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Update v1 #515

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@skim0119 skim0119 commented Dec 2, 2025 •
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Management changes

  • Dependabot points towards master branch.

Feature update

  • Now, system can still be stepped if it conforms to SystemType without block.
    • It also means in order for a particular system type to use block, it must be registered with block support. By default, only CosseratRod, Cylinder, and Sphere support block.
    • This check is explicit: we don't allow ambiguity in the blocking behavior. If system is stepped without block, a warning sign will appear during the finalize step.

Plugin supports

  • Easier handling of SystemType and associated BlockSystemType.
    • Ability to override the existing block implementation to a custom implementation.

Removed

  • Explicit stepper removed :: moved to experimental branch in private repo.
  • PovRay tutorial removed.

Documentation update

  • Now, basic example cases appear on the documentation page -- Sphinx gallery is added.
  • Binder examples removed.

Minor updates

New Contributors

Full Changelog: v0.3.3.post3...v1.0.0

skim0119 and others added 30 commits September 26, 2025 12:12
@skim0119
update version
49e4c30
@skim0119
tests: add behavior test for simulator.close feature
5d27327
@skim0119
feat: fix ExportCallback example case
563ffb7
@skim0119
feat: add simulator.close() method for collective end-call for callbacks
01d0fc3
@skim0119
Merge pull request #503 from skim0119/feat/on-close
1b7bf1a 
[Feat] Collective call method for closing callbacks
@zzzzzbk
fix: compute_additional_segment directions (#509)
931e9dc 
* Fix direction not updated by time step
* Fix knot theory: avoid looping inside if

resolve #509
@skim0119
specify python version installed for github-action
b520605
@skim0119
Refactor simulation integration in examples and documentations to use…
ced1993 
… timestepper loop explicitly instead of integrate function
@skim0119
mypy: fix using same name for time
f0951f6
@skim0119
move initial callback in base module
5f3b3f9
@skim0119
feat: allow data collections (list, tuple, dict) to be passed for cal…
fbbcc86 
…lback
@skim0119
docs: add description on different way to collect diagnostics
ba8d0cd
@skim0119
Update documentation for collect_diagnostics usage
3b77e51 
Clarify the usage of `.collect_diagnostics` to specify that it can take collections of rods/systems and improve wording for better understanding.
@skim0119
Merge pull request #511 from skim0119/feat/multiple-callback
6621944
@skim0119
docs: fix numpydoc formats
485c36f
@skim0119
fix: forward referencing during documentation build
9288beb
@skim0119
fix: documentation no-end-of-line warning
a8a0937
@skim0119
Merge branch 'update-v1' into mod/examples-timestepper
5af7c56
@skim0119
remove POVray example
3d4e21d
@skim0119
Merge branch 'mod/examples-timestepper' of https://github.com/skim011…
c0f5482 
…9/PyElastica-mirror into mod/examples-timestepper
@skim0119
Merge branch 'docs/warning-fix' into mod/examples-timestepper
754ad53
@skim0119
mypy: remove self return for .using
7677fd0
@skim0119
example: timoshenko in gallery
c38752b
@skim0119
fix indentation
b892ca4
@skim0119
docs: add sphinx gallery setup and configuration
31162a6
@skim0119
remove binder
cbb955a
@skim0119
formatting with documentation build
9361670
@skim0119
update example cases with run-flag for documentation gallery
566afa5
@skim0119
add ffmpeg in rtd
046df44
@skim0119
docs: clean up tutorial for gallery
cac0229
@skim0119
refactor: update system collection protocols and improve type handlin…
3495d02 
…g across multiple modules
@skim0119
refactor: integrate energy computation and knot theory into RodBase, …
7943a72 
…removing CosseratRodProtocol and slimming type handling
@skim0119
refactor: rename rigid body import and restructure rigid body classes…
8590c56 
… by introducing RigidBodyBase, removing unused protocol
@skim0119
refactor: enhance protocol definitions for explicit and symplectic sy…
132d7b4 
…stems, improving type handling and organization
@skim0119
refactor: update rigid body and surface documentation, rename imports…
16c25fd 
…, and enhance type handling for clarity
@skim0119
refactor: implement get_relative_rotation_two_systems function for co…
3f12b70 
…mputing relative rotation between two systems and update imports accordingly
@skim0119
refactor: update imports in explicit steppers and base system modules…
33d4010 
… for improved type handling
@skim0119
refactor: clean up imports and update type annotations in constraints…
fce1369 
…, cylinder, sphere, and cosserat rod modules
@skim0119
update codecov CI version
06deb8f
@skim0119
refactor: add REQUISITE_MODULES type annotation to Plane class
90b8d27
@skim0119
refactor: correct typos and improve documentation across multiple mod…
a5d04b7 
…ules
@skim0119
update documentation and configuration files for next release
c90a8fb
@skim0119
remove explicit steppers, memory management, and protocol definitions
5496059
@skim0119
update default parameter handling for force classes to avoid mutable …
bc1ca8f 
…defaults
@skim0119
refactor: enhance error handling and type annotations in boundary_con…
4126edd 
…ditions and contact_forces modules
@skim0119
docs: rotation and damping modules
46a573c
@skim0119
reorganize memory block handling and enhance system protocol definitions
27d6cb7
@skim0119
refactor: rigid body implementation, name for block system impl.
b510629
@skim0119
refactor: update memory block handling and system protocol integration
397590e
@skim0119
docs: rename StaticSystemBase to StaticSystemProtocol and update rela…
0f48d15 
…ted documentations
@skim0119 skim0119 self-assigned this Dec 18, 2025
@skim0119 skim0119 added the update Update the codebase label Dec 18, 2025
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@Ali-7800 Ali-7800 Awaiting requested review from Ali-7800

@armantekinalp armantekinalp Awaiting requested review from armantekinalp armantekinalp will be requested when the pull request is marked ready for review armantekinalp is a code owner

@bhosale2 bhosale2 Awaiting requested review from bhosale2 bhosale2 will be requested when the pull request is marked ready for review bhosale2 is a code owner

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