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webSMLM v0.6.1 — large multi-IFD stacks

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@jhohlbein jhohlbein released this 22 Jul 10:54
· 851 commits to main since this release
v0.6.1
0d5e75b

Patch on top of v0.6.0. (v0.6.0's Zenodo archive failed on Zenodo's side, so v0.6.1 is the archived release for the 0.6.x line — it includes everything in 0.6.0.)

Try it: https://hohlbeinlab.github.io/webSMLM/

New

  • Large multi-IFD stacks now load — files too big to hold in one ArrayBuffer that are not single-IFD contiguous (e.g. multi-GB Micro-Manager MMStacks, which put a per-frame IFD between frames at a varying stride) are handled by walking the IFD chain to index each frame's offset, then reading frames on demand with File.slice(). Validated on a 4.1 GB / ~31,585-frame MMStack. Uncompressed strips only.

Included from v0.6.0

  • Reorganised sidebar (clustered buttons, number inputs, grouped collapsibles, Save/Load settings), zoom/pan on both panels, sub-pixel localization crosshairs, reconstruction pixel-size readout.
  • Fixes: large-multi-IFD-stack freeze, blank-input render crash, O(n²) live-preview slowdown on big 3D stacks; throttled reconstruction preview.

Known limitations

3D is astigmatism-only (Phasor 3D); Gaussian fit is 2D least-squares; dense overlapping PSFs bias single-emitter fits; intensities are ADU unless a camera gain is set; streamed stacks re-read from disk on each run (uncompressed only).

Licensed CC BY 4.0.

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