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Week 3 - Getting Better with this CompuCell3D Thing

Monday, 06/23/14:
    I read more from the CompuCell3D manual and found something that may help me with the mitosis simulation.

Tuesday, 06/24/14:
    I continued to read more from the CompuCell3D manual and found something that may help me with the mitosis simulation. I also attended a professional workshop on goal setting. I adjusted the SteppableBasedMitosis module for a single cell mitosis run, ran it, and produced 51 cells. Eventually, I would achieve 44 cells. Yesssss! I then read from the article, “Charting the course of ovarian development in vertebrates”.

Wednesday, 06/25/14:
    Continued reading from the article, “Charting the course of ovarian development in vertebrates”. Eventually, I got the itch to create a 3-dimensional model of the cell sort_3D_open_mp module, and was successful. At first, the interface reported a “Not Responding” note, so I assumed the application was going to crash. Soon after, I was able to see a 3-D image! Huzah! I can see the 3-D image by moving the structure around within a simulated box on the interface. It may safe to assume that I’ll have wait while producing 3-D simulations. I used PDF titled, “Introduction to CompuCell3D” for help to create a the 3-D illustration. Now attempting to simulate a 3-D model for 42 - 45 cells.

Thursday, 06/26/14:
    I began reading from the article, “Life and death of female gametes during oogenesis and follicugenesis”.  

Friday, 06/27/14:
    Continued reading from the article, “Life and death of female gametes during oogenesis and follicugenesis”.  Later, I had a meeting with Karen discussing my paper outline, and we talked about what to think about in the coming week. She mentioned to find out what the green and blue cells were in the condensing and non-condensing cells were in the CompuCell3D script. They may have something to do with the condensing and non-condensing labeling. She also mentioned to find out the time frame in CompuCell for 1 to 42 cells, and to make them analogous to days past coitem (dpc). Also, to find out the units of volume, and how different variables are used in the simulation. Next, she mentioned to seek of what are the ways to control or regulate cell division. Finally, Karen wanted to know of how to produce a specific structure for cells.