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Learning outcomes:

  • Practice launching, managing, and creating virtual machines
  • Practice using GitHub and installing software
  • Work as a team for midterm project
  • Make progress on midterm project

Homework (Teams):

  • Create/move your midterm project page to: Midterm (probably from homework 5)
  • Install SequenceServer (https://sequenceserver.com/) on a VM
  • Get SequenceServer working correctly (make sure to test)
  • Create an Image of the VM and shutdown the VM
  • Launch new instances of your SequenceServer on various sized instances (1 core, 2 cores, 4 cores, 8 cores)
  • Perform benchmarking on sequences that are:
    • DNA: 1000, 2000, 5000, 10000, 50000, 100000, 500000 in length (think about submitting a single sequence vs multiple sequences)
    • Protein sequences (number of sequences): 1, 5, 10, 50, 100, 500
  • Document everything in your team page for the midterm
  • Be prepared to give a short 5-10min update/presentation next Thurs (Oct. 3rd)
  • Remember to evaluate your teammates.  You will receive no credit for the homework unless you complete the teammate evaluation.

 

 

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