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Revisjon per 22. nov 2019 kl. 12:26 av Wonhol (Diskusjon | bidrag)
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We are taking the start point from the paper from Risi,

Risi - Evolving flexible controller for locomotion

where locomotive controller for variable length legges were evolved with HyperNEAT approach.

The goal is to implement it on DyRet platform - where it has two actuator for each legges. Also other thing to consider will be taking account of Tegotae - where touch input is used as some kind of feedback to CPG. Risi had touch sensor as input to his substrate in the simulation.

Other aspect of it is to see if HyperNEAT approach is something plausible considering its complexity - some skeptical veiw on HyperNEAT. ie) simple CTRNN network with length of leg as one of the input.

Some of the tasks that could be done over the summer are

  * Read through DyRet doucumentation from robin wiki & github and set up a
    simulator enviorment
  * Theoretical understanding of Tegotae - is it plausible to embed it with
  * Experimenting with HyperNEAT libraries - Kyrre`s recommendation is
    "C++/Python MultiNEAT C++ with Python binding", otherwise Risi seems to

work with C# implementation -> perhaps it is a good idea to have a look.

OpenAI Gym Env for DyRET

HyperNEAT libraries


Plan for Fall semester

      September         October           November          December          
  Su  1  8 15 22 29        6 13 20 27        3 10 17 24     1  8 15 22 29   
  Mo  2  9 16 23 30        7 14 21 28        4 11 18 25     2  9 16 23 30   
  Tu  3 10 17 24        1  8 15 22 29        5 12 19 26     3 10 17 24 31   
  We  4 11 18 25        2  9 16 23 30        6 13 20 27     4 11 18 25      
  Th  5 12 19 26        3 10 17 24 31        7 14 21 28     5 12 19 26      
  Fr  6 13 20 27        4 11 18 25        1  8 15 22 29     6 13 20 27      
  Sa  7 14 21 28        5 12 19 26        2  9 16 23 30     7 14 21 28      
     35 36 37 38 39    39 40 41 42 43    43 44 45 46 47    48 49 50 51 52   


Delivery in May 2020 Mid-term presentation in week 49

Week 36

OpenAI gym setup for DyRET

Get used to DyRET Env

  • input param for step : 12 np vector for joints, 8 for extension

HyperNEAT libraries

Lists of some promising ones

binding multineat and gym env

    • installation
      • install boost, first bootstrap with python version 3.6 then build
      • git clone multineat then
  $ export MN_BUILD=boost
  $ python3 build_ext
  $ python3 install 
      • in case it casts missing library link to python and numpy, make sure to

install boost with python specified and numpy is installed properly for the user

      • if the user installing multineat has no access to write to install destination, try via venv.
      • once installed, test by
  >>> import MultiNEAT
      • in case it casts missing library error, explicitly set $LD_LIBRARY_PATH for

boost install location, by default

  $ export LD_LIBRARY_PATH=/usr/local/lib

Week 37

OpenAI gym setup

  • Running basic examples to get familier with OpenAI Gym concepts - observation space, action space

HyperNEAT library test

  • MultiNEAT example running successfully with installation
    • Was able to run example from
    • Those examples are from old openai gym code, it needs appropriate fix
    • wasn't able to create ES hyperneat object - Genome class doesn't have it!? -

commented out in source code

by this point, familir with hyperNEAT packages and chosen one for the project OpenAI gym env setup for various experiments

Week 38

Weekly goals

  • Find out how to implement CTRNN cell for HyperNEAT
  • Design control scheme for OpenAI gym DyRET using one of the HyperNEAT packages
  • Understand evolution pipeline in HyperNEAT packages together with OpenAI Gym env.
  • Document how to set up dev. environment - installation of openai, hyperneat

packages for the larger experiment jobs later on.


  • MultiNEAT has leaky integrators implemented. Following function for

NeuralNetwork obj. Also parameter for time constants should be set up

void ActivateLeaky(double step); // activates in leaky integrator mode
    • Substrate can also be defined to made of Leaky neurons by
Substrate.m_leaky = True
  • Evolution pipeline in MultiNEAT
    • Define parameters - for CTRNN, define timeconstants
    • Define substrates
    • Initialize Genome with intput, hidden, output
    • Init population
    • evaluate each indivisual from pop with interacting with openAI Gym env.
    • pop.Epoch()
    • To build HyperNEAT genome, specify by function Genome::BuildHyperNEATPheonotype() when making network

  • Each of risi's neuron has 4d coordinate, (xm, ym, x, y) where xm, and ym is substrate containing sub-substrates, this can be simply set up as 4d substrate when setting up in MultiNEAT

What to look closely next

  • How to set up input for CPPN in MultiNEAT - considering leg length??
  • Need to look into docker tutorial

Week 39

Weekly Goals

  • Find out how to customize CPPN in MultiNEAT - Risi has extra input parameter for leg length
  • Document setting up dev. env process
    • Look into Docker generation
  • Try simple HyperNEAT on DyRET env. - doesn't have to take account on leg length


= Simple HyperNEAT on DyRET environment

  • what is input for Risi's network??
    • Current angle of hip joints
  • output
    • axis of rotation for each joint scaled to DOF of each joint. proportional

controller applies torque to bridge the disparity between current and requested angle

