I discovered this after I bought the full version of Embrio; the code this MWE is based on worked in connected mode, but then failed in uploaded mode. This led to the unfortunate experience of buying Embrio only to have my code fail as soon as I tried to use it.
In connected mode, it is possible to fire a trigger by directly writing to an Output_Trigger; the same code fails in uploaded mode. For example, the following MWE blinks the pin 13 LED in connected mode, but leaves it unlit in uploaded mode:
<EmbrioCopy>
<Version>1.3.5.0</Version>
<Nodes>
<Node>
<UniqueID>e6a136a7-e0a5-4a97-84a3-093c266fbe46</UniqueID>
<AssemblyType>Embrio.NodeEngine.AgentController.Nodes.AgentControllerCustomArduinoNode</AssemblyType>
<NodeType>Custom Arduino Node</NodeType>
<UserDefinedName></UserDefinedName>
<Description>A node that lets you write any Arduino code to interact with the Arduino hardware. Can be both an input and output.</Description>
<NodeColor>144,183,227,255</NodeColor>
<X>0</X>
<Y>0</Y>
<Width>438</Width>
<IncludeCode></IncludeCode>
<DeclerationCode>int i = 0;</DeclerationCode>
<SetupCode></SetupCode>
<ImageName>arduino.png</ImageName>
<InfoURL></InfoURL>
<IsOpen>True</IsOpen>
<EditWidth>360</EditWidth>
<CodeDefinitions>
<CodeDefinition>
<UpdateCondition>EveryUpdate</UpdateCondition>
<Code>if ( (i++)%8 == 0 ) {
Output_Trigger = true;
}</Code>
<UniqueID>cff76473-d795-4f10-8e4c-392db93862ff</UniqueID>
</CodeDefinition>
</CodeDefinitions>
<Inputs></Inputs>
<Outputs>
<Output>
<UniqueID>310aa4d4-29b8-44c0-8bce-c04de2f948f3</UniqueID>
<DefinitionID>00000000-0000-0000-0000-000000000000</DefinitionID>
<DefaultName>Trigger</DefaultName>
<CustomName></CustomName>
<IsDisplayed>True</IsDisplayed>
<IsNative>False</IsNative>
<TypeName>Trigger</TypeName>
<IsOutsideConnection>False</IsOutsideConnection>
<IOType>Embrio.NodeEngine.NodeIO.TriggerNodeOutput</IOType>
<ShowGraph>False</ShowGraph>
<LinkedIOID>00000000-0000-0000-0000-000000000000</LinkedIOID>
<IsUserAdded>True</IsUserAdded>
</Output>
</Outputs>
</Node>
<Node>
<UniqueID>fb957216-c451-48cd-a68f-4f4cf2923a65</UniqueID>
<AssemblyType>Embrio.NodeEngine.AgentController.Nodes.AgentControllerOutputNode</AssemblyType>
<NodeType>Controller Output</NodeType>
<UserDefinedName></UserDefinedName>
<Description>Sets either an analog or digital output pin on the Arduino.</Description>
<NodeColor>144,183,227,255</NodeColor>
<X>818</X>
<Y>72</Y>
<Width>260</Width>
<PinType>Digital</PinType>
<RangeMin>0</RangeMin>
<RangeMax>255</RangeMax>
<Pin>D13</Pin>
<UpdateCondition>InputChange</UpdateCondition>
<DebugIndex>0</DebugIndex>
<DebugBoolIndex>0</DebugBoolIndex>
<Inputs>
<Input>
<UniqueID>4892f98c-5783-421e-ab88-e3d63e0dee0e</UniqueID>
<DefinitionID>00000000-0000-0000-0000-000000000000</DefinitionID>
<DefaultName>Activation</DefaultName>
<CustomName></CustomName>
<IsDisplayed>True</IsDisplayed>
<IsNative>True</IsNative>
<TypeName>Numeric</TypeName>
<IsOutsideConnection>False</IsOutsideConnection>
<IOType>Embrio.NodeEngine.NodeIO.NumericNodeInput</IOType>
<ShowGraph>False</ShowGraph>
<LinkedIOID>00000000-0000-0000-0000-000000000000</LinkedIOID>
<IsUserAdded>False</IsUserAdded>
<ConnectedOutputs>
