Scripts Reference#
Command-line scripts are available, for Ptychography, CDI and holo-tomography.
Ptychography scripts#
These are instructions to run the command-line scripts for ptychography analysis such as pynx-ptycho-cxi, pynx-ptycho-id01, pynx-ptycho-id13, pynx-ptycho-id16a, etc…
- pynx-ptycho-cxi
Documentation for the pynx-ptycho-cxi command-line script to reconstruct ptychography datasets using the CXI file format
- pynx-ptycho-simulation
Documentation for the pynx-ptycho-simulation command-line script to reconstruct simulated ptychography datasets-mostly for testing & development.
- pynx-ptycho-id01
Documentation for the pynx-ptycho-id01 command-line script to reconstruct ptychography datasets from the ID01 ESRF beamline.
- pynx-ptycho-id13
Documentation for the pynx-ptycho-id13 command-line script to reconstruct ptychography datasets from the ID13 ESRF beamline.
- pynx-ptycho-id16a
Documentation for the pynx-ptycho-id16a command-line script to reconstruct far-field ptychography datasets from the ID16A ESRF beamline.
- pynx-ptycho-id16a-nf
Documentation for the pynx-ptycho-id16a-nf command-line script to reconstruct near-field ptychography datasets from the ID16A ESRF beamline.
- pynx-ptycho-hermes
Documentation for the pynx-ptycho-hermes command-line script to reconstruct ptychography datasets from the Hermès Soleil beamline.
Coherent Diffraction Imaging scripts#
These are instructions to run the command-line scripts: pynx-cdi-id01 and pynx-cdi-id10. They can also be used for generic data not from these beamlines.
Most of the parameters are identical, with a some changes in the default parameters according to each (small-angle or Bragg CDI).
pynx-cdi-id01:#
- pynx-cdi-id01
Documentation for the pynx-cdi-id01 command-line script to reconstruct objects from a CDI dataset, with defaults parameters for the Bragg CDI case.
pynx-cdi-id10:#
- pynx-cdi-id10
Documentation for the pynx-cdi-id10 command-line script to reconstruct objects from a CDI dataset, with defaults parameters for the small-angle case (with a beamstop).
CDI-regrid#
- pynx-cdi-regrid
Documentation for pynx-cdi-regrid to prepare 3D small-angle cdi CXI file from multiple projections.
Holo-tomography scripts#
pynx-holotomo-id16b:#
- pynx-holotomo-id16b
Documentation for the pynx-holotomo-id16b command-line script to reconstruct objects from an ID16B holo-tomography dataset.