Course Timeline and homework

Course schedule, in and out of class.  Subject to change, particularly further in the future. If you have any ideas for a future class, please add them here!

Timeline Summary

Week 1 : intro

Weeks 2-3 project 1 planning and some tutorials to support that.

Weeks 4-8 project 1, including proposal presentations; journal reviews; project status presentations; project tutorials; unreal; software porting; project 2 planning; paraview yurt surface rendering

Weeks 9-15 project 2; project status presentations; journal review, project tutorials and activities

Week 1 

Class 1/23

• Class motivation, goals, structure, syllabus, wiki

• Introduce everyone

• Give a breakdown of the wiki

  • What was done last year

  • What is expected this year

  • Where to find everything

• Project-oriented structure for class

• Brief introduction to the YURT

• Introduce class projects, software, and collaborators

• Questions

• Start planning projects

HW for 1/28:

• Review course home page and subpages

• Set up your journal page and link it into  top-level journal page 

• Log 4-5 hours of homework time in your journal

• Read some background papers

• Read some of last year's wiki 

• Research data types, data examples, and software tools

• Add or refine at least one  thing in wiki (aside from journal, e.g. software or data type) 

• Install Paraview on your computer and bring to class

• Do things from Course Activities page

• Log time and any issues in your journal

• Ponder project ideas (always!)

Week 3

Class 2/04

First half of class:

• pair up and review project titles, and activities. Working together, add deliverables to each potential project.  Ask questions if you are not sure what to do.  Pick your first-choice project.

• identify what you need to learn and do before this first project begins so that you can design it to be successful. The projects will start  next week, so you have only one more week for this pre-project work. Check out what we will do on 2/6 to help guide this.

• go around room and explain the project that you most want to do, including what we might do in class for it and what you need to do before the project.

• document your potential pre-project activities in the wiki before leaving class

Second half of class:

• Start Unreal Engine tutorial with 3d assets

HW for 2/06: 

• Select one project from your list of potential projects and create a plan for your project. This project plan should have milestones to be delivered on 2/11, 2/13, 2/20 (2/18 is a holiday), 2/25, 2/27, and 3/03. The project plan should include activities that span from February to the middle of March

• Continue reading, doing, and logging with any extra time

Class 2/06

• Pair up with someone you haven’t paired up with before and jointly evaluate your pre-project plans. Evaluations should consider:

  • Will the project deliverables be useful and significant?

  • Will the project activities improve the potential quality of the project?

  • Will the project activities help identify and reduce project risks? Risks often involve external dependencies that end up not being met or over-optimistic estimates of time required.

  • Will the project activities themselves add deliverables to the wiki?

  • Go over any questions from above, beginning with project concepts, deliverables, and activities described very briefly. 

HW for 2/11:

• Write your final project plan in your journal

• Evaluate your project plan using the following rubric: 

o  Note that these first project should have milestones for 2/13, 2/20, 2/25, 3/03, 3/05, 3/10. Second-half projects will begin on 3/17 and go through the end of the semester. Here is an evaluation rubric for projects:

• Project Evaluation

Below are a set of questions that should help in evaluating project ideas. Answer each with one of:

• • 1. strongly disagree

    2. disagree

    3. neither agree nor disagree

    4. agree

    5. strongly agree 

The questions are:

o The proposed project clearly identifies deliverable additions to our VR Software Wiki

o The proposed project involves previously unavailable Yurt data visualization functionality

o The proposed project involves large data visualization along the lines of the "Data Types" wiki page and identifies the specific data and software that it will use

o The proposed project has a realistic schedule with explicit and measurable milestones at least each week and mostly every class

o The proposed project includes an in-class activity

o The proposed project has resources available with sufficient documentation

• Prepare 3 minute project descriptions with powerpoint (must be a .pptx or .ppt file) slides sent to David AT LEAST 24 hours ahead title, brief motivation, contributions/deliverables, schedule/milestones progress on first milestone 

Week 4

Class 2/11

• Project presentations -- three minutes each (plus likely substantial discussion and questions).  Include results from your first milestone!

  • These may fill entire class

  • We will schedule future class activities as identified in the proposals

• If time and need, finish Giuse's Unreal Engine Tutorial

• If time begin Gigapixel tutorial

HW for 2/13:

• Meet first milestone of project

• Work on project and log hours in journal

• Add to the wiki

Class 2/13

• Modifying software for the YURT presentation by Ben

• Urgent project shares

• Gigapixel tutorial completed

HW for 2/20:

• Continue work on project and contributions to the wiki

• Send pptx with at least one image/video (not of text...) showing progress on your project.  Also include your list of milestones and where you are with each one.

• Prepare journal for in-class review. Journals will be evaluated according to the following rubric: 

Activities logging rubric -- fill in in your journal

Activities logging rubric

key for each criterion:

5 == exceeds expectations

4 == meets expectations

3 == mostly solid with some gaps

2 == shows some progress

1 == some attempt

0 == not found

Criteria:

Journal activities are explicitly and clearly related to course deliverables

deliverables are described and attributed in wiki

report states total amount of time

total time is appropriate

• Using the above rubric, evaluate your journal and include your self-evaluation in your journal

Week 5

Class 2/18 (University Recess - No Class)

Class 2/20

• Project Progress Reviews

  • Discuss potential in-class activities

• Peer journal review

HW for 2/25:

Week 6

Class 2/25 at the Yurt

• Do gigapixel in-class viewer part

• Check out gigapixel viewer results in Yurt

HW for 2/27:

• Work on projects

Class 2/27

• Ross's Paraview surface rendering tutorial 

HW for 3/03:

