I just got a long list of what should be done for ODIN. It has requirements for all software stacks not only data-reduction so we should cherry-pick relevant requirements for imaging. It also has requirements related to diffraction.

List of High-level Requirements for ODIN.

File IO

[ ] Read/write different formats of images: https://www.silx.org/doc/fabio/latest/getting_started.html
[ ] Pre-defined meta data formats
[ ] Loading sub-parameters separately, i.e. sample environment parameters
[ ] Splitting file into different measurement modes.
[ ] McStas file loading in a format that can be used in a workflow.

WFM

[ ] Verify resolution (fitting Bragg edge width w. calibration sample “Felix”) Selection of delta_lambda/lambda for adjusting position of WFM1 and WFM2
[ ] Selection of Bandwidth (Adjusted WFM positions) Verification (“Felix”, “Beatrix”) of visibility and position of Bragg edges

Optics and spatial informations

[ ] Field of view/resolution in cameras (incl. various scintillator screens), i.e. Siemens star: #17
[ ] Position of detectors (Downstream and perpendicular to the sample position): Odin has a positioning system (300 microns precision) Se Geometry in Calibration section below

Acquisition modalities

[ ] General acquisition modes: Radiography, Step by step, Continuous, Golden Ratio In combination with steering of SE
[ ] Attenuation Tomography
[ ] Diffraction (Transmission): Bragg edge (and transmission Grain mapping)
[ ] Diffraction (Perpendicular): Powder, Texture, Grain mapping
[ ] Gratings Horizontal translation of gratings (and rotation for alignment of gratings)
[ ] Polarized neutrons: Radiography, Tensor based tomography, Spin-Phase option
[ ] Stroboscopic: imaging of fast repetitive processes (Re-sorting and re-naming (stroboscopic – phase – time sorting[MOU1] ..) process not in sync with source We can use the tdct(?) We have to define the time-window.
[ ] Exposure: Criteria on acquisition length??

Calibration

Efficiency: (both transmission and diffraction mode detectors) Sample: Vanessa

[ ] Vanadium + normalization
[ ] Beam monitor as normalization (and proton current): also, HC step.

Geometry

[ ] Use positioning system
[ ] Sample to detector distance (transmission) Bragg edge fitting on Fe sample (Matlab -> python)
[ ] Detector distance + tilt (diffraction) Indexing and constrained fit to Single crystal, polycrystal and powder
Others
[ ] SE (without sample) -> constitutes the open beam
[ ] Gratings: To be specified

Events to Images

[ ] White beam integration (rebin spatial resolution)
[ ] BC: Binning to images (x,y,t)
[ ] WFM stitching (both in event mode and binned data)

Normalization

[ ] Specify BB (not ready yet), OB, DC
[ ] Normalization based on a ROI (like brightness adjustment on a camera)

Reconstruction (+ available software)

[ ] Attenuation tomography. i.e. pyMuhrec, backup Savu??
[ ] Bragg edge: ToFLib (GUI work from SNS, Jean B)
[ ] Grains in transmission mode: Trindex
[ ] Gratings: TaPy
[ ] Polarized neutrons: Should be implemented
[ ] Diffraction: 6DNXRD, BEER software
[ ] Rietveld refinement, Transmission: RITS, BeTmen (Sven) - data analysis part
[ ] Rietveld refinement, Diffraction: FullProf - data analysis part

Simulation

[ ] McStas data for comparison (SE and their components as unions)

Data Reduction

[ ] WFM stitching (as 1D and 2D) as option before AND/OR after the normalization/analysis routines.
[ ] Comparison of the two cases:
- Binning full spectrum into images + Normalization + Stitching.
- Stitching events + Normalization
[ ] Simple conversion between TOF and lambda
[ ] Conversion between attenuation coefficients and transmission :math:func(attenuation_coefficiency, sample_thickness) = transmission func is based on Beer Lambert Law
[ ] Black-body correction (developed by PSI, correction according to transmission)
[ ] Fitting routines i.e. siemens stars spatial resolution

Image Tools

Basically making image J and Fiji We should check if Fiji provides APIs. (Still not fast enough)

[ ] Simple mathematical operations: scaling, adding,…
[ ] filtering, averaging (in all dimensions)
[ ] histograms of ROIs
[ ] data extraction from ROIs, line plots, z-plots
[ ] binning (2D and 3D)
[ ] ROI flexibility: specifically very flexible ROI tools (more than one, generic shapes)
[ ] ROI’s in tof/wavelength
[ ] complex ROI shape (free hand in 3D).
[ ] visualization tools (contrast, brightness…) available at selected processing step
[ ] Re-sorting and re-naming (stroboscopic – phase – time sorting[MOU2] ..) process not in sync with source
[ ] Additional: running averages and interpolation tools in x-y-lambda-t We have to discuss we should state it clearly.
[ ] Spatial image stitching (also workable for tomography) – check VGStudio max or similar, Amira/Avizo
[ ] extraction (+plotting) of TOF dependency (e.g. Bragg edge patterns) from Voxels
[ ] Display/Visualization (images) of refinement parameters (including uncertainties) for quality check.
[ ] Convenient access to fitted spectra of each pixel.
[ ] Rodrigues vectors and quaternions
[ ] Visualization tools(contrast, brightness, etc) - we can use external tools maybe?
[ ] Target tracking tool

scipp / essimaging

Sorting out requirements from a high-level requirement note of ODIN #21