Imaging Pipeline Update

Here is what I am adding to/changing in the pipeline:

- Updated setup_logging.py with new log information
- Added psutil module to setup.py
- Changed num_cores value on cfg files
- Added number of cores to settings.yaml and template_settings.yaml files
- Created a script to check analysis performance in different environments
- Changed a few things in imaging_pipeline.py and run_imaging_pipeline.py
Yes, it was a mistake. I am going to change that.