generate initial datasets available with simSPI

[geoffwoollard]

Prerequisite: the TEM simulator is wrapped with CTF and noise, using the container TEM simulator.

Scope: generate 1k particles of the following datasets to be made available on ioSPI.

1. ribosome (~2 Angstrom): PDB 7k00
2. spliceosome (~4A): PDB: 5nrl
3. Gaba B (~3-4A): PDB 7eb2

[geoffwoollard]

Suggested deadline: Jan 28

[fredericpoitevin]

Where do we stand with this issue @geoffwoollard ?

[geoffwoollard]

The capstone students did not get to it. Now that they are wrapped up (report midnight Friday), I'll do it.

I've have set up a custom python environment and remote jupyter notebook on the sockeye clsuter at UBC to run things.

Let me generate some results on 1. next week.

How does that sound?

[ninamiolane]

This issue has been converted into 3 tasks for the hackathon:

• Simulate ribosomes' micrographs with the TEM simulator #109
• Simulate Gaba-B proteins' micrographs with the TEM simulator #108
• Simulate spliceosomes' micrographs with the TEM simulator #110
  @geoffwoollard you might be able to give them some insights?