"

From 2010.igem.org

Revision as of 09:41, 27 October 2010 (view source) Sordfysh48 (Talk | contribs) ← Older edit		Latest revision as of 03:44, 28 October 2010 (view source) Akropor2 (Talk | contribs) (→July 25 – July 31)
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	=Weekly Lab Notebook=		=Weekly Lab Notebook=
	===July 25 – July 31===		===July 25 – July 31===
		+
		+	'''Colin''' -
		+
		+	'''Jeremy''' - This week I debugged the code I wrote last week, as well as working to install new software on the new server, including the LAMP server package. The server needs a whole suite of software, including python 2.6, biopython, cairo, rsvg, scipy, and numpy.
		+
		+	'''Anna''' - Continued working on the COBRA script, and did a lot of MATLAB tutorials. This gave me a strong base to be able to write a code to automate the COBRA process.  I also learned a bit about coding. I learned PyMat can be used with python to run MATLAB and thus also run COBRA. We will stick with the dynamic Flux Balance analysis not MOMA or lMOMA. Look into the Flux Variable analysis as well. We have fixed the stoichiometeric matrix so that it can better work with COBRA. We did some fundraising this involved grilling and discussed ideas for the fall semester and fundraising then. The July newsletter came out this week!!

---

Latest revision as of 03:44, 28 October 2010

	Home Team Colin Hoffman Jeremy Kemball Anna Kropornicka Bobak Hadidi Acknowledgements Team Profile Project BioMORTAR Website IMPtools Website IMPtools v1.0 Plasmid Designer Modeling Next Version Cooperation Press Newsletter Notebook Bootcamp Safety

• • • The notebook is organized into weeks. Click on the Saturday of each week to view that week's notebook entry

May M T W T F S S           [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/1_May_2010&action=edit 1] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/2_May_2010&action=edit 2] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/3_May_2010&action=edit 3] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/4_May_2010&action=edit 4] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/5_May_2010&action=edit 5] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/6_May_2010&action=edit 6] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/7_May_2010&action=edit 7] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/8_May_2010&action=edit 8] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/9_May_2010&action=edit 9] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/10_May_2010&action=edit 10] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/11_May_2010&action=edit 11] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/12_May_2010&action=edit 12] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/13_May_2010&action=edit 13] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/14_May_2010&action=edit 14] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/15_May_2010&action=edit 15] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/16_May_2010&action=edit 16] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/17_May_2010&action=edit 17] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/18_May_2010&action=edit 18] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/19_May_2010&action=edit 19] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/20_May_2010&action=edit 20] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/21_May_2010&action=edit 21] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/22_May_2010&action=edit 22] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/23_May_2010&action=edit 23] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/24_May_2010&action=edit 24] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/25_May_2010&action=edit 25] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/26_May_2010&action=edit 26] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/27_May_2010&action=edit 27] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/28_May_2010&action=edit 28] [http://2010.igem.org/UIUC-Illinois-Software/29_May_2010 29] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/30_May_2010&action=edit 30] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/31_May_2010&action=edit 31]

June M T W T F S S   [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/1_June_2010&action=edit 1] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/2_June_2010&action=edit 2] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/3_June_2010&action=edit 3] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/4_June_2010&action=edit 4] [http://2010.igem.org/UIUC-Illinois-Software/5_June_2010 5] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/6_June_2010&action=edit 6] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/7_June_2010&action=edit 7] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/8_June_2010&action=edit 8] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/9_June_2010&action=edit 9] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/10_June_2010&action=edit 10] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/11_June_2010&action=edit 11] [http://2010.igem.org/UIUC-Illinois-Software/12_June_2010 12] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/13_June_2010&action=edit 13] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/14_June_2010&action=edit 14] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/15_June_2010&action=edit 15] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/16_June_2010&action=edit 16] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/17_June_2010&action=edit 17] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/18_June_2010&action=edit 18] [http://2010.igem.org/UIUC-Illinois-Software/19_June_2010 19] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/20_June_2010&action=edit 20] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/21_June_2010&action=edit 21] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/22_June_2010&action=edit 22] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/23_June_2010&action=edit 23] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/24_June_2010&action=edit 24] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/25_June_2010&action=edit 25] [http://2010.igem.org/UIUC-Illinois-Software/26_June_2010 26] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/27_June_2010&action=edit 27] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/28_June_2010&action=edit 28] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/29_June_2010&action=edit 29] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/30_June_2010&action=edit 30]

July M T W T F S S       [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/1_July_2010&action=edit 1] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/2_July_2010&action=edit 2] [http://2010.igem.org/UIUC-Illinois-Software/3_July_2010 3] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/4_July_2010&action=edit 4] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/5_July_2010&action=edit 5] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/6_July_2010&action=edit 6] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/7_July_2010&action=edit 7] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/8_July_2010&action=edit 8] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/9_July_2010&action=edit 9] [http://2010.igem.org/UIUC-Illinois-Software/10_July_2010 10] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/11_July_2010&action=edit 11] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/12_July_2010&action=edit 12] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/13_July_2010&action=edit 13] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/14_July_2010&action=edit 14] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/15_July_2010&action=edit 15] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/16_July_2010&action=edit 16] [http://2010.igem.org/UIUC-Illinois-Software/17_July_2010 17] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/18_July_2010&action=edit 18] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/19_July_2010&action=edit 19] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/20_July_2010&action=edit 20] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/21_July_2010&action=edit 21] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/22_July_2010&action=edit 22] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/23_July_2010&action=edit 23] [http://2010.igem.org/UIUC-Illinois-Software/24_July_2010 24] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/25_July_2010&action=edit 25] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/26_July_2010&action=edit 26] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/27_July_2010&action=edit 27] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/28_July_2010&action=edit 28] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/29_July_2010&action=edit 29] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/30_July_2010&action=edit 30] [http://2010.igem.org/UIUC-Illinois-Software/31_July_2010 31]

