0. Tomo-tools overview¶

0. Introduction¶

The tomo-tools denote a collection of tomography software developed at ESRF:

  • Nabu - tomography reconstruction
  • Tomwer - graphical user interface, workflow manager
  • NXTomomill - data conversion from/to NXTomo (eg. edf to NX)

Other internal projects:

  • tomoscan - parse ESRF tomography scans (Bliss-EBSTomo, Bliss-fscan, Spec-EDF)
  • nxtomo - python API to simplify creation of NXTomo files
  • sluurp - very simple job submission to SLURM from python

0.1 - Nabu¶

Nabu is a versatile tool for tomography processing.

It consists in a collection of command-line tools:

  • nabu: full-field tomography processing pipeline
  • nabu-helical: helical tomography processing pipeline
  • nabu-cast: volume conversion (eg. convert a 32bits HDF5 reconstruction to a 16bits tiff series)
  • ... and more

and a Python API of invidivual processing steps.

The documentation can be found at https://www.silx.org/pub/nabu/doc/

0.2 - Tomwer¶

Tomwer offers tools to automate acquisition and define processing workflows for Tomography.

Main interface to define processing workflows can be accessed from the tomwer canvas.

Most of the processing step can be accessed as standalone from CLI like:

  • tomwer axis
  • tomwer nxtomo-editor
  • ...
  • tomwer --help

note: use the help to get more information about CLI

All processing can also be accesses through a python API (using ewoks tasks).