Task 1

Move the functionality of the script calculate_beads.py into cg_lims epp cli.

This little script calculates Volume Beads and Volume H2O: https://github.com/Clinical-Genomics/clinical_EPPs/blob/master/EPPs/calculate_beads.py

Is used in this step (and maybe more): https://clinical-lims-stage.scilifelab.se/clarity/configuration/lab-work/step/1505

It is configured here: https://clinical-lims-stage.scilifelab.se/clarity/configuration/automation/step-automation

Button name: Calculate Volumes

Add the script to the cg_lims package: https://github.com/Clinical-Genomics/cg_lims

Get started

Clone the cg_lims repo and make a conda env for it. Create the required config - talk to me! (not available on servers yet) Log into lims-stage GUI and que samples to the step where the script should be used! When you have samples in the step you can start to write and test. The new EPP should be added to EPP/udf/calculate. Look at other epps top se how they are written and called by the cli Don't just copy the script. Think about how it can be better and how you could use existing code in cg_lims/get eg. Write tests using the limsmock!