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BIG PR: Simplification and homegenisation of environments, addition of tests, other clean up changes #101

Merged
merged 118 commits into from
Mar 31, 2023
Merged

BIG PR: Simplification and homegenisation of environments, addition of tests, other clean up changes #101

merged 118 commits into from
Mar 31, 2023

Commits on Feb 24, 2023

  1. changes to make uniform proxy work; weirdly there is still a seemingl… 

    …y unrelated assertion error
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Commits on Feb 28, 2023

  1. Merge branch 'continuous' into uniform-proxy-fix

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  2. wip: init grid tests

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  3. Merge branch 'gdown' into tests-and-simplify-envs

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  4. delete old code

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  5. add missing import

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  6. new way of setting up proxy

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  7. Merge branch 'continuous' into tests-and-simplify-envs

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  8. remove old torus rounds script

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  9. remove unnecessary repeated stuff in alaninedipeptide env

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  10. remove unnecessary repeated stuff in aptamers env

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  11. move to env base the common operations and simplify grid for now

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Commits on Mar 1, 2023

  1. logger base config includes all args to work by itself

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  2. revert copy to deepcopy

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  3. buffer in a separate file in utils

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  4. match default config with default args in env base£

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  5. basic gflownet test

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  6. isort

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  7. wip: test to check default configs of envs

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  8. use pytest repeat

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  9. remove true_density

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  10. remove np2df

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  11. black

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  12. remove make_train and make_test methods

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  13. get_action_space <- get_actions_space

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  14. in env base.py add docstring, change order of methods, add typing, etc.

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  15. remove no_eos_mask from aptamers

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Commits on Mar 2, 2023

  1. add types

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  2. format

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  3. types and done optional in set state

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  4. add assertions in test test__get_parents_step_get_mask__are_compatible

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Commits on Mar 3, 2023

  1. add get_max_traj_len to grid

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  2. add backward sampling test

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  3. add repetitions to test backward sampling

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  4. types and fix state2oracle

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  5. grid add tests state 2 oracle

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  6. grid remove reset

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  7. add test state conversions are reversible

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  8. remove todo comment; specify dim in typing

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  9. tests of sample_actions and logprobs

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  10. black

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  11. get_max_traj_length <- get_max_traj_len and make self.max_traj_length… 

    … an attribute of the envs
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  12. tests get_parents at source and end states

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  13. correct name

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  14. test step returns invalid if done

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  15. create common function that runs all common tests

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  16. add additional checks to grid step

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  17. Merge branch 'valids-batch' into tests-and-simplify-envs

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  18. add todo

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  19. format docstring

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  20. add comments and change order of lines in init

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  21. docs

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  22. spacegroup: update init, typing, docs

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  23. add common tests to spacegroup

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  24. fix bug with n_actions in step func

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  25. move setting of conditioned properties into new function

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  26. add statetorch statebatch 2 oracle

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  27. isort and black envs

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  28. self.d_action_space for the len' WIP of actions2indices

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Commits on Mar 4, 2023

  1. fix actions2indices

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  2. test actions2indices

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  3. docstring

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Commits on Mar 8, 2023

  1. wip: start work to change action space of hypergrid

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Commits on Mar 9, 2023

  1. completed change of action format in grid

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  2. add grid common test with env with extended action space

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Commits on Mar 10, 2023

  1. Update gflownet/envs/grid.py 

    Co-authored-by: Michał Koziarski <michal.koziarski@gmail.com>
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Commits on Mar 11, 2023

  1. fix get_action_space and add explicit test for it

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  2. put assertions first all together

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  3. if max_dim_per_action is -1 then it is n_dim

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  4. Merge branch 'actions-grid' of github.com:alexhernandezgarcia/gflowne… 

    …t into actions-grid
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  5. Update config/env/grid.yaml 

    Co-authored-by: Michał Koziarski <michal.koziarski@gmail.com>
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Commits on Mar 14, 2023

  1. Merge pull request #99 from alexhernandezgarcia/actions-grid 

    Update format of grid actions
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Commits on Mar 22, 2023

