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Spdhg with stochastic sampler #1644

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Spdhg with stochastic sampler #1644

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Commits on Aug 2, 2023

  1. First attempt at sampling class

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  2. Changed how probabilities and samplers interact in SPDHG

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Commits on Aug 8, 2023

  1. Update sampling.py 

    Quick docstring

Signed-off-by: Margaret Duff <43645617+MargaretDuff@users.noreply.github.com>
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Commits on Aug 9, 2023

  1. Changed to factory method style and added in permuatations

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  2. Debugging and fixing random generator in show epochs

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  3. Testing SPDHG

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Commits on Aug 10, 2023

  1. Changed the show epochs

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Commits on Aug 11, 2023

  1. Meeting with Vaggelis, Jakob, Gemma and Edo

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Commits on Aug 14, 2023

  1. Set up for installation

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  2. Added staggered and custom order and started with writing documentation

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  3. Work on documentation

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Commits on Aug 15, 2023

  1. Commenting and examples in the class

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  2. Debugging sampler

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Commits on Aug 17, 2023

  1. Changes after dev meeting

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Commits on Aug 18, 2023

  1. Checking probabilities in init

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Commits on Aug 23, 2023

  1. initial testing

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Commits on Aug 24, 2023

  1. Sped up PDHG and SPDHG testing

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  2. Removed timing statements

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Commits on Sep 13, 2023

  1. Got rid of epochs - still need to fix the shuffle

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Commits on Sep 14, 2023

  1. Fixed random without replacement shuffle=False

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  2. Changes after meeting 12-09-2023. Remove epochs in sampler and deprec… 

    …ate prob in spdhg
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Commits on Sep 19, 2023

  1. Sampler unit tests added

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  2. Some checks for setting step sizes

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Commits on Sep 21, 2023

  1. Started looking at unit tests and debugging SPDHG setters and init

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Commits on Sep 22, 2023

  1. Notes after discussions with gemma

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Commits on Sep 25, 2023

  1. Changes after discussion with gemma

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  2. Updated tests

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  3. Just a commenting change

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Commits on Sep 28, 2023

  1. Initial changes and tests- currently failing tests

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Commits on Oct 2, 2023

  1. Sorted tests and checks on the set_norms function

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  2. Changed a comment

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Commits on Oct 5, 2023

  1. Changes based on Gemma's review

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Commits on Oct 9, 2023

  1. Comments from Edo fixed

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  2. Merge branch 'master' into blockoperator-norms 

    Signed-off-by: Margaret Duff <43645617+MargaretDuff@users.noreply.github.com>
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  3. Added stuff to gitignore

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  4. Fixed tests

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Commits on Oct 11, 2023

  1. Added a note to the documentation about which sampler to use

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  2. Merge branch 'master' of github.com:MargaretDuff/CIL-margaret into st… 

    …ochastic_sampling
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Commits on Oct 12, 2023

  1. Moved the sampler to the algorithms folder

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  2. Updated tests

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  3. Sampler inheritance

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  4. Moved sampler to a new folder algorithms.utilities- think there is st… 

    …ill a bug somewhere
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  5. changed cmake file for new folder

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Commits on Oct 16, 2023

  1. Some changes from Edo

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  2. Maths documentation

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  3. Some more Edo comments on sampler

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Commits on Oct 17, 2023

  1. Tried to sort the tests

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  2. Vaggelis comment on checks

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  3. Change to jinja version in doc_environment.yml

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  4. Merge branch 'TomographicImaging:master' into blockoperator-norms

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Commits on Oct 18, 2023

  1. Revert changes to docs_environment.yml

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  2. Docstring change

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  3. Docstring change

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  4. Revert naming of docs environment file

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  5. Updated changelog

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  6. Updated changelog

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  7. Updated changelog

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Commits on Oct 25, 2023

  1. Changes to docstring

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Commits on Oct 26, 2023

  1. Added size to the BlockOperator

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Commits on Oct 30, 2023

  1. Merged the blockoperator-norms branch

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Commits on Oct 31, 2023

  1. Removed precalculated_norms and pull the prob_weights from the sampler

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  2. Changes to setting tau and new unit test

