correct way to reinstantiate objects?

[cafletezbrant]

Hi @zouter @OlgaPushkarev @Victor-fe @VincentGardeux @dav-pav ,

Sorry for the flood of questions.

This is the general case of #9 - what is the right way to load an object of class Flow (https://github.com/DeplanckeLab/ChromatinHD/blob/b3535641c8fab52e8d82cd11ff8898f0c024c97c/src/chromatinhd/flow/flow.py) after exiting a Python session?

It seems that the Regions, Transcriptome and Fragments objects I created (this last took 5 hours for chd.data.Fragments.from_fragments_tsv with my 70GB data) were completely deleted when I tried to reload in a new Python session. There is no clear example in your quickstart, guides. Here's what I tried, based on seeing that chd.models.pred.model.multiscale.Models has an argument reset:

## save_dir is the local directory where my data should be saved
fragments = chd.data.Fragments(save_dir / "fragments", reset=False)
folds = chd.data.folds.Folds(save_dir / "folds" / "5x1", reset=False)
transcriptome = chd.data.Transcriptome(save_dir / "transcriptome", reset=False)

However, this did not work as now my fragments directory is empty.

Please advise,
Kipper Fletez-Brant