Skip to content

Commit

Permalink
first viz pass
Browse files Browse the repository at this point in the history
  • Loading branch information
@tcollins2011
tcollins2011 committed Jun 24, 2024
1 parent 631af8f commit 6a85a0b
Show file tree
Hide file tree
Showing 6 changed files with 978 additions and 377 deletions.
290 changes: 1 addition & 289 deletions config/plugins/visualizations/ngl/config/ngl.xml
View file
Original file line number Diff line number Diff line change
Expand Up @@ -12,293 +12,5 @@
<params>
<param type="dataset" var_name_in_template="hda" required="true">dataset_id</param>
</params>
<entry_point entry_point_type="chart" src="dist/ngl.js"/>
<settings>
<input>
<label>Quality</label>
<name>quality</name>
<help>Select the rendering quality</help>
<type>select</type>
<display>radio</display>
<value>medium</value>
<data>
<data>
<label>High</label>
<value>high</value>
</data>
<data>
<label>Medium</label>
<value>medium</value>
</data>
<data>
<label>Low</label>
<value>low</value>
</data>
</data>
</input>
<input>
<name>mode</name>
<label>Display mode</label>
<help>Select the rendering mode</help>
<type>select</type>
<display>radio</display>
<value>cartoon</value>
<data>
<data>
<label>Axes</label>
<value>axes</value>
</data>
<data>
<label>Base</label>
<value>base</value>
</data>
<data>
<label>Backbone</label>
<value>backbone</value>
</data>
<data>
<label>Ball+Stick</label>
<value>ball+stick</value>
</data>
<data>
<label>Cartoon</label>
<value>cartoon</value>
</data>
<data>
<label>Contact</label>
<value>contact</value>
</data>
<data>
<label>Helixorient</label>
<value>helixorient</value>
</data>
<data>
<label>Hyperball</label>
<value>hyperball</value>
</data>
<data>
<label>Label</label>
<value>label</value>
</data>
<data>
<label>Licorice</label>
<value>licorice</value>
</data>
<data>
<label>Line</label>
<value>line</value>
</data>
<data>
<label>Point</label>
<value>point</value>
</data>
<data>
<label>Ribbon</label>
<value>ribbon</value>
</data>
<data>
<label>Rocket</label>
<value>rocket</value>
</data>
<data>
<label>Rope</label>
<value>rope</value>
</data>
<data>
<label>Spacefill</label>
<value>spacefill</value>
</data>
<data>
<label>Surface</label>
<value>surface</value>
</data>
<data>
<label>Trace</label>
<value>trace</value>
</data>
<data>
<label>Tube</label>
<value>tube</value>
</data>
<data>
<label>Unitcell</label>
<value>unitcell</value>
</data>
</data>
</input>
<input>
<name>radius</name>
<label>Radius</label>
<help>Select a number providing a fixed radius used for rendering the representation.</help>
<type>float</type>
<min>0.001</min>
<max>10.0</max>
<value>0.05</value>
</input>
<input>
<name>colorscheme</name>
<label>Color Scheme</label>
<help>Select color scheme of the molecule scene.</help>
<type>select</type>
<display>radio</display>
<value>atomindex</value>
<data>
<data>
<label>Element</label>
<value>element</value>
</data>
<data>
<label>Picking</label>
<value>picking</value>
</data>
<data>
<label>Random</label>
<value>random</value>
</data>
<data>
<label>Uniform</label>
<value>uniform</value>
</data>
<data>
<label>Atomindex</label>
<value>atomindex</value>
</data>
<data>
<label>Residue Index</label>
<value>residueindex</value>
</data>
<data>
<label>Chain Index</label>
<value>chainindex</value>
</data>
<data>
<label>Chain Name</label>
<value>chainname</value>
</data>
<data>
<label>Chain Id</label>
<value>chainid</value>
</data>
<data>
<label>Polymer</label>
<value>polymer</value>
</data>
<data>
<label>Model Index</label>
<value>modelindex</value>
</data>
<data>
<label>Entity Type</label>
<value>entitytype</value>
</data>
<data>
<label>Molecule Type</label>
<value>moleculetype</value>
</data>
<data>
<label>Secondary Structure</label>
<value>sstruc</value>
</data>
<data>
<label>Bfactor</label>
<value>bfactor</value>
</data>
<data>
<label>Resname</label>
<value>resname</value>
</data>
<data>
<label>Hydrophobicity</label>
<value>hydrophobicity</value>
</data>
<data>
<label>Value</label>
<value>value</value>
</data>
<data>
<label>Volume</label>
<value>volume</value>
</data>
<data>
<label>Occupancy</label>
<value>occupancy</value>
</data>
</data>
</input>
<input>
<name>backcolor</name>
<label>Background Color</label>
<help>Select background color of the viewer.</help>
<type>select</type>
<display>radio</display>
<value>white</value>
<data>
<data>
<label>Light</label>
<value>white</value>
</data>
<data>
<label>Dark</label>
<value>black</value>
</data>
</data>
</input>
<input>
<name>spin</name>
<label>Spin</label>
<help>Spin the molecule view.</help>
<type>select</type>
<display>radio</display>
<value>false</value>
<data>
<data>
<label>On</label>
<value>true</value>
</data>
<data>
<label>Off</label>
<value>false</value>
</data>
</data>
</input>
<input>
<name>assembly</name>
<label>Assembly</label>
<help>Select a name of an assembly object.</help>
<type>select</type>
<display>radio</display>
<value>default</value>
<data>
<data>
<label>Default</label>
<value>default</value>
</data>
<data>
<label>AU</label>
<value></value>
</data>
<data>
<label>BU1</label>
<value>BU1</value>
</data>
<data>
<label>UNITCELL</label>
<value>UNITCELL</value>
</data>
<data>
<label>SUPERCELL</label>
<value>SUPERCELL</value>
</data>
</data>
</input>
<input>
<name>opacity</name>
<label>Opacity</label>
<help>Select opacity for the molecule scene.</help>
<type>float</type>
<min>0.0</min>
<max>1.0</max>
<value>1.0</value>
</input>
</settings>
<template>index.mako</template>
</visualization>
Loading

0 comments on commit 6a85a0b

Please sign in to comment.