source

source/

./native/ contains the .cc files for our genetic programing problems:

• Signal-counting problem (alt-signal-exp.cc)
• Contextual-signal problem (bool-calc-exp.cc)
• Independent-signal problem (chg-env-exp.cc)
• Boolean-logic calculator problem (bool-calc-exp.cc)

Below, we give the external dependencies for compiling our experiments, and we give which source files are associated with each of the problems.

External Library Dependencies

• Empirical
  • We used a (minimally) modified version of the Empirical library that can be found on my fork of Empirical; here's the exact commit: https://github.com/amlalejini/Empirical/tree/e72dae6490dee5caf8e5ec04a634b483d2ad4293
    • commit e72dae6490dee5caf8e5ec04a634b483d2ad4293
  • Main Empirical repository: https://github.com/devosoft/Empirical
    • If you're interested in using Empirical in your own projects, I recommend jumping over to the main Empirical repository!
• SignalGP implementation
  • repository: https://github.com/amlalejini/SignalGP
  • here's a link to the exact commit: https://github.com/amlalejini/SignalGP/tree/83d879cfdb6540862315dc454c1525ccd8054e65
    • commit 83d879cfdb6540862315dc454c1525ccd8054e65

Signal-counting problem

Also called 'alternating signal environment' in source code.

Experiment-specific source files:

• AltSignalConfig.h
• AltSignalOrg.h
• AltSignalWorld.h
• native/alt-signal-exp.cc

Contextual-signal problem

The contextual-signal problem is (perhaps confusingly) carried out using the boolean-logic calculator source code. Except, instead of providing input/output examples that describe calculator problems, we configure categorical output (CATEGORICAL_OUTPUT) and provide examples that look more like this.

• BoolCalcConfig.h
• BoolCalcOrg.h
• BoolCalcTestCase.h
• BoolCalcWorld.h
• native/bool-calc-exp.cc

Independent-signal problem

Also called 'changing environment problem' in source code.

Experiment-specific source files:

• ChgEnvOrg.h
• ChgEnvWorld.h
• ChgEnvConfig.h
• native/chg-env-exp.cc

Boolean-logic calculator problem

• BoolCalcConfig.h
• BoolCalcOrg.h
• BoolCalcTestCase.h
• BoolCalcWorld.h
• native/bool-calc-exp.cc

Cross-task Utilities

• Event.h
  • Defines custom SignalGP event types used across different tasks.
• matchbin_regulators.h
  • Defines the exponential tag-matching regulator used in this work.
• mutation_utils.h
  • Defines mutator utility for SignalGP programs.
• reg_ko_instr_impls.h
  • Defines knockout regulation instruction implementations.
  • The need for knocking out promotion/repression individually (as opposed to just knocking out regulation entirely) came later on during this project. Each regulation instruction has a KO_UP_REG and KO_DOWN_REG variant. While less than ideal, this was the least invasive way work this functionality in at the time.