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Commits on Nov 2, 2023

  1. Changes after discussion with Edo and Gemma

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  2. Merge branch 'blockoperator-norms' of github.com:MargaretDuff/CIL-mar… 

    …garet into blockoperator-norms
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  3. Documentation changes

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  4. Merge branch 'blockoperator-norms' of github.com:MargaretDuff/CIL-mar… 

    …garet into stochastic_sampling
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Commits on Nov 3, 2023

  1. Changes to SPDHG with block_norms

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Commits on Nov 6, 2023

  1. Started setting up factory methods

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  2. Added function sampler

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Commits on Nov 7, 2023

  1. prob_weights to sampler

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  2. TODO:s

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Commits on Nov 8, 2023

  1. Updates to sampler

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  2. Updates to SPDHG after stochastic meeting

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  3. Merge branch 'master' into stochastic_sampling 

    Signed-off-by: Margaret Duff <43645617+MargaretDuff@users.noreply.github.com>
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  4. Merge error fixed

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Commits on Nov 15, 2023

  1. SPDHG documentation changes

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Commits on Nov 22, 2023

  1. Merge branch 'master' into SPDHG_unit_tests

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  2. Merged in SPDHG speed up

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  3. Changes from meeting with Edo and Gemma

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  4. Remove changes to BlockOperator.py

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  5. sigma and tau properties

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Commits on Nov 23, 2023

  1. Another attempt at speeding up unit tests

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  2. Added random seeds to tests

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Commits on Nov 24, 2023

  1. Started on Gemma's suggestions

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Commits on Nov 27, 2023

  1. Some more of Gemma's changes

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  2. Last of Gemma's changes

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  3. Merge branch 'master' into stochastic_sampling

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Commits on Nov 28, 2023

  1. Edo's comments

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Commits on Nov 30, 2023

  1. New __str__ functions in sampler

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  2. Documentation changes

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  3. Documentation changes x2

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Commits on Dec 5, 2023

  1. Moved custom order to an example of a function

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  2. Back to num_indices and more explanation for custom function examples

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Commits on Dec 7, 2023

  1. Updates from chat with Gemma

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  2. Updates from chat with Gemma

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Commits on Dec 8, 2023

  1. Pulled prime factorisation code out of the Herman Meyer function

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  2. created herman_meyer sampling as a fucntion of iteration number

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Commits on Dec 11, 2023

  1. Merge pull request #1 from gfardell/stochastic_sampling_hm 

    created herman_meyer sampling as a function of iteration number
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  2. Merge branch 'master' into stochastic_sampling 

    Signed-off-by: Margaret Duff <43645617+MargaretDuff@users.noreply.github.com>
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  3. Update Wrappers/Python/cil/optimisation/algorithms/SPDHG.py 

    Co-authored-by: Edoardo Pasca <edo.paskino@gmail.com>
Signed-off-by: Margaret Duff <43645617+MargaretDuff@users.noreply.github.com>
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  4. Changes from Edo review

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  5. Merge branch 'stochastic_sampling' of github.com:MargaretDuff/CIL-mar… 

    …garet into stochastic_sampling
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  6. Removed from_order to replace with functions

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Commits on Dec 12, 2023

  1. fix failing tests

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    MargaretDuff committed Dec 12, 2023
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  2. Test fix...again

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    MargaretDuff committed Dec 12, 2023
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  3. Merge branch 'master' into stochastic_sampling

    @MargaretDuff
    MargaretDuff authored Dec 12, 2023
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Commits on Dec 19, 2023

  1. Move back to one class

    @MargaretDuff
    MargaretDuff committed Dec 19, 2023
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  2. Remove axpyb

    @MargaretDuff
    MargaretDuff committed Dec 19, 2023
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  3. Merge branch 'master' into stochastic_sampling

    @MargaretDuff
    MargaretDuff authored Dec 19, 2023
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Commits on Dec 21, 2023

  1. Split into two classes

    @MargaretDuff
    MargaretDuff committed Dec 21, 2023
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  2. Tidy up the docstrings

    @MargaretDuff
    MargaretDuff committed Dec 21, 2023
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  3. Some formating things

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    MargaretDuff committed Dec 21, 2023
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  4. Example subclass

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    MargaretDuff committed Dec 21, 2023
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Commits on Jan 9, 2024

