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]
On 26 January 2016 at 17:29, Tim Dudgeon <[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]
>
> On 26 January 2016 at 16:03, Tim Dudgeon <[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]
>>
>> On 26 January 2016 at 14:36, Tim Dudgeon < <[email protected]>
>> [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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>>
>>
>
>
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