Spring 2012:Vincent Lee Journal

OH SHIT.

Week 1 (2/6-2/12)

1. Create

Done?

1. What do you want to get out of 20.345?

I want to make awesome optical things and learn about optics. Also interested in seeing how this all applies to bio, but more interested in the optics.

1. What are your areas of interest?

I am interested in looking into the physical optical side of things, less the image processing. We'll see.

Week 2 (2/13-2/19)

Progress: Working on optical trap lab.

Week 6 (3/12-3/18)

Progress: Continued building fluorescence microscope. Having some trouble getting alignment correct, but getting there.

Week 7 (3/19-3/25)

1. What is the most important thing you accomplished during the first week of your project?

We primarily decided on a design and what materials were required. We ordered these materials, and will bring the design together when they arrive.

1. What three things do you plan to accomplish in the next week?

Get materials and start building

1. What three things do you plan to accomplish in the next month?

Get lightfield data from the camera and process it into a focusing image.

Week 8 (3/26-4/1)

1. Did you enjoy Spring Break?

Eh.

Week 9 (4/2-4/8)

1. What is the riskiest element of your project? What is your backup plan if that element fails?

Riskiest is really the processing. If we cannot successfully do it by hand, we will need to fall back to the Lytro software, which may or may not result in lost functionality.

1. List two skills you will have to learn in order to complete your project.

Lightfield processing in MATLAB Retrofitting existing optics into a microscope layout

1. What companies make products related to your project? Whose products are the best?

Lytro is basically the only company that makes products at all related to this, but these products are not for microscopy.

Week 10 (4/9-4/15)

1. List at least five resources that have helped you. Your list may include papers, documentation,, textbooks, videos, downloaded code, or people who are not members of the teaching staff.

Recording and controlling the 4D light field in a microscope - Levoy, M. Code & Article from <http://eclecti.cc/computervision/reverse-engineering-the-lytro-lfp-file-format> Code from <https://github.com/nrpatel/lfptools> Software from <http://graphics.stanford.edu/software/LFDisplay/> http://graphics.stanford.edu/software/LFDisplay/lfmintro/

1. What was the most fun part of your project so far?

Assembly

1. What task are you procrastinating the most?

Processing

Week 11 (4/16-4/22)

1. List at least three statistical techniques you plan to use.
2. Generate simulated data sets and test these techniques.
3. What was the part of the project that you originally didn't think was important, but now has become a major task?

Week 12 (4/23-4/29)

1. Is there any part of your project that you now realize is not so important, and should have been skipped?
2. What "unwritten knowledge" have you found out in the process of conducting your project (e.g., the kind of thing that never gets described in a book or paper, but you have to experience to understand)?
3. Design a mathematical model, a simulation, or small pilot project, which takes no longer than 3 days, to reduce the risk of the remaining part of your project.

Week 13 (4/30-5/6)

This week, I have been trying to modify LFDisplay to work with hexagonal grids, but the code is difficult to understand and I suspect/fear that the lightfield processing happens in an OoenGL shader. I am, today, switching my focus to writing a more minimal program that processes the image in the LF -> 4D Freq Space -> 2D Freq Space -> 2D Spatial method laid out by Ng in [1].

1. What is the biggest thing you would have done differently in your project, given what you've learned throughout your project so far?
2. Instruments often require a biological demonstration to make their value clear. What would the most compelling demonstration of the power of your technology be? What will you do during the class period?
3. Reflect upon your pilot project from the previous week: did you carry it out? Why or why not?

Week 14 (5/7-5/13)

1. If you had twice the time to do the project, what would you differently? What about if you had half the time? How does this thinking change your actual plans?
2. What have you noticed about your own mind, in the way that you create ideas, implement ideas, and test ideas? Consider both cognitive and emotional variables.
3. What was the most important resource you now use, that you did not know about at the beginning of the term? How can you find more resources, more rapidly, in the future?

Week 15 (5/14-5/17)

1. What have you learned about working with others? Are there proactive or responsive things you should do differently, to maximize work with others?
2. If you had twice the resources to do the project, what would you differently? What about if you had half the resources? How does this thinking change your actual plans?
3. Based upon your reflections of the previous week: are there things you can practice, to make you more efficient at creating, implementing, and testing ideas?

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