This package contains modules useful in the workflow of collecting, processing, and visualizing Optical Coherence Tomography (OCT) imaging data in the Additive Manufacturing Design Center at The University of Texas at Austin.
numpy scipy matplotlib
This project contains several modules. Each is described below.
This module takes frequency domain OCT data and a location data file (galvo data), and sections the OCT data by location according to the parameters specified in the OCTScanConfig file. The data is then ready to be opened by the visualization software (add link).
See the autosection_all_bin_files_in_path for an example script which will search recursively in a directory for every OCT file (.bin) and will then section the data and save the sectioned data in a folder named "cut" in preparation to be read by the visualization software (LabView or ImageJ).
This module provides a python interface to create XML files usable by the EC1000 Galvo Controller by Cambridge Technologies which command the mirror position which directs a laser. It has low level functions (single mark or jump command) as well as slightly higher level functions as well (draw a square or circle, etc.)
There is also some support for reading and plotting the commands in the xml files, though there are still some bugs at the moment.
The OCT imaging data has an artificial curvature (not present in the physical system being imaged), and this module is being created to attempt to do a software correction of the data. Currently in development.
- Adam Lewis - Initial work
This project is licensed under the MIT License - see the LICENSE.md file for details