Code

Quantify er morphology#35

Code

Draft

GwydionJon wants to merge 34 commits intomainssciwr/organelle-morphology:mainfrom quantify_er_morphologyssciwr/organelle-morphology:quantify_er_morphologyCopy head branch name to clipboard

+3,044-389

Commits

Commits on Apr 9, 2024

• made morphology map calculation parallel

  GwydionJon

  committed
  55fda84

• added logger

  GwydionJon

  committed
  77d82e2

• fixed missing brackets after refactor of morphology map

  GwydionJon

  committed
  0e5cbe5

Commits on Apr 10, 2024

• reorder imports

  GwydionJon

  committed
  dc9499c

• added mcs search

  GwydionJon

  committed
  29ae53b

• fixed drawing when multiple contact sites are on the same organelle

  GwydionJon

  committed
  cf659fd

• refactor code to find mcs

  GwydionJon

  committed
  5d1ddc4

Commits on Apr 11, 2024

• added data summary for mcs

  GwydionJon

  committed
  5d4fcbf

• added mcs example notebook

  GwydionJon

  committed
  75738bc

• added test for mcs

  GwydionJon

  committed
  6997227

• fixed missing mesh_properties in project.py

  GwydionJon

  authored
  4bbcc25

Commits on Apr 12, 2024

• fixed bug in caching of geometric properties when loading additional sources

  GwydionJon

  committed
  41496d0

• Merge branch 'work-on-mcs' of https://github.com/ssciwr/organelle-morphology into work-on-mcs

  GwydionJon

  committed
  c4ea1bc

• removed unwanted files from git

  GwydionJon

  committed
  66e4ffd

• Add .gitignore rule to exclude notebooks directory

  GwydionJon

  committed
  e43ab35

• currently working on improving performance so er meshes will run at all

  GwydionJon

  committed
  c985ba5

Commits on Jun 27, 2024

• removed manual core count for multi threadding

  GwydionJon

  committed
  28782b7

• added filtering by volume cutoff

  GwydionJon

  committed
  d10dad1

• added new mcs and distance matrix calculation method

  GwydionJon

  committed
  f9d6901

• updated example notebook for mcs

  GwydionJon

  committed
  bad308a

• updated test

  GwydionJon

  committed
  245fb56

• removed multiprocess for github ci to finish

  GwydionJon

  committed
  7e61f01

Commits on Jun 28, 2024

• reactivatet parallel pool

  GwydionJon

  committed
  77b86fa

• added multiprocess to environment-dev.yml

  GwydionJon

  committed
  cdde4f0

• updated demo notebooks

  GwydionJon

  committed
  071d723

• fixed bug in mcs surface calculation

  GwydionJon

  committed
  d7639ff

• disable mac ci for now

  GwydionJon

  committed
  8e53b77

• Merge branch 'change_mcs_calculation' into data_analysis

  GwydionJon

  committed
  c53e32f

• forgot to enable commented out package

  GwydionJon

  committed
  9913f78

Commits on Jul 3, 2024

• added blender rendering to project

  GwydionJon

  committed
  caf4ae2

• added blender test

  GwydionJon

  committed
  3d24f13

• updated dependencies

  GwydionJon

  committed
  cc7810c

Commits on Jul 4, 2024

• added er WIP_morphology notebook

  GwydionJon

  committed
  1a9c706

• added more comments to wip notebook

  GwydionJon

  committed
  d9c589b