Jiyeon/example1 full structure preserving - #185

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JiYeon-Hyun wants to merge 27 commits into

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JiYeon-Hyun:jiyeon/example1_full_structure_preserving

Commits on Jun 23, 2025

Allow use of additional keys to store information about subdomains in mesh, include 2d mesh creation in xy plane (removing z coord in gmsh)
emmetfrancis
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1768a63

Commits on Jun 24, 2025

New feature to allow parameters with assigned values over a region of the mesh, introduce new version of example 5 to illustrate SOCE
emmetfrancis
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10aef25
Remove model specs file for example 5
emmetfrancis
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06da231
Change version number in pyproject
emmetfrancis
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ca65461

Commits on Jun 25, 2025

Update ER_PM_gap value and save Avals in example5 with SOCE
emmetfrancis
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a25eabc

Commits on Jul 11, 2025

Add and test code for advective transport
emmetfrancis
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be9bb82

Commits on Jul 13, 2025

Add new meshing function for multicellular meshes
emmetfrancis
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9ef3822

Commits on Jul 14, 2025

Commits on Jul 21, 2025

Commits on Aug 6, 2025

Introduce new example to test advection feature, add functionality to multicellular meshing function for tutorial
emmetfrancis
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9c95a2f
Add back data files for example5
emmetfrancis
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9dd5a75
Remove mesh test file
emmetfrancis
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b166fb4
Bump version to gamma
emmetfrancis
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f48b001
Remove nan loop in solver
emmetfrancis
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e60d813
change version to 2.3.1.alpha
emmetfrancis
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af81db2
fix to multicell meshing function, add back nan fix with protection against infinite loop
emmetfrancis
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17cb903

Commits on Aug 14, 2025

Change title of example 8
emmetfrancis
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4eb20f8
Change title of example 8
emmetfrancis
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baad40f

Commits on Feb 16, 2026

Update version number
emmetfrancis
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6bbcb1d

Commits on Jun 22, 2026

Commits on Jun 24, 2026

Change example1_CH for consistency with nondimensional parameters, apply weighting to variational form for mu in model.py
emmetfrancis
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42c7420

Commits on Aug 23, 2026

Add full structure-preserving script for example1
JiYeon-Hyun
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bcb9a18