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Training March 2023

Pierre Paleo requested to merge nabu_march_23 into main

Sessions

  • First session: 16/03/2023
  • Second session: 20/03/2023
  • Third session: 22/03/2023

To do

  • Part 1: Perform a basic reconstruction (from a Bliss or Spec acquisition)

    • Find and copy a Bliss dataset to /scisoft/tomo_training/part1_basic_reco
    • Find and copy a Spec dataset to /scisoft/tomo_training/part1_basic_reco
    • presentation of nabu
    • presentation of tomwer
    • nxtomomill: CLI (Bliss + spec)
    • nxtomomill: tomwer (Bliss + spec)
    • reconstruction: nabu (CLI)
    • reconstruction: tomwer (GUI) (+ DKRF ?)

  • Part 2: find the center of rotation

    • Find and copy dataset to /scisoft/tomo_training/part2_cor
    • Nabu: list different auto-CoR + options
    • Nabu: hands-on with different auto-CoR
    • Tomwer: axis: do a tuto video for 'automatic mode' vs 'interactive'... ?
    • Tomwer: sa-axis

  • Part 3: "Play" with dark/flats

    • Find and copy dataset to /scisoft/tomo_training/part3_flatfield
    • List what is currently supported and future plans
    • Nabu
    • Tomwer
      • reduced dark and flat widget
      • mecanism to copy reduced darks / flats
      • demo: computing reduced flats from projections and using them on a flat blank dataset

  • Part 4: Remove rings artefacts

    • Find and copy dataset to /scisoft/tomo_training/part4_rings
    • Nabu: check that DFF still works
    • Nabu: update slides
    • Tomwer: rings correction in GUI -> no much to say about this

  • Part 5: Converting reconstructed volumes (volume casting)

    • Nabu: nabu-cast
    • Tomwer: volume object + cast volume widget

  • Part 6: Add/edit metadata

    • Nabu: overwrite_metadata
    • Tomwer
      • nxtomo editor widget
      • image-key editor
      • image-key upgrader

  • Helical reconstruction

    • Find and copy dataset to /scisoft/tomo_training/helical
      • Apple
      • Grapefruit
      • Sheep Head: three z-stages
    • Tutorial
      • Algorithm scheme.
      • composite cor.
      • generating configuration file.
      • Weights.
      • Optical distortion corrections.
      • from z-stage to helical scan.

  • review and update if necessary nxtomomill notebooks

  • tomwer: add some hands-on session

Edited by payno

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