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Major pytraction update in April 2024#61

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nik-liegroup wants to merge 95 commits intolatent-reason:mainfrom
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Open

Major pytraction update in April 2024#61
nik-liegroup wants to merge 95 commits intolatent-reason:mainfrom
nik-liegroup:main

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@nik-liegroup
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Changes

  • General streamlining of traction force calculations
  • Added option to use dynamic reference frame (bead displacements between time steps)
  • Added option to use 3D image stacks for 2D traction calculations (plane selection or maximum projection)
  • Added Boundary Element Method (optional) for solving inverse solution
  • Updated PIV algorithm (widim function is no longer supported and does not work with newer numpy versions)
  • h5 result files now include PIV, interpolated displacement and traction fields as well as drift corrected image stacks
  • Revised plot function to support averaging over multiple images
  • Added function to calculate strain energy density field and integral over ROI
  • Option to create .gif movies from time series
  • Fixed issues with outdated libraries during installation
  • Fixed issue with incorrect scaling
  • Added more example data
  • Added more comments and detailed function headers

@latent-reason
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Thanks @nik-liegroup, I'll review at the weekend

Additionally: Fixed issue in plot function where current vector field is used for heatmap calculation
Signed-off-by: nik-liegroup <74056186+nik-liegroup@users.noreply.github.com>
Signed-off-by: nik-liegroup <74056186+nik-liegroup@users.noreply.github.com>
Signed-off-by: nik-liegroup <74056186+nik-liegroup@users.noreply.github.com>
Signed-off-by: nik-liegroup <74056186+nik-liegroup@users.noreply.github.com>
Signed-off-by: nik-liegroup <74056186+nik-liegroup@users.noreply.github.com>
Still very slow
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2 participants