  • MultiNEAT throws error when 4d substrate is given.
    • Will need to hack MultiNEAT for 4d substrate support, perhaps it's good idea considering lack of support for custom CPPN * Fitness function need to re-adapt dyret-env's reward
    • highest reward for doing nothing but standing still
  • Fully connected substrate of 4 inputs 8 hidden layer and 12 output doesn't seem to do the job well with current fitness function - extra reward based on

final y axis position * 1e5

  • At start the best genome usually falls towards positive y axis direction
Experiment result
  • Setup
    • population 128
    • 20 generations
    • 2D fully connected substrate with 4 input 8 hidden 12 output
    • input are 4 position of hip joints
    • output are used directly as next position of each joint
    • base reward from dyret walking env with half on healty and double speed on y axis + final distance on y axis
    • details at ~/workspace/code/

Fil:Dyret fc g20 p128.gif

  • some periodic movement on some joint observed
  • kinda like galloping and failing miserably

Week 40/41

Experiment setup Implementing Risi's HyperNEAT on Dyret

Save/load for genomes

Simply applying pickle to genome, substrate and paramters to see how the best genome behaves after training

  • Currently saving only the best fitting genome as pickling with it's fitness value
  • viewer script written to re-enact each genome to see how they behave
  • it need to be parameterized for more general usage

Custom CPPN in MultiNEAT

  • Temporary neural network is initialized in the BuildHyperNEATPhenotype(). If we want to modifiy CPPN here it should be done.
    • modifying this part of code indicates that I need to recompile the MultiNEAT. how is this going to work?
  • Reading through genome.cpp indicates that 4D substrate is supported - line 1183 genome.cpp
    • Why is it not working with 4d substrate? is it perhaps not connected propery?

Sliding behaviour in Dyret

  • After some trial run with the same initial setup in HyperNEAT, a population evolved a sliding behaviour, using only two back legs to slide off ground.
  • Discussion with Joergen revealed that it has to do with the fact that the dyret env package only explicitly sets friction value on its feet -> possibly no friction value set on other parts of body or very little friction.
  • Joergen suggests as solution
    • collision detection - check if other parts of body is touching the floor
      • for example on this check out observation function in abstract env class
    • constraints on body angle, such that huge negative reward is given if pitch and roll is over certain degrees.


Setting simulation timestep up, from default 1/240 to 0.1 reveals that dyret isn't actually sliding, but crawing really low. However this revealed some problems 1. Colliding leg 2. changing timestep of simulator did not affect the behaviour of the robot. This is strange given that I am suppose to be using CTRNN with certain timestep at 0.01.

Re-defined reward for upright

for x and y axis, being upright returns 0 for position.

  • Send x and y into normal PDF with sigma = 0.2. -> output around 0 for 45 degree
  • Normalize the max value to 1
  • Map value to -1 to 1
  • Sum x and y output then multiply by 100

This winds up giving 100 reward if upright and negative for more than 45 degree rotation

Result after modifying the reward function: Fil:dyret_side_walk.gif

    • Note** All the parameter for HyperNEAT has been same so far, including substrates

I should probably give a dedicated reward for forward motion.

Dockerfile Generation


This link shows how ML dev env can be set up in Docker

list of things to be installed

  • OpenAI gym
  • usual scientific python packages - numpy, scipy ...
  • dyret gym env - pull from git repo
  • MultiNEAT - pull and compile from git
  • boost lib for MultiNEAT - this will have bunch of dependancies of its own

Week 42-43

Experiment setup Implementing CPG style locomotive controller on Dyret


  • simple docker instance with openai gym and dyret env written
  • manages to clone git and build pybullet sim
  • fails to connect to x server for GUI

note: MultiNEAT has its own dockerfile in repo

Week 44

Experiment setup Implementing CPG style locomotive controller on Dyret


  • prepare MPI script for HPC runs
  • try implementing PUREPLES library
    • this could be easier to deploy on HPC
  • try adjusting some parameters.
  • Perhaps time to have a meeting with Kyrre and check if things are going fine?


  • Original package written for Python 2
  • need to modify to get it running in Python 3, in particular
    • cPickle -> _pickle
    • range() + range() should be changed to appending lists
  • Running ok with the modification above, but results are not promissing

Week 45

Experiment run

Setting up running env on ABEL

load python3 module

  $ module load python3/3.7.0.gnu

note. default version doesn't work

setup venv - only need once

  $ python3 -m venv %PATH_TO_VENV

Activate venv

  $ source %PATH_TO_VENV/activate

Install gym-dyret. first pull from git repo, then

  $ pip install -e .

Install dependancies for PUREPLES

  $ pip install neat-python graphviz gym

Install PUREPLES after cloning the repo - make sure that pureples is modified for python3

  $ python install

Install MPI4Py

  $ pip install mpi4py

Abel slurm script


  • Test running MPI script utilizing multiple nodes

MPI4PY implementation for HyperNEAT libs

  • Easier to install & run pure python libs(PUREPLES) as it doesn't come with compiler depandancies


  • Write HyperNEAT evolution script with MPI

Week 46

Experiment run

Week 47

Experiment run

Week 48

Experiment analysis

Week 49

Presenting first results

Week 50

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