Stokes/Elasticity using biharmonic/Laplace#162

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isuruf wants to merge 135 commits intoinducer:mainfrom isuruf:stokes_biharmonic2

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Commits on Jan 9, 2025

Stokes/Elasticity using biharmonic/Laplace

isuruf
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alexfikl
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Point sumpy back to main

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Add unit tests for pytential.symbolic.pde.system_utils

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Throw RuntimeError

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Double back-ticks around IntG

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typing

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Add an example to convert_target_transformation_to_source

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use simpler expression

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Add abstractmethod

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abstractmethod

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simplify loops

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remove unnecessary code

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list -> tuple

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Pass base_kernel in WrapperNaiveOrBiharmonic

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No abstractmethod for apply_stress for now

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correct some typos to fix tests

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Fix refactor

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Turn StokesletWrapper into a function

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more testing

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Fix tests for sympy

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rewrite_using_base_kernel for pressure as well

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test PDE

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disable biharmonic 3D

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update warning message

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raise NotImplmentedError when base_kernel is not given

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laplace works just fine for 2D too

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check divergence too

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test laplace 2d too

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remove pylint skips now that __new__ is not used anymore

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test elasticity too

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Update docs and remove unnecessary for loop

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no need of laplace kernel when nu == 0.5

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update copyright

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store the stresslet in StokesletWrapperYoshida

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nu default

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Use sym.SympyToPymbolicMapper

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consistent spacing

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fix typo

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_get_kernel_expression -> _get_sympy_kernel_expression

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improved docstring

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Fix tuple types

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improve docstring

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pep8 naming

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explain 2D StokesletWrapperYoshida

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Fix typo

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check that the kernel is a derivative when const != 0

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Add DOI link

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Fix formatting

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Make Stokes be a child class of Elasticity

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restore apply_pressure and apply_stress

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Fix inheritance

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Fix docs

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More doc fixes

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doc internals

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Fix formatting

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lu_solve_with_expand -> lu_with_post_division_callback

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Fix default source/target

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Use a different source/target

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Fix setting geometry

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document the assumption that potentials are smooth

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explain the weights

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get_int_g -> _get_int_g

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simplify using sym.nodes

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use a better error message

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rename convert_int_g_to_base -> rewrite_int_g_using_base_kernel

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warning unknown target kernel

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add type hints for chop and lu_with_post_division_callback

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use sym.nodes

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Use StokesletKernel when nu_sym == 0.5

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Use DEFAULT_SOURCE

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Fix test

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Use _acf

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Stokeslet -> Elasticity

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No need to raise for abstractmethod

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say which unsupported dim

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create_elasticity -> make_elasticity

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Fix DOI links and add yoshida method to internals

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Improve docs about assumptions

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Fix IntG in docs

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Fix IntG markup

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fix formatting in docstrings

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dataclass

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mu_sym -> mu

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Use dataclasses

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Use enum for method

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make linter happy

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Use laplacian instead of laplace

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defaults to a variable named

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refactor solve with lu

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type annotate base_kernel

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warn if translation variant kernel is found and bail

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refactor terms

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fix incomplete refactor

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improve commnet

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integral -> convolution

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fix bad refactor

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pass through postprocess_division

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use a data class for deriv relation

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use a dataclass for LUFactorization

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Fix type annotation

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fix tests

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avoid creating IntGs with 0 densities

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fix too long line

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Try both solutions instead of relying on the symbolic backend

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reduce diff

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Add a comment about not having spatial constant mapping methods

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fix bad merge

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Update warning message

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explain -1, -1, -1 and 0, 0, 0

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operator -> wrapper

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-1 with size dim

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List -> Sequence

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unit test for solve_from_lu

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import Sequence

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Fix applying extra_deriv_dirs

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add a test for errors

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formatting: 2 blank lines

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simplify matrix

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Check using calculus patch as well

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describe the math

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mention column of ones in A

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fix typo

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Fix misleading naming in test_stokes

inducer
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Placate flake8-comprehensions

inducer
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Placate flake8-comprehensions again

isuruf
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fix typo

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fix mypy errors
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improve docs for stokes and elasticity
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tests: update test_elasticity_pde method names
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qbx: allow scalar densities
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fix ruff errors
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fix typos
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fix new ruff issues
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fix new ruff issues
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feat: update to new pymbolic
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