Oceanography 2013: 
GEOL/ATOC 4060 / 5060

Lecturer: Dr. Chris Jenkins (Chris.Jenkins@colorado.edu),
Lab Instructor:  
Evan Anderson (Evan.P.Anderson@colorado.edu)

Location: Benson Building 1B75 
(Geology, basement) for
Lectures (1400-1450h Mon; 1500-1650h Fri),

TBA for Labs (1500-1650h Mon)

Rear room, Benson Library for Office Hours (1000-1150h Wed)
(unless posted otherwise, then at Benson 435)

Web Page Dateline: 1650h, 1 May 2013
Edge of World
Edge of the World. (Painting.)

1 May 20131. EXCEL Add-In for the FFT question,
    Exercise 8 (now due Friday 3 May 2013)
2. Chalkboard guidance JPGA
1. The 'Analysis ToolPack' Add-In for FFT analysis of data does work for the EXCEL
    installation in the Benson computer labs. In fact it is already installed.
2. Here is the chalkboard outlining approximate Python method for the FFT.
1 May 2013Advice on Final Exam1. The form of questions will be similar to: (i) the Mid-Term test,
    (ii) the 4060/5060 tests from last year (see below).
    The exam will last 2.5 hours, so will be more in-depth than the mid-Term test..
2. The Exam is NOT 'cumulative'. The subject matter will include course topics:
     the 'Eddy Viscosity' (Mar 18th) and subsequent lectures.
3. 30% of the exam will be of questions you have met before in exercise, tests, labs,
    revisions past papers.
4. Please make sure your answers are brief, to the point, complete. Question types include:
    draw and/or label diagrams; logic chain; connect related concepts; brief responses.
29 May 2013Finalizing the Major Projects1. On Monday and Friday this week we will hold the spoken presentations for the MajorProjects.
     Each (pair/solo) team will speak as one. Monday teams with a surname in A-M will talk, Friday N-Z.
2. The purpose is for you to get review from the class and me/Evan of your project before final submission.
     The spoken presentation will be a minor part of assessment. The major thing is the written paper.
3. That written paper is due at 5pm (yes!, an hour after class) on Friday 3rd May 2013.
4. Each student should write their own EIS paper, but based on the paired/solo research that you did.
     Obviously, if paired, the reports could be very similar.
28 Apr 2013Past Tests HEREAs requested I have posted up some past tests from the 4060/5060 and 3070 Oceanography Courses.
But BEWARE the course is different this year. 
  • It does NOT deal with deep-ocean flows, deltas and sediments, beaches, the Navier-Stokes equation, and other stuff.
  • Instead it DOES deal with Vorticity, EddyViscosity, Turbulence, Carbon, FFT.
We cannot unscramble the omelette !
28 Apr 2013The Plan ahead1. The Final Exam is scheduled for Monday 6th May 2013 730-1030pm.  (Venue TBA)
2. The last week is devoted to major project verbal in-class QuikReports and to revision.
3. Office Hours will be available ALL Wednesday 1 May 2013, 9am to 6pm.
4. An extra copy of the textbook Shallow Water Processes (Open University)
    - dealing with waves and tides - is lodged in the Benson Library Reserve.
26 Apr 20131. Lecture: Carbon in the Oceans PDF 
2. Chalkboards JPGA, JPGB
1. PDF copy of the lecture. This is the last lecture of the course.
2. Chalkboard jottings from the lecrure session and small Anthropocene/Acidification presentations
22 Apr 20131. Lab Exercise 8 - Tides PDF
2. Data sheet CSV
3. Chalkboard - WorkThru of Ex7 Q4
4. Notes on the FFT processing of
    Tides Data  JPGD

5. Note change of due date for Ex 7.
1. PDF of the questions - due 29 Apr 2013
2. Accompanying data in EXCEL CSV format
3. The board as it developed as we worked through the question on Waves-Snell's Law 
    and then the question of wave energies
4. From plotting the raw data, to installing Add-In 'Analysis ToolPack' in EXCEL,
    padding the data, to the complex number results of the FFT, then taking their Absolute
    values (IMABS function), to plotting the spectrum, to calculating the
    periods of the tidal components
5. Now changed to Friday 26th April 2013.
    Please work on this, solo or together to make sure you understand it.
19 Apr 20131. Lecture on Tides PDF
2. Chalkboards JPGA JPGB
1. PDF copy of the lecture PowerPoint file
2. Chalkboards from during the lecture
    (Note: and some refs for a student's Maj Proj)
10 Apr 20131. Exercise Ex7 chalkboards JPGA JPGB
Exercise Ex7 - more chalkboards JPGC
1. Explanations of parts of Ex 7, made in lab, after lecture on 8 Apr
2. Further notes on methods for Ex 7 - made during office Hours, 10 Apr
8 Apr 20131. Lecture - ShallowWater Waves PDF
2. Exercise Ex7 PDF

