README

This script provides LIVE feedback for On-The-Fly data collection with RELION (very useful to explore already processed datasets too!)

Creating conda environment that works

conda create -n relion_dashboard python=3
conda activate relion_dashboard
pip install pandas
pip install dash
pip install "starfile=0.4.10"
pip install pathlib2
conda deactivate

Download relion_it.py and put in your path

Run the script

From your relion project directory:

conda activate relion_dashboard
relion_live.py

Open a web browser and access the server (localhost:8050) - you can edit the script and change localhost for full IP address in order to access from another computer in the network

Display images for micrograph and CTF

In order for this to work, you need to create png files for every image and ctf in the motioncorr and ctffind folders, next to mrc/ctf files and with the same name.

To do this we use an external job from the relion GUI to run png_out.py so you can include it in your relion_it.py schedule (include folder+job.star and modify scheme.star).