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Brushing over notebook #1470

Merged
merged 29 commits into from
Oct 8, 2024
Merged

Brushing over notebook #1470

merged 29 commits into from
Oct 8, 2024

Commits on Sep 18, 2024

  1. shortening many optimizations. Replacing Boehm with conversion reacti… 

    …on where possible. Thermodynamic more robust.
    @PaulJonasJost
    PaulJonasJost committed Sep 18, 2024
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  2. Correctly install pyswarms in notebooks1

    @PaulJonasJost
    PaulJonasJost committed Sep 18, 2024
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  3. renamed "model_conversion_reaction" to "conversion_reaction" accordin… 

    …g to naming scheme in benchmark models as well
    @PaulJonasJost
    PaulJonasJost committed Sep 18, 2024
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Commits on Sep 19, 2024

  1. Revert "renamed "model_conversion_reaction" to "conversion_reaction" … 

    …according to naming scheme in benchmark models as well"

This reverts commit a1a54f7.
    @PaulJonasJost
    PaulJonasJost committed Sep 19, 2024
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  2. reverted changes and kept original structure. adjusted amici.ipynb

    @PaulJonasJost
    PaulJonasJost committed Sep 19, 2024
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  3. changed directory

    @PaulJonasJost
    PaulJonasJost committed Sep 19, 2024
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  4. changed directory II

    @PaulJonasJost
    PaulJonasJost committed Sep 19, 2024
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  5. Start out with boehm, for optimization etc change to conversion reaction

    @PaulJonasJost
    PaulJonasJost committed Sep 19, 2024
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  6. fixed custom_objective_function

    @PaulJonasJost
    PaulJonasJost committed Sep 19, 2024
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  7. for now: more starts with pyswarms.

    @PaulJonasJost
    PaulJonasJost committed Sep 19, 2024
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Commits on Sep 20, 2024

  1. changed julia notebooks ever so slightly.

    @PaulJonasJost
    PaulJonasJost committed Sep 20, 2024
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Commits on Sep 24, 2024

  1. Merge branch 'develop' into brush_over_notebooks

    @PaulJonasJost
    PaulJonasJost authored Sep 24, 2024
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  2. Revert changes to julia notebook

    @PaulJonasJost
    PaulJonasJost committed Sep 24, 2024
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Commits on Sep 25, 2024

  1. Merge branch 'develop' into brush_over_notebooks

    @PaulJonasJost
    PaulJonasJost authored Sep 25, 2024
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Commits on Sep 26, 2024

  1. Integrate comments

    @PaulJonasJost
    PaulJonasJost committed Sep 26, 2024
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  2. Merge remote-tracking branch 'origin/brush_over_notebooks' into brush… 

    …_over_notebooks
    @PaulJonasJost
    PaulJonasJost committed Sep 26, 2024
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Commits on Sep 30, 2024

  1. Merge branch 'develop' into brush_over_notebooks

    @PaulJonasJost
    PaulJonasJost authored Sep 30, 2024
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Commits on Oct 1, 2024

  1. Correct PEtab logo now.

    @PaulJonasJost
    PaulJonasJost committed Oct 1, 2024
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  2. Update doc/example/getting_started.ipynb 

    Co-authored-by: Dilan Pathirana <[email protected]>
    @PaulJonasJost @dilpath
    PaulJonasJost and dilpath authored Oct 1, 2024
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  3. Merge branch 'develop' into brush_over_notebooks

    @PaulJonasJost
    PaulJonasJost authored Oct 1, 2024
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  4. Update doc/example/getting_started.ipynb 

    Co-authored-by: Dilan Pathirana <[email protected]>
    @PaulJonasJost @dilpath
    PaulJonasJost and dilpath authored Oct 1, 2024
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Commits on Oct 2, 2024

  1. Adjusted amici logo

    @PaulJonasJost
    PaulJonasJost committed Oct 2, 2024
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  2. Merge branch 'develop' into brush_over_notebooks

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

  1. Removed pyswarms from waterfall visualization

    @PaulJonasJost
    PaulJonasJost committed Oct 7, 2024
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  2. Merge remote-tracking branch 'origin/brush_over_notebooks' into brush… 

    …_over_notebooks
    @PaulJonasJost
    PaulJonasJost committed Oct 7, 2024
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Commits on Oct 8, 2024

  1. Merge branch 'develop' into brush_over_notebooks

    @PaulJonasJost
    PaulJonasJost authored Oct 8, 2024
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  2. Fixed a random seed for sampling notebook

    @PaulJonasJost
    PaulJonasJost committed Oct 8, 2024
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  3. Merge remote-tracking branch 'origin/brush_over_notebooks' into brush… 

    …_over_notebooks
    @PaulJonasJost
    PaulJonasJost committed Oct 8, 2024
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  4. Merge branch 'develop' into brush_over_notebooks

    @PaulJonasJost
    PaulJonasJost authored Oct 8, 2024
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