<Output>b418ad25-caac-40c2-9d79-8ae09e5e75e0</Output>
</ConnectedOutputs>
<BlendMode>Add</BlendMode>
<DisconnectedValue>0</DisconnectedValue>
<UseNegativeRange>False</UseNegativeRange>
<CanUseNegativeRange>True</CanUseNegativeRange>
</Input>
</Inputs>
<Outputs></Outputs>
</Node>
<Node>
<UniqueID>6171c50f-9b64-40d9-a5f2-0aa07a9e7410</UniqueID>
<AssemblyType>Embrio.NodeEngine.AgentController.Nodes.DynamicNode</AssemblyType>
<NodeType>Switch</NodeType>
<UserDefinedName></UserDefinedName>
<Description></Description>
<NodeColor>229,229,197,255</NodeColor>
<X>524</X>
<Y>26</Y>
<Width>260</Width>
<DefinitionID>13030c99-98ce-4f5b-bdc5-5ee155eac37c</DefinitionID>
<Inputs>
<Input>
<UniqueID>91594046-cc7b-4d70-a05e-a05d3ceb482e</UniqueID>
<DefinitionID>a8114d67-28ba-43a7-b292-5065f966dde3</DefinitionID>
<DefaultName>On Value</DefaultName>
<CustomName></CustomName>
<IsDisplayed>True</IsDisplayed>
<IsNative>False</IsNative>
<TypeName>Numeric</TypeName>
<IsOutsideConnection>False</IsOutsideConnection>
<IOType>Embrio.NodeEngine.NodeIO.NumericNodeInput</IOType>
<ShowGraph>False</ShowGraph>
<LinkedIOID>00000000-0000-0000-0000-000000000000</LinkedIOID>
<IsUserAdded>False</IsUserAdded>
<ConnectedOutputs></ConnectedOutputs>
<BlendMode>Add</BlendMode>
<DisconnectedValue>1</DisconnectedValue>
<UseNegativeRange>False</UseNegativeRange>
<CanUseNegativeRange>True</CanUseNegativeRange>
</Input>
<Input>
<UniqueID>c402808d-2dd3-48d8-8e92-7344aa63a987</UniqueID>
<DefinitionID>88d36748-1367-442a-997a-1055f1fe32f4</DefinitionID>
<DefaultName>Off Value</DefaultName>
<CustomName></CustomName>
<IsDisplayed>True</IsDisplayed>
<IsNative>False</IsNative>
<TypeName>Numeric</TypeName>
<IsOutsideConnection>False</IsOutsideConnection>
<IOType>Embrio.NodeEngine.NodeIO.NumericNodeInput</IOType>
<ShowGraph>False</ShowGraph>
<LinkedIOID>00000000-0000-0000-0000-000000000000</LinkedIOID>
<IsUserAdded>False</IsUserAdded>
<ConnectedOutputs></ConnectedOutputs>
<BlendMode>Add</BlendMode>
<DisconnectedValue>0</DisconnectedValue>
<UseNegativeRange>False</UseNegativeRange>
<CanUseNegativeRange>True</CanUseNegativeRange>
</Input>
<Input>
<UniqueID>669769ac-8647-48c3-8e96-3c5455fb6b51</UniqueID>
<DefinitionID>b53a92f7-c2ee-4c85-a58b-3bbc75dafae0</DefinitionID>
<DefaultName>Turn On</DefaultName>
<CustomName></CustomName>
<IsDisplayed>True</IsDisplayed>
<IsNative>False</IsNative>
<TypeName>Trigger</TypeName>
<IsOutsideConnection>False</IsOutsideConnection>
<IOType>Embrio.NodeEngine.NodeIO.TriggerNodeInput</IOType>
<ShowGraph>False</ShowGraph>
<LinkedIOID>00000000-0000-0000-0000-000000000000</LinkedIOID>
<IsUserAdded>False</IsUserAdded>
<ConnectedOutputs></ConnectedOutputs>
</Input>
<Input>
<UniqueID>a5aa961c-71ff-444e-9ef6-5b04f86cd078</UniqueID>
<DefinitionID>f892a324-2a05-4132-bbe1-e4038aad4f0f</DefinitionID>
<DefaultName>Turn Off</DefaultName>
<CustomName></CustomName>
<IsDisplayed>True</IsDisplayed>
<IsNative>False</IsNative>
<TypeName>Trigger</TypeName>
<IsOutsideConnection>False</IsOutsideConnection>
<IOType>Embrio.NodeEngine.NodeIO.TriggerNodeInput</IOType>
<ShowGraph>False</ShowGraph>
<LinkedIOID>00000000-0000-0000-0000-000000000000</LinkedIOID>
