Set-up(env CeleST): Find a way to work with CeleST

p-lg-ux commented 2 years ago

User Story

As a CeleST user, I want to launch and execute the CeleST software in a dedicated environment, so that we can import a video, execute a task and retrieve the output. Concerning the environment, different leads are possible:

using latest version of Octave and debugging (run and crash)
within a VM (Linux/Windows), use a former version of Matlab (2015b to 2017b)
within a VM (Linux/Windows), use the latest version of Matlab
within a VM, use a former version of Octave (2015 to 2017)

CeleST code source can be found here: http://celest.mbb.rutgers.edu/

Acceptance Criteria

[x] Create a new Matlab version (integrate the code in the repository github of Elegant-Elegans) in a directory CeleST.
[x] CeleST is working properly on GNU Octave (version in Settings section).
- [x] A directory CeleST with all the code working in Octave (CeleST/).
- [x] A documentation explaining how to execute the code (in CeleST/how_to.md).
[x] Documentation explaining how to import TIFF images and the processing of these data.
[x] Functionalities concerning the analysis (available on the processing window frame) must work.
[ ] Documentation to install Octave via flatpak (in Setup.md).

Definition of Done

[ ] Product Owner accepts the User Story
[ ] Acceptance criteria met

Defined by CICD:

Set up instructions have been written

Settitngs:

Ubuntu 20.4 or 22.04
GNU Octave, version 7.1.0

madvid commented 2 years ago

@p-lg-ux starts with the first lead (lastest version of Octave and debugging approach)

madvid commented 2 years ago

For the moment we have edited 2 files : CeleST.m and CSTProcessVideos.m make sure to import image package in Octave by typing in the octave interface pkg install -forge image You will probably have an error about a directory /run/user/snap.octave, you will have to create it and edit the acress via chmod

edited_sources.zip

p-lg-ux commented 2 years ago

@madvid For information purpose, could you precise the ubuntu and octave versions used ?

madvid commented 2 years ago

@p-lg-ux update of the issue done

42-AI / Elegant-Elegans