  1. mypy (partial) in torus

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  2. Merge branch 'tests-and-simplify-envs' of github.com:alexhernandezgar… 

    …cia/gflownet into tests-and-simplify-envs
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  3. remove Constant comment

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  4. remove prints

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  5. mypy and docstring

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  6. remove reset

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  7. mypy to get_parents

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  8. update get_parents

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  9. update get_parents, step get_all_terminating_states

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  10. tests with more complex envs

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Commits on Mar 23, 2023

  1. eos is an action

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Commits on Mar 24, 2023

  1. update eos format in test

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  2. add fixed_distribution and random_distribution as arguments of the ba… 

    …se class and pass them to get_policy_output, since this is common to all envs that need them
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  3. black

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  4. d -> dim

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  5. simplify and update htorus

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  6. remove reset and move copy down

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  7. make incr in actions space 0 instead of None; include explicitly fixe… 

    …d_* and random_distribution in arguments and pass them to super init
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  8. get_parents return no parents no actions for source state and unpack … 

    …action
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  9. mypy

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Commits on Mar 25, 2023

  1. change action format and eos - now actions have just length n_dim and… 

    … eos is all inf
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  2. fix issue with dict params and define eos in get_action_space to over… 

    …write htorus
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  3. mask_stop_actions -> mask_invalid_actions

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  4. add preprocess to readable2state but not working always

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  5. separate group of tests for continuous and sample actions using sampl… 

    …e_actions()
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  6. basic tests for ctorus and htorus (need to add more)

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  7. add setup to torus proxy

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  8. add missing call to setup_proxy() in envs base

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  9. black

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  10. remove copy because it is in parent class

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  11. wrap long lines

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  12. make eos action and simplify like other envs

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  13. remove comment line

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  14. black

    @alexhernandezgarcia
    alexhernandezgarcia committed Mar 25, 2023
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  15. isort

    @alexhernandezgarcia
    alexhernandezgarcia committed Mar 25, 2023
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Commits on Mar 26, 2023

  1. self.d_action_space -> self.action_space_dim

    @alexhernandezgarcia
    alexhernandezgarcia committed Mar 26, 2023
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  2. d -> dim in grid

    @alexhernandezgarcia
    alexhernandezgarcia committed Mar 26, 2023
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  3. black, isort

    @alexhernandezgarcia
    alexhernandezgarcia committed Mar 26, 2023
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Commits on Mar 28, 2023

  1. fix old handling of eos action in backward sampling

    @alexhernandezgarcia
    alexhernandezgarcia committed Mar 28, 2023
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Commits on Mar 31, 2023

  1. black; isort --profile black

    @alexhernandezgarcia
    alexhernandezgarcia committed Mar 31, 2023
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  2. Update gflownet/proxy/base.py 

    Co-authored-by: Alexandra <alexandra.volokhova@mila.quebec>
    @alexhernandezgarcia @AlexandraVolokhova
    alexhernandezgarcia and AlexandraVolokhova committed Mar 31, 2023
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  3. Update gflownet/proxy/base.py 

    Co-authored-by: Alexandra <alexandra.volokhova@mila.quebec>
    @alexhernandezgarcia @AlexandraVolokhova
    alexhernandezgarcia and AlexandraVolokhova committed Mar 31, 2023
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  4. fix issues introduced during review

    @alexhernandezgarcia
    alexhernandezgarcia committed Mar 31, 2023
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  5. proxy method setup is not abstract because it is not always necessary

    @alexhernandezgarcia
    alexhernandezgarcia committed Mar 31, 2023
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  6. Update gflownet/envs/base.py 

    Co-authored-by: Michał Koziarski <michal.koziarski@gmail.com>
    @alexhernandezgarcia @michalkoziarski
    alexhernandezgarcia and michalkoziarski committed Mar 31, 2023
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  7. Update gflownet/envs/base.py 

    Co-authored-by: Michał Koziarski <michal.koziarski@gmail.com>
    @alexhernandezgarcia @michalkoziarski
    alexhernandezgarcia and michalkoziarski committed Mar 31, 2023
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