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Bilayer upgrade#9

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Pascal2000 wants to merge 71 commits intobilayerKIT-IBT/AugmentA:bilayerfrom bilayer_upgradeKIT-IBT/AugmentA:bilayer_upgradeCopy head branch name to clipboard

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Commits

Commits on Nov 25, 2024

• Updated formatting

  

  Pascal Maierhofer

  committed
  25ccc0d

• Used flynt to reformat .format into f-string for better readability and performance

  

  Pascal Maierhofer

  committed
  68bdc8c

• Fixed collection.size import

  

  Pascal Maierhofer

  committed
  a779d42

• Default to manual orifices labeling if with curvature not working

  

  Pascal Maierhofer

  committed
  ecc5cd2

• Replaced use_mesh with use_picker for appendage picking

  

  Pascal Maierhofer

  committed
  87a5572

• Cleaned parts of open_orifices_manually.py

  

  Pascal Maierhofer

  committed
  04e9a01

• Changed reference of smart_readers only to the encapsulated method

  

  Pascal Maierhofer

  committed
  1953543

• Fixed missing extension bug in open_orifices_manually.py

  

  Pascal Maierhofer

  committed
  1f33883

• Updated pymeshlab filters to new api

  

  Pascal Maierhofer

  committed
  6a72e7a

• Replaced all threshold definitions with newer vtk thresholds

  

  Pascal Maierhofer

  committed
  433a875

• Replaced all calls of Methods.vtk_thr with mock version to newer thresholding function

  

  Pascal Maierhofer

  committed
  c9d49f8

• Replaced all calls of threshold between with newer version of vtk in helper methods package

  

  Pascal Maierhofer

  committed
  5341014

• First replacement of all vtk writers by regex search

  

  Pascal Maierhofer

  committed
  d5037af

Commits on Nov 26, 2024

• Replaced all vtk writers with encapsulated methods

  

  Pascal Maierhofer

  committed
  26733fd

• Extracted all writing to openCARP files to helper_methods

  

  Pascal Maierhofer

  committed
  e6c4d8d

• Fixed bug where files were wrongly named. Introduced two commits before

  

  Pascal Maierhofer

  committed
  182c2d1

• Fixed bug where ids for labeling atrial orifices did not match ids of vtk files. Present in all AugmentA branches

  

  Pascal Maierhofer

  committed
  55453ae

• Removed multiline commented code

  

  Pascal Maierhofer

  committed
  ffdd13d

• Encapsulated vtk numpy support to avoid import errors

  

  Pascal Maierhofer

  committed
  ccc2130

• Used get maximum distance of points in AugmentA

  

  Pascal Maierhofer

  committed
  7b0c060

• Used mesh cutting from helper methods

  

  Pascal Maierhofer

  committed
  6be9111

• Fixed cutting size in open orifices manually

  

  Pascal Maierhofer

  committed
  cb799b9

• Fully included helper_methods into AugmentA

  

  Pascal Maierhofer

  committed
  fe5c0d3

• Fully included vtkPlane encapsulation into AugmentA

  

  Pascal Maierhofer

  committed
  861195e

• Included point to cell data into AugmentA

  

  Pascal Maierhofer

  committed
  1f10fc8

• Included geometry filter encapsulation

  

  Pascal Maierhofer

  committed
  990983a

• Further included geometry filter encapsulation

  

  Pascal Maierhofer

  committed
  c1b4b1e

• Optimized imports

  

  Pascal Maierhofer

  committed
  33e2551

• Further replaced vtkGeometryFilter with encapsulated version

  

  Pascal Maierhofer

  committed
  a63e21a

• Added new method to encapsulate cleanPolydata and replaced with vtk implementation

  

  Pascal Maierhofer

  committed
  279c1e4

• Included vtk_append from the helper methods and fixed bug from refactoring where mesh data got lost while auto replace

  

  Pascal Maierhofer

  committed
  b1ed9d9

• Included vtk_append from the helper methods and fixed bug from refactoring where mesh data got lost while auto replace

  

  Pascal Maierhofer

  committed
  ff2138f

• Merge remote-tracking branch 'remote_gitlab_internal/bilayer_upgrade' into bilayer_upgrade

  

  Pascal Maierhofer

  committed
  d588764

Commits on Nov 27, 2024

• Replaced link to vtkIDFilter for whole AugmentA

  

  Pascal Maierhofer

  committed
  10952dc

• Used newly added apply_extract_cell_filter method for AugmentA

  