3. Lecture Chalkboards - JPGA JPGB 
1. Lecture on shallow-water waves
2. Ex7 Eddy Viscosity, Turbulence, Waves.
    A quantitative, assessable exercise due on Friday 26th April 2013 (note the change).
3. Further notes and scribbles from during the lecture
5 Apr 20131. Lecture - Surface waves PDF
2. Chalkboard JPGA
1. Lecture as presented in the session
2. Notes from during & after the lecture
1 Apr 20131. Ocean Expedition opportunity

2. Grades posted !

3. Chalkboards JPGA, JPGB

1. Flyer in PDF (TBA): Offshore Florida; 12-26th May 2013; German Navy research vessel "Planet";
     Focus: Seafloor imaging and sampling; Outbound - Fort Lauderdale FL USA, Return - Halifax CA;
     Chief Scientist Dr Th. Wever, FWG, Kiel, Germany.
2. Grades so far, but not including the MidTermTest are posted up on D2L.
    Please notify Evan or me of any discrepancies immediately.
3. More misc notes on the Major Project:
    A. Where you should be NOW !
    B. (i). Announcements; (ii). Directives on projection to use in GIS; units, maps graticules, etc
1 Apr 20131. Lecture - cont, see 18 Mar Lecture
2. Lecture chalkboard JPGA 
3. 'Oceans  Anthropocene / Acidification'
    exercise PDF
4. Exercise planning chalkboards JPGC JPGD
1. Same PPT/PDF files as 18 Mar 2013 lecture: Eddy Viscosity and turbulence
2. Chalkboard with vocab, diagram, etc
3. Instructions and answers layout sheet for the exercise 

4. Subject divisions and names
18 Mar 20131. Mid Term test.
2. Lecture - EddyViscosity PDF
3. ChalkBoards  JPGA JPGB
1.  Completed
2.  Eddy Viscosity and turbulence
3. Misc jottings incl. for Eddy Viscosity vocabulary items
15 Mar 20131. Extra books now in Benson library reserve
2. Notes on the forthcoming MidTerm test

3. Revision Q&A chalkboards JPGA, JPGB

1. An extra copy of Collings 'Ocean Circulation' (total  2) and of Garrison 'Oceanography' (3)
2. a) 1 hour duration; b) 50% will be questions you have met before in assignments; c) please bring ruler, etc.
    d) Please be prompt at the start of class on Monday. A 1-hour lecture will follow.
3. Drawings made during the Q&A session 15Mar2013
    Note: Curl not described accurately here: It is: curl
13 Mar 2013Mid term Study Guide PDFThis posting is complete.
Please note that it is only a checklist, not a source of understanding.
11 Mar 20131. Revision Exercise PDF
2. Chalkboards from working through that JPGA, JPGB, JPGC
1. Mostly concerned with surface ocean circulation topics; due at end of session Fri 15Mar2013
2. Scribblings and workings on the problems - sorry for the messy layout.
8 Mar 20131. Lecture - Equatorial oceanography PDF
2. Chalkboards JPGa, JPGb
1. Equatorial circulations, Kelvin waves, ENSO
2. Jottings made during the lecture, incl 2 questions for long consideration (q1, q2), review of course aims
6 Mar 2013No lecture, just prac-
6 Mar 2013The Plan aheadWith the Mid-Term Test on 18th March (a Monday), we'll devote the session on 15th March (a Friday) to
revision - Q&A - and some set questions like those that will be in the exam. Your grades so far will be released
to d2l on 10th March, giving you a guide to progress.
The cut-off for study subjects that could be covered in the test will be Ocean Circulation (surface and deep),
finishing on 11th March (a Monday). After the 1-hour Mid-Term test on 18th March, you will be able to continue
with Major Project.
In the second half of term we will be covering waves, tides, turbulence, acidification, sedimentation,
equations of motion, human impacts.
4 Mar 20131. Major Project materials URL
  1a. Instructions and written guidance PDFA
  1b. Suggested subheadings PDFB
  1c. Sources of data  PDFC
  1d. How to get the data PDFD

2. Folders 
  2a. Example past projects URLA
  2b. Folder with real EIS examples  URLB

3. List of People|Projects|Positions  JPG1
1. A folder of documents supporting the EIS Major project
  1a. Page 2 is the instruction; pp 1,3.. are guidance.
  1b. A layout of suggested subheadings
  1c. A catalog of the main types of data that you may need, and the sources.
  1d. Detailed instructions on how to extract, save and show data from the various sources.

2. Folders with relevant documents
  2a. Selected last year 4060/5060 projects
  2b. Real EIS Documents that may be of interest

3. Chalkboard compilation
1 Mar 20131. Lecture on Vorticity PDF
2. Chalkboards JPG1, JPG2
1. Vorticity, flow coordinate systems, western intensification and the Gulf Stream
2. Chalkboard scribbles from during the lecture
25 Feb 20131. Chalkboards (only) JPGA, JPGB1. Geostrophic equilibrium and calculation
22 Feb 20131. Lecture (see previous PDFB)
2. Chalkboards JPG_A, JPG_B
3. Chalkboard JPG_C
4. Class Exercise PDFA
1. Ocean surface currents, Ekman effect
2. Chalkboards (lecture sketching)
3. Chalkboard - An example Logic Chain for slope failures
4. Ocean surface currents and geostrophy (only Q's 1,2,4 for now).
20 Feb 20131. Chalkboard JPG1. Explanation of the nested IF structure in EXCEL, to test if Salin, Temp, Depth data in the Greenland fjord
 is out of range for Practical Salinity Scale (PSS). Make a new column, start an "=IF(test,true,false)" function,
 put details in like "=IF(S>=30,nextIf,"Fail!"; put more IF's in at nextIf; copy the finished function
 down the column and observed where "Fail!" appears)
19 Feb 20131. Lecture (see previous session's PDFB)
2. Session chalkboards JPGA, JPGB
1. Surface Ocean Currents
2. Chalkboards (doodlings including ROMS model processes)
15 Feb 20131. Lecture A  PDFA
2. Lecture B  PDFB
3. Session chalkboards JPGA, JPGB
1. Extra small lecture topics at this stage
2. Surface Ocean Currents
3. Chalkboards
11 Feb 20131. Lecture - Salinity  PDF
2. LabEx PDF
3. Emails
1. Salinity and instrumentation
2. Real Oc data from Kangerdlugssuaq Fjord, Greenland - The DS1 data file is in good order now.
3. Please check your emails for 10/11th Feb 2013.
8 Feb 20131. Lecture (see 1Feb2013 lecture)
2. Chalkboards JPG1
1. Heat and temperatures cont.
2. a. Jottings from the lectures; b. coastal climate scenario (see 15Feb "3...  JPGA, JPGB")
4 Feb 20131. No lecture
2. Set Exercise 3 PDF
1.  -
2. Revision and example questions.
1 Feb 20131. Lecture - Coordinates PDF
2. Lecture PDF
3. Chalkboard JPG
1. Coordinates for the Oceans
2. Heat and temperatures
3. Jottings from the lecture
29 Jan 20131. Study Guide A PDF1. For the course so far (will be updated to include 1 Feb, then new one started)
29 Jan 20131. Date for the Mid-term Exam.
2. Arrangements for grading in the course:
1. As agreed... Monday 18 March 2013, 2pm in the usual lecture room. Chalkboard PDF

2. As agreed...
               Mid Term Test 15%Final Test 15%
Large Project 25%Presentation Paper 15%
Participation 10%Lab Exercise 20%
28 Jan 20131. Lecture (same as Lect 1, 25 Jan 2013)
2. Mini lecture PDF
3. Chalkboads JPG1 JPG2 JPG3
1. Ocean Margins (long lecture) continued
2. Analysis of Slope failures
3. Board scribblings and diagrams:
a.  Course Grading arrangements and some vocab; b. Slope failure analysis; c. Slope failure calculation, more vocab.
25 Jan 20131. Lecture - Ocean Margins PDF
2. Chalkboards JPG3a, JPG3b
3. Home/Lab Exercise PDF
1. Ocean Margins (long lecture)
2. Chalkboards (a) In lecture ; b. Hydrothermal vent topics chosen by student pairs.
3. Homework/Lab Exercise: Temperature question, Hydrothermal vent topics
18 Jan 20131. Lecture - Plate tectonics PDF
2. Chalkboard JPG
1. Plate tectonics (2hr lecture)
2. Some vocabulary
14 Jan 20131. Introductory Lecture PDF
2. Seafloor Mapping PDF
3. Lab exercise - echogram PDF
4. Chalkboards JPG1a, JPG1b
1. Some details of the course, background on geological time, depth of ocean, depth zonation, an example of a major ocean event
2. Evolving technologies for mapping ocean depths: sounding leads, echo sounders, sidescan sonars, multibeam sonars
3. The practical exercise - more assistance will be available at Office Hours. The work is due 22 Jan 2013 to my mailbox
4. These show vocabulary, some concepts like an echogram, the depth zonation, Antarctic Icecap origin, beam steering.
     Check them out in textbooks, on web.
14 jan 20131. Information on the course PDF1. Note that Office hourse have been chosen for 1000-1150h on Wednesdays, back room of Benson Library or another signposted location in Benson.

Chris Jenkins, INSTAAR CU