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Add sybil examples to more files #1586

Merged
merged 27 commits into from
Jul 20, 2023
Merged

Add sybil examples to more files #1586

merged 27 commits into from
Jul 20, 2023

Commits on Jun 28, 2023

  1. Make sybil optional. 

    Allow pytest to succeed in environments where sybil is not available.
    @joaander
    joaander committed Jun 28, 2023
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Commits on Jul 11, 2023

  1. Add code examples to Box.

    @joaander
    joaander committed Jul 11, 2023
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Commits on Jul 12, 2023

  1. Show only modules in documentation module lists.

    @joaander
    joaander committed Jul 12, 2023
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  2. Add examples to Operations.

    @joaander
    joaander committed Jul 12, 2023
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  3. Add examples to Simulation.

    @joaander
    joaander committed Jul 12, 2023
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  4. Add examples to Snapshot.

    @joaander
    joaander committed Jul 12, 2023
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  5. Fix typos.

    @joaander
    joaander committed Jul 12, 2023
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  6. Document examples in State.

    @joaander
    joaander committed Jul 12, 2023
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  7. Add examples to Communicator.

    @joaander
    joaander committed Jul 12, 2023
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  8. Revise Logger documentation.

    @joaander
    joaander committed Jul 12, 2023
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Commits on Jul 13, 2023

  1. Add examples to mesh and trigger.

    @joaander
    joaander committed Jul 13, 2023
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  2. Add examples to Trigger and subclasses.

    @joaander
    joaander committed Jul 13, 2023
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  3. Add examples to variants.

    @joaander
    joaander committed Jul 13, 2023
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Commits on Jul 14, 2023

  1. Add code examples to wall.py.

    @joaander
    joaander committed Jul 14, 2023
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  2. Ask sybil to parse all .py files. 

    * Exclude those that we have not yet updated to work with sybil.
* Change R""" to r""" to avoid sybil parsing errors.
    @joaander
    joaander committed Jul 14, 2023
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  3. Run pre-commit.

    @joaander
    joaander committed Jul 14, 2023
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Commits on Jul 18, 2023

  1. Fix test failure with BUILD_MD=off.

    @joaander
    joaander committed Jul 18, 2023
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  2. Fix doc build.

    @joaander
    joaander committed Jul 18, 2023
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  3. Use GPU device to test gpu_local_snapshot.

    @joaander
    joaander committed Jul 18, 2023
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  4. Fix grammar error.

    @joaander
    joaander committed Jul 18, 2023
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  5. Fix syntax error.

    @joaander
    joaander committed Jul 18, 2023
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  6. Workaround failing gpu_local_snapshot_test. 

    The example simulation had 0 particles on rank 0, leading to
(0,) shape arrays instead of the expected (0,3) shape array.
    @joaander
    joaander committed Jul 18, 2023
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  7. Fix typo. 

    Co-authored-by: Brandon Butler <[email protected]>
    @joaander @b-butler
    joaander and b-butler authored Jul 18, 2023
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Commits on Jul 20, 2023

  1. Use gsd_filenme in place of platform independent path operations.

    @joaander
    joaander committed Jul 20, 2023
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  2. Fix typo.

    @joaander
    joaander committed Jul 20, 2023
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  3. Use math formatted matrix.

    @joaander
    joaander committed Jul 20, 2023
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  4. Clarify filename argument types accepted.

    @joaander
    joaander committed Jul 20, 2023
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