  Pascal Maierhofer

  committed
  3ccd722

• Fixed bug in create_bridges_test.py

  

  Pascal Maierhofer

  committed
  af87020

• Used get_feature_edges from helper methods in AugmentA

  

  Pascal Maierhofer

  committed
  801a085

• Implemented get_elements_above plane in AugmentA code

  

  Pascal Maierhofer

  committed
  698ce70

• Implemented find_closest_point into AugmentA code

  

  Pascal Maierhofer

  committed
  b985930

• Implemented write_to_dat into AugmentA code

  

  Pascal Maierhofer

  committed
  80b135b

• Included write to vtx to AugmentA

  

  Pascal Maierhofer

  committed
  ef64a6a

• Included point selection into AugmentA files

  

  Pascal Maierhofer

  committed
  95063f1

• Fixed refactoring bug in create_bridges.py

  

  Pascal Maierhofer

  committed
  a40aac4

• Extracted method for generating splines and for clearing out all data of a mesh

  

  Pascal Maierhofer

  committed
  cff181d

Commits on Nov 28, 2024

• Applied encapsulation for connectivity filter and some redundant method removal

  

  Pascal Maierhofer

  committed
  7e904ea

• Further removed duplicated methods

  

  Pascal Maierhofer

  committed
  0f0fa0a

• Removed unused variables in la_generate_fiber.py

  

  Pascal Maierhofer

  committed
  6810e34

• Extracted method for calculation of en for fiber generation

  

  Pascal Maierhofer

  committed
  105240c

• Extracted method for calculation of normalized_vectors

  

  Pascal Maierhofer

  committed
  d3ed0c0

• Fixed bug where epi tags where epi tags went missing

  

  Pascal Maierhofer

  committed
  2c51485

Commits on Nov 29, 2024

• Added checks for file extensions for all writer

  

  Pascal Maierhofer

  committed
  9dbaeb3

• Extracted method for fiber generation for left and right atrium

  

  Pascal Maierhofer

  committed
  5b72cc0

Commits on Dec 1, 2024

• Extracted more functionality form extract rings to improve readability

  

  Pascal Maierhofer

  committed
  ad23db5

• Further extraction of methods from extract_rings.py and extract_rings_TOP_epi_endo.py

  

  Pascal Maierhofer

  committed
  58dbefd

• Used methods from extract_rings for extract_rings_TOP_epi_endo.py

  

  Pascal Maierhofer

  committed
  4ae913f

• Further method extraction in extract_rings_TOP_epi_endo.py

  

  Pascal Maierhofer

  committed
  ba30987

Commits on Dec 3, 2024

• Fixed stupid bug introduced at refactoring

  

  Pascal Maierhofer

  committed
  f7cb0af

• Updated pymeshlab methods to newer version

  

  Pascal Maierhofer

  committed
  8364be1

• Fixed minor bugs

  

  Pascal Maierhofer

  committed
  c978780

• Added additional remeshing step so the laplace generation is more robust

  

  Pascal Maierhofer

  committed
  5ae5888

• Cross product was inverted in split_tv for extract rings

  

  Pascal Maierhofer

  committed
  cf86fc4

• Switched to union operation for connecting earth and bridges

  

  Pascal Maierhofer

  committed
  ce05bbb

• Changed bridge merging to difference

  

  Pascal Maierhofer

  committed
  4ab441a

• Added automatic detection of normal orientation

  

  Pascal Maierhofer

  committed
  fe8c7fb

• Fixed bug where store to xml got lost while refactoring

  

  Pascal Maierhofer

  committed
  942257a

• Extracted core resampling algorithm into separate method

  

  Pascal Maierhofer

  committed
  fad158f

Commits on Dec 5, 2024

• Modified optimization of PV so it does not crash for volumetric meshes with short PVs

  

  Pascal Maierhofer

  committed
  c649895

• Added additional steps to make volumetric meshes work. Mainly mapping ids created on the endo part to the volumetric mesh and some minor bug fixes with filenames

  

  Pascal Maierhofer

  committed
  96cd6a0

• Fixed refactoring bug regarding the order of the cross product in la_generate_fiber.py

  

  Pascal Maierhofer

  committed
  6d37877

• Added publicly available submodule for functionality

  

  Pascal Maierhofer

  committed
  6b353af

Commits on Dec 6, 2024

• Changed path for submodule

  

  Pascal Maierhofer

  committed
  1a5d5b9