400 |
parents | |
children | c2055dd1927b |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/jmoleditor/jmoleditor.xml Wed Aug 21 03:07:12 2013 -0400 @@ -0,0 +1,51 @@ +<tool id="jmoleditor" name="JMol Editor" tool_type="data_source"> + <description>A Chemical Structure Editor</description> + <command interpreter="python">jmoleditor.py $output</command> + <inputs action="http://localhost:8000/Jmoleditor/editor.htm" check_values="false" method="GET"> + <param name="GALAXY_URL" type="baseurl" value="/tool_runner" /> + <param name="URL" type="hidden" value="http://localhost:8000/Jmoleditor/editor.htm" /> + <param name="tool_id" type="hidden" value="jmoleditor" /> + </inputs> + <request_param_translation> + <request_param galaxy_name="URL_method" remote_name="URL_method" missing="post" /> + <request_param galaxy_name="URL" remote_name="URL" missing="" /> + <request_param galaxy_name="galaxyData" remote_name="galaxyData" missing="?" /> + <request_param galaxy_name="data_type" remote_name="data_type" missing="txt" /> + <request_param galaxy_name="output_label" remote_name="data_type" missing="txt" > + <value_translation> + <value galaxy_value="Molecule" remote_value="mol" /> + <value galaxy_value="SMILES" remote_value="smi" /> + </value_translation> + </request_param> + </request_param_translation> + <uihints minwidth="800"/> + <outputs> + <data name="output" format="smi" label='imported ${output_label} file'> + <change_format> + <when input="output_label" value="SMILES" format="smi"/> + </change_format> + </data> + </outputs> + <options sanitize="False" refresh="True"/> + <help> + +.. class:: infomark + +**What this tool does** + +Paint a structure and load it into your Galaxy history. + +----- + +.. class:: infomark + +**Cite** + +Jmol_: an open-source Java viewer for chemical structures in 3D + +.. _Jmol: http://jmol.sourceforge.net/ + + </help> +</tool> + +