<IsUserAdded>False</IsUserAdded>
<ConnectedOutputs></ConnectedOutputs>
</Input>
<Input>
<UniqueID>bb11ae42-9de1-4af3-a39b-69107a52153f</UniqueID>
<DefinitionID>e6265564-36b2-4ca6-8da9-4516345f3a7e</DefinitionID>
<DefaultName>Toggle</DefaultName>
<CustomName></CustomName>
<IsDisplayed>True</IsDisplayed>
<IsNative>False</IsNative>
<TypeName>Trigger</TypeName>
<IsOutsideConnection>False</IsOutsideConnection>
<IOType>Embrio.NodeEngine.NodeIO.TriggerNodeInput</IOType>
<ShowGraph>False</ShowGraph>
<LinkedIOID>00000000-0000-0000-0000-000000000000</LinkedIOID>
<IsUserAdded>False</IsUserAdded>
<ConnectedOutputs>
<Output>310aa4d4-29b8-44c0-8bce-c04de2f948f3</Output>
</ConnectedOutputs>
</Input>
</Inputs>
<Outputs>
<Output>
<UniqueID>b418ad25-caac-40c2-9d79-8ae09e5e75e0</UniqueID>
<DefinitionID>5298cec5-3257-4ea1-9ed0-0f06b7be1293</DefinitionID>
<DefaultName>Activation</DefaultName>
<CustomName></CustomName>
<IsDisplayed>True</IsDisplayed>
<IsNative>False</IsNative>
<TypeName>Numeric</TypeName>
<IsOutsideConnection>False</IsOutsideConnection>
<IOType>Embrio.NodeEngine.NodeIO.NumericNodeOutput</IOType>
<ShowGraph>False</ShowGraph>
<LinkedIOID>00000000-0000-0000-0000-000000000000</LinkedIOID>
<IsUserAdded>False</IsUserAdded>
<MinValue>0</MinValue>
<MaxValue>1</MaxValue>
<UseNegativeRange>False</UseNegativeRange>
<CanUseNegativeRange>True</CanUseNegativeRange>
</Output>
<Output>
<UniqueID>cbab81e6-5735-4f52-b4e7-096ae0da19ed</UniqueID>
<DefinitionID>a20f60f2-2608-48db-92cf-90be81dcb5b6</DefinitionID>
<DefaultName>Turned On</DefaultName>
<CustomName></CustomName>
<IsDisplayed>True</IsDisplayed>
<IsNative>False</IsNative>
<TypeName>Trigger</TypeName>
<IsOutsideConnection>False</IsOutsideConnection>
<IOType>Embrio.NodeEngine.NodeIO.TriggerNodeOutput</IOType>
<ShowGraph>False</ShowGraph>
<LinkedIOID>00000000-0000-0000-0000-000000000000</LinkedIOID>
<IsUserAdded>False</IsUserAdded>
</Output>
<Output>
<UniqueID>7ac03f52-9596-4930-9288-7312fabedce3</UniqueID>
<DefinitionID>c67e21ce-6ec8-4048-9973-3cedb4ee8927</DefinitionID>
<DefaultName>Turned Off</DefaultName>
<CustomName></CustomName>
<IsDisplayed>True</IsDisplayed>
<IsNative>False</IsNative>
<TypeName>Trigger</TypeName>
<IsOutsideConnection>False</IsOutsideConnection>
<IOType>Embrio.NodeEngine.NodeIO.TriggerNodeOutput</IOType>
<ShowGraph>False</ShowGraph>
<LinkedIOID>00000000-0000-0000-0000-000000000000</LinkedIOID>
<IsUserAdded>False</IsUserAdded>
</Output>
<Output>
<UniqueID>91ad5b6a-190b-41a3-8029-ffcddb0da5b0</UniqueID>
<DefinitionID>52f1e9c7-efa8-48db-8a10-7dd671aa74ae</DefinitionID>
<DefaultName>Toggled</DefaultName>
<CustomName></CustomName>
<IsDisplayed>True</IsDisplayed>
<IsNative>False</IsNative>
<TypeName>Trigger</TypeName>
<IsOutsideConnection>False</IsOutsideConnection>
<IOType>Embrio.NodeEngine.NodeIO.TriggerNodeOutput</IOType>
<ShowGraph>False</ShowGraph>
<LinkedIOID>00000000-0000-0000-0000-000000000000</LinkedIOID>
<IsUserAdded>False</IsUserAdded>
</Output>
</Outputs>
</Node>
</Nodes>
</EmbrioCopy>
On the other hand, replacing the direct assignment to Output_Trigger with FireTrigger(Output_Trigger) causes both connected and uploaded modes to behave the same.