August M T W T F S S             [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/1_August_2010&action=edit 1] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/2_August_2010&action=edit 2] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/3_August_2010&action=edit 3] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/4_August_2010&action=edit 4] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/5_August_2010&action=edit 5] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/6_August_2010&action=edit 6] [http://2010.igem.org/UIUC-Illinois-Software/7_August_2010 7] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/8_August_2010&action=edit 8] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/9_August_2010&action=edit 9] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/10_August_2010&action=edit 10] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/11_August_2010&action=edit 11] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/12_August_2010&action=edit 12] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/13_August_2010&action=edit 13] [http://2010.igem.org/UIUC-Illinois-Software/14_August_2010 14] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/15_August_2010&action=edit 15] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/16_August_2010&action=edit 16] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/17_August_2010&action=edit 17] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/18_August_2010&action=edit 18] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/19_August_2010&action=edit 19] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/20_August_2010&action=edit 20] [http://2010.igem.org/UIUC-Illinois-Software/21_August_2010 21] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/22_August_2010&action=edit 22] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/23_August_2010&action=edit 23] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/24_August_2010&action=edit 24] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/25_August_2010&action=edit 25] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/26_August_2010&action=edit 26] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/27_August_2010&action=edit 27] [http://2010.igem.org/UIUC-Illinois-Software/28_August_2010 28] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/29_August_2010&action=edit 29] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/30_August_2010&action=edit 30] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/31_August_2010&action=edit 31]

September M T W T F S S     [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/1_September_2010&action=edit 1] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/2_September_2010&action=edit 2] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/3_September_2010&action=edit 3] [http://2010.igem.org/UIUC-Illinois-Software/4_September_2010 4] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/5_September_2010&action=edit 5] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/6_September_2010&action=edit 6] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/7_September_2010&action=edit 7] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/8_September_2010&action=edit 8] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/9_September_2010&action=edit 9] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/10_September_2010&action=edit 10] [http://2010.igem.org/UIUC-Illinois-Software/11_September_2010 11] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/12_September_2010&action=edit 12] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/13_September_2010&action=edit 13] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/14_September_2010&action=edit 14] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/15_September_2010&action=edit 15] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/16_September_2010&action=edit 16] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/17_September_2010&action=edit 17] [http://2010.igem.org/UIUC-Illinois-Software/18_September_2010 18] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/19_September_2010&action=edit 19] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/20_September_2010&action=edit 20] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/21_September_2010&action=edit 21] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/22_September_2010&action=edit 22] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/23_September_2010&action=edit 23] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/24_September_2010&action=edit 24] [http://2010.igem.org/UIUC-Illinois-Software/25_September_2010 25] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/26_September_2010&action=edit 26] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/27_September_2010&action=edit 27] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/28_September_2010&action=edit 28] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/29_September_2010&action=edit 29] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/30_September_2010&action=edit 30]

October M T W T F S S         [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/1_October_2010&action=edit 1] [http://2010.igem.org/UIUC-Illinois-Software/2_October_2010 2] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/3_October_2010&action=edit 3] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/4_October_2010&action=edit 4] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/5_October_2010&action=edit 5] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/6_October_2010&action=edit 6] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/7_October_2010&action=edit 7] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/8_October_2010&action=edit 8] [http://2010.igem.org/UIUC-Illinois-Software/9_October_2010 9] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/10_October_2010&action=edit 10] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/11_October_2010&action=edit 11] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/12_October_2010&action=edit 12] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/13_October_2010&action=edit 13] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/14_October_2010&action=edit 14] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/15_October_2010&action=edit 15] [http://2010.igem.org/UIUC-Illinois-Software/16_October_2010 16] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/17_October_2010&action=edit 17] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/18_October_2010&action=edit 18] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/19_October_2010&action=edit 19] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/20_October_2010&action=edit 20] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/21_October_2010&action=edit 21] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/22_October_2010&action=edit 22] [http://2010.igem.org/UIUC-Illinois-Software/23_October_2010 23] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/24_October_2010&action=edit 24] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/25_October_2010&action=edit 25] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/26_October_2010&action=edit 26] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/27_October_2010&action=edit 27] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/28_October_2010&action=edit 28] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/29_October_2010&action=edit 29] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/30_October_2010&action=edit 30] [http://2010.igem.org/wiki/index.php?title=UIUC-Illinois-Software/31_October_2010&action=edit 31]

Weekly Lab Notebook

July 25 – July 31

Colin -

Jeremy - This week I debugged the code I wrote last week, as well as working to install new software on the new server, including the LAMP server package. The server needs a whole suite of software, including python 2.6, biopython, cairo, rsvg, scipy, and numpy.

Anna - Continued working on the COBRA script, and did a lot of MATLAB tutorials. This gave me a strong base to be able to write a code to automate the COBRA process. I also learned a bit about coding. I learned PyMat can be used with python to run MATLAB and thus also run COBRA. We will stick with the dynamic Flux Balance analysis not MOMA or lMOMA. Look into the Flux Variable analysis as well. We have fixed the stoichiometeric matrix so that it can better work with COBRA. We did some fundraising this involved grilling and discussed ideas for the fall semester and fundraising then. The July newsletter came out this week!!