Applying the same perturbation more than once to the same subject

[couunderbarz]

I'm trying to apply the same perturbation twice to one subject.
My perturbation dataframe is like below.

name	start	end	subject
Vancomycin	12	24	1
Vancomycin	12	24	2
Vancomycin	36	48	1
Vancomycin	36	48	2

However, it seems that MDSINE2 only considers the later one. ( https://github.com/gerberlab/MDSINE2/blob/master/mdsine2/pylab/base.py#L2338-L2339 )
In the above example, the study object only has the perturbations that start at 36 and end at 48, and the perturbations that start at 12 and end at 24 disappear.

for pert in study.perturbations:
    print(pert)

This outputs

Perturbation Vancomycin:
	Subject 1: (36, 48)
	Subject 2: (36, 48)

Is is possible to apply the same perturbation more than once to the same subject?

[yk23]

Hello @couunderbarz, I'm sorry that we haven't been observing this repository as much -- we are making some additions/cleanups still to the codebase as we are preparing for an additional publication. The repository has gone through a change in management and that was largely the cause for delay.

Also thanks for the heads up. I'll try to address this as soon as possible.

[yk23]

Sorry for the delay. We may be able to address this in the near future; to be added as a TODO item/feature request.

Another person contacted me about this. It doesnt apply to OP's scenario, but there is a "workaround" in the following special case:
Day 0 ~ Day n: Antibiotic XYZ
Day n+1 ~ Day m: no antibiotics
Day m+1 ~ Day N: Antibiotic XYZ again

Since there is a single time window with no antibiotics, one can encode day n+1 - day m as a "perturbation", and have [0~n] & [m+1 ~ N] have no perturbation in the model.