• Prep for Shreya's 3D Slicer Activity

  • Download 3D Slicer here (stable release 4.10.2, takes up 940MB of space): https://download.slicer.org/

  • Download one of the folders from BraTS Dataset > HGG > Any of the CBICA folders

  • (Optional) Learn more about gliomas: https://www.mayoclinic.org/diseases-conditions/glioma/symptoms-causes/syc-20350251

  • (Optional) Learn more about MRIs: https://www.brainline.org/slideshow/brain-imaging-what-are-different-types

Week 7

Class 3/03

• Shreya's Slicer activity (40 minutes-1 hour)

HW for 3/05

• Prep for Anessa's Google Cardboard Activity

  • For iOS devices, run iOS 11 or higher

  • iOS software requirement: Xcode 10.3 or higher

  • For Android devices, run Android 5.0 "Lollipop" (API level 21) or higher

  • Android software requirement: Android Studio version 3.4.1 or higher

Class 3/05

• Anessa's Google Cardboard Activity for iOS and Android (40 minutes)

Week 8

Class 3/10

• End of first project presentations

  • 6 Ethan

  • 3 Shreya

  • 9 Loudon

  • 2 Anessa

  • 4 Spencer

Class 3/12

• Continue project presentations

  • 7 Laura

  • 1 Zach

  • 8 Frederic

  • 5 Brandon 

HW for 3/17 (now officially due 3/30, but sooner will help everyone get and give feedback)

• Draft of project 2 plan in journal for others to review

Week 9

Class 3/17 (cancelled, but David will be in zoom at https://brown.zoom.us/j/8372629163)

• discuss projects and get feedback on them

• maybe group edit a page for new science users with different data types to get going in the yurt

HW for 3/19 (now officially due 3/31

• Review project 2 plan for the three people following you in the journal pages

  • Use same project rubric as for first project

  • Put your feedback just below the plan

• Fill in class activity in the wiki timeline for the class time you would like

Class 3/19 (cancelled, but David will be in zoom at https://brown.zoom.us/j/8372629163)

• discuss projects further and get feedback on them

• HW for 3/19

• review project 2 plan for the three people following you in the journal pages

HW for 3/31 (AFTER BREAK!)

• be prepared to present your project 2 plan to class

Week 10

Class 3/24 (Spring Recess - No Class)

Class 3/26 (Spring Recess - No Class)

Week 11

Homework for  3/30

• see HW for 3/17

Homework for 3/31 

• see HW for 3/19

Class 3/31 

• in-class project discussions

Class 4/02

• Project 2 plan presentations

Week 12

Class 4/07

Zach's Python activity in Google Colaboratory. Links can be found in his project 1 documentation. It should take 30-40 minutes to complete. 

Class 4/09

More Colaboratory work, quick project checkins, connect to yurt.

Week 13

Class 4/14

 Howdy, folks.  We will be mostly brainstorming on upcoming in-class activities.  In working with Spencer, we realized that crafting an engaging, relevant, and topical in-class activity involving paraview was going to be challenging.  This seems likely to be the case for Loudon with Unity, Ethan with Unreal, and Brandon with OpenSpace as well.

To help with that crafting process, I'd like the four of you to give think about some options for your activity that will help the rest of us provide feedback and input.  Everyone else should think about what activities involving those software packages might be useful for the data you are working with (or maybe just of interest to you personally).

Class 4/16

• Project progress reports

Week 14

Class 4/21

Loudon's Unity Activity (creating a simple Unity app and guide to port to the Yurt) Time to complete: 1.5 hours

Make sure to have Unity installed with the Linux Build module

Porting Guide

Class 4/23

Brandon's Openspace data exploration activity (Explained in project 2 plan here ) Time to complete: 1.5 hours

• • Openspace Race

  • Two Line Element File Example

Week 15

Class 4/28 (reading period)

• Ethan's Unreal In-class activity (probably 1.5 hours)

• Spencer's Python Paraview activity (as time permits)

  • If so, make sure you have downloaded paraview and that there is an executable called pvpython.exe inside the bin folder inside your Paraview build. Run this executable and make sure that a python interpreter starts.

  • Download this file: 

Class 4/30 (reading period)

• Continuation of Spencer's Python Paraview scripting and yurting activity

  • Have paraview running with the python script going when class starts

Week 16

Class 5/05 (reading period)

• last project progress presentations.  pptx to David before class.  Presentation should include:

  • The story of your semester

  • List of wiki pages you will leave for posterity (some that are incomplete are fine).  Include items for both of your projects, but focus on the second.  Explain how these fit into your semester story.

  • Examples of the points you are considering including for your poster presentation on 5/15 (see below)

Exam Period

 5/15 10:30am ET -- Remote Demos/Posters -- may run past noon

• • Prepare a 4'x3' "poster" for a session that would have been in the CCV lobby.  You'll present to the class as if we were all standing around your poster as you talk, asking questions.  Be prepared to share your screen with this poster displayed.  If you use powerpoint, you can embed running videos, I believe, which could be particularly visually compelling.  Pictures and limited text are usually best for posters -- few poster viewers want to read a paper printed out on a poster.  

  • Capture the main points you would want to convey about your findings and wiki contributions from the semester.  You can focus on both projects or pick one, if you wish.   We will have ~10 minutes for each presenter, including questions and answers.  Leave time for some questions, but also be prepared to present more unprompted material  if questions do not arise.

  • Your presentation can also include an interactive portion either on your computer or in the Yurt, shared via the webcam.  Time will be very limited, so interactive pieces need to be carefully scripted and practiced to be concise and clear.  You might want to video-capture what you'd like to show so that you avoid the risks of real-time demoing.