Update run_cluster

[milesAraya]

Content

Update run_cluster with

• error handling,
  • Inputs now accept folder path or file path
  • Errors in input cause error message
• temp dir usage
  • Previously snakemake.yaml file was left remaining in studio folder
• default flags on
  • use_conda needed to be turned on, however, this should be default

Testcase

Delete any output data folders in /tmp/studio/output/1/tutorial1
run
python run_cluster.py --config=/tmp/studio/output/1/tutorial1/snakemake.yaml

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Documentation should be updated to reflect change in flag usage

[itutu-tienday]

The code fix seems OK.
Please adjust the docs afterwards.