OK, so making more sense to me now.
But what does this option do:
http://cdk.github.io/cdk/1.5/docs/api/org/openscience/cdk/renderer/generators/BasicAtomGenerator.ShowExplicitHydrogens.html
Is it just a way to turn off display off explicit H with the default
being to display them?
Tim
On 26/01/2016 18:58, John M wrote:
Sorry bit confused here.. hydrogens are always shown especially with
explicit.
J
http://cdkdepict-openchem.rhcloud.com/depict/bow/svg?smi=%5BN%5D1C%3DCC%3DC1.%5BNH%5D1C%3DCC%3DC1.%5BH%5DN1C%3DCC%3DC1&zoom=1.3&annotate=none
Regards,
John W May
[email protected] <mailto:[email protected]>
On 26 January 2016 at 17:29, Tim Dudgeon <[email protected]
<mailto:[email protected]>> wrote:
Any chance to change this?
Displaying explicit H is pretty important when dealing with query
structures.
Not sure if there are other "critical" "advanced" parameters.
Tim
On 26/01/2016 16:17, John M wrote:
Yep - I'll add a better error message to reflect this.
Regards,
John W May
[email protected] <mailto:[email protected]>
On 26 January 2016 at 16:03, Tim Dudgeon <[email protected]
<mailto:[email protected]>> wrote:
So this means that options like this can't be used with
DepictionGenerator?
On 26/01/2016 14:53, John M wrote:
There are about three different generators which have
separate parameters - the depiction generator is intended to
hide this, here the withParam is really an expert mode... I
should give a better error message though. The depiction
generator uses the StandardGenerator and and
BasicSceneGenerator so you can only use parameters from their.
Regards,
John W May
[email protected] <mailto:[email protected]>
On 26 January 2016 at 14:36, Tim Dudgeon
<[email protected] <mailto:[email protected]>> wrote:
When I try to use the low level
DepictionGenerator.withParam(Class<T>, U) method to set
a parameter depiction blows up.
e.g. I try:
withParam(BasicAtomGenerator.ShowExplicitHydrogens.class, true)
and then try to depict I get:
java.lang.IllegalAccessError: You requested the active
parameter of type
org.openscience.cdk.renderer.generators.BasicAtomGenerator$ShowExplicitHydrogens,
but it has not been registered yet. Did you make sure
the IGeneratorParameter is registered, by registring the
appropriate IGenerator? Alternatively, you can use
getDefault() to query the default value for any
parameter on the classpath.
at
org.openscience.cdk.renderer.RendererModel.getParameter(RendererModel.java:209)
at
org.openscience.cdk.renderer.RendererModel.set(RendererModel.java:249)
at
org.openscience.cdk.depict.DepictionGenerator.getModel(DepictionGenerator.java:284)
at
org.openscience.cdk.depict.DepictionGenerator.depict(DepictionGenerator.java:348)
at
org.openscience.cdk.depict.DepictionGenerator.depict(DepictionGenerator.java:296)
How is it supposed to register these?
Tim
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