Codespace: disk usage

[casperdcl]

notebooks/Synergistic/BrainWeb.ipynb fails during forward projection due to disk (!) space usage on the 32GB disk machines. The lowest-spec workable Codespace is the 8-core (64 GB disk) machine.

Possible solutions:

• reduce size of data from

  SIRF-Exercises/.devcontainer/devcontainer.json

  Line 16 in a239c0b

  "postCreateCommand": "bash ./scripts/download_data.sh -m -p && sed -i /astra-toolbox/d environment.yml && mamba env update",

• write temporary data to /dev/shm (RAM) instead of disk
• document disk usage requirements

[KrisThielemans]

As it happens during the forward projection, we could set pet.AcquisitionData.set_storage_scheme("memory"), or whatever the syntax is (@evgueni-ovtchinnikov?), at the top.

[casperdcl]

set_storage_scheme("memory") works for the first fwd projection, but the second one in the notebook triggers out of memory (on the 8GB RAM machine)...

Should we add set_storage_scheme("memory") to BrainWeb.ipynb and raise the memory requirements here?

SIRF-Exercises/.devcontainer/devcontainer.json

Line 5 in 34ab5ab

"memory": "8gb",

[KrisThielemans]

Let's consider this later, i.e. after the PiW training. Best not to make changes anymore.