  1. Merge branch 'master' into stochastic_sampling 

    Signed-off-by: Margaret Duff <43645617+MargaretDuff@users.noreply.github.com>
    @MargaretDuff
    MargaretDuff authored Jan 9, 2024
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  2. Changes from meeting with Edo and Gemma

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    MargaretDuff committed Jan 9, 2024
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Commits on Jan 10, 2024

  1. Prob weights in init and documentation

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    MargaretDuff committed Jan 10, 2024
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Commits on Jan 15, 2024

  1. Merge branch 'master' into spdhg_sampler

    @MargaretDuff
    MargaretDuff authored Jan 15, 2024
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Commits on Jan 25, 2024

  1. Merge branch 'master' into spdhg_sampler 

    Signed-off-by: Margaret Duff <43645617+MargaretDuff@users.noreply.github.com>
    @MargaretDuff
    MargaretDuff authored Jan 25, 2024
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  2. Tidy up PR

    @MargaretDuff
    MargaretDuff committed Jan 25, 2024
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  3. Moved some variables to hidden and updated doc-strings

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    MargaretDuff committed Jan 25, 2024
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Commits on Jan 30, 2024

  1. Update docs

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    MargaretDuff committed Jan 30, 2024
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Commits on Jun 10, 2024

  1. Merge branch 'master' into spdhg_sampler 

    Signed-off-by: Margaret Duff <43645617+MargaretDuff@users.noreply.github.com>
    @MargaretDuff
    MargaretDuff authored Jun 10, 2024
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Commits on Jul 9, 2024

  1. Fixes TomographicImaging#1860

    @MargaretDuff
    MargaretDuff committed Jul 9, 2024
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Commits on Jul 11, 2024

  1. Updated documentation and examples

    @MargaretDuff
    MargaretDuff committed Jul 11, 2024
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Commits on Aug 22, 2024

  1. Merge branch 'master' into spdhg_sampler 

    Signed-off-by: Margaret Duff <43645617+MargaretDuff@users.noreply.github.com>
    @MargaretDuff
    MargaretDuff authored Aug 22, 2024
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  2. Documentation updates and unit test fix

    @MargaretDuff
    MargaretDuff committed Aug 22, 2024
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  3. Merge branch 'master' into spdhg_sampler 

    Signed-off-by: Margaret Duff <43645617+MargaretDuff@users.noreply.github.com>
    @MargaretDuff
    MargaretDuff authored Aug 22, 2024
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Commits on Aug 23, 2024

  1. Merge branch 'master' into spdhg_sampler

    @MargaretDuff
    MargaretDuff authored Aug 23, 2024
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  2. Merge branch 'master' into spdhg_sampler 

    Signed-off-by: Margaret Duff <43645617+MargaretDuff@users.noreply.github.com>
    @MargaretDuff
    MargaretDuff authored Aug 23, 2024
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Commits on Sep 2, 2024

  1. Changes to sapyb call to save memory

    @MargaretDuff
    MargaretDuff committed Sep 2, 2024
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  2. Merge branch 'master' into spdhg_sampler

    @MargaretDuff
    MargaretDuff authored Sep 2, 2024
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Commits on Sep 23, 2024

  1. Merge branch 'master' into spdhg_sampler

    @MargaretDuff
    MargaretDuff authored Sep 23, 2024
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Commits on Oct 2, 2024

  1. Edo's comments

    @MargaretDuff
    MargaretDuff committed Oct 2, 2024
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  2. Merge branch 'master' into spdhg_sampler

    @MargaretDuff
    MargaretDuff authored Oct 2, 2024
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Commits on Oct 7, 2024

  1. Updates following discussion with Edo

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    MargaretDuff committed Oct 7, 2024
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Commits on Oct 8, 2024

  1. Merge branch 'master' into spdhg_sampler

    @MargaretDuff
    MargaretDuff authored Oct 8, 2024
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Commits on Oct 15, 2024

  1. Changed sampler init

    @MargaretDuff
    MargaretDuff committed Oct 15, 2024
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  2. Fix to failing test

    @MargaretDuff
    MargaretDuff committed Oct 15, 2024
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Commits on Oct 16, 2024

  1. Updates from Gemma's comments

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    MargaretDuff committed Oct 16, 2024
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