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and Quick Quickest This lecture is based upon the paper by B. P. Leonard, deriving the QUICK and QUICKEST methods. Note that we have already derived these methods via a different path in previous lectures. Take a look at Leonard s Equation 23. Renaming the variables to match my notation, we have: r = 1 ( C + R ) 1 ( L + R 2 C ) = 1 ( i + i +1 ) 1 ( i 1 + i +1 2 i ) 2 8 2 8 or 3 3 1 r = i +1 + i i 1 8 4 8 Look familiar? Notice that QUICK is one of those instances where you get something by thinking about practical bounds on the wave number in the stability analysis. Basic Approximations in Leonard s Derivation If you are having trouble with Equations 49 through 51, remember that they work from the assumption that the density is a quadratic function of x. For example, if I need to know the density near the face between volumes i and i+1, I work with the first three terms of a Taylor series expansion about the face. ( x ) = r + ( x x r ) x xr 2 1 2 + ( x xr ) 2 x2 xr To simplify notation Leonard introduced a new space variable . A positive sign of this new variable corresponds to the upstream direction. He s avoiding use of x in this context, since that denotes the length of the spatial mesh. The two derivatives in the expression are approximated by finite difference, giving: ( ) = r i +1 i x + 1 2 i +1 + i 1 2 i 1 = r GRADr + 2 CURVr 2 x 2 r = xr x Dealing with Time Derivatives Assume that a spatial density distribution is advected without change shape. in The time history of density at the right face can be obtained using the density profile at the beginning of the time step upstream of the face. The relationship between time and space variables in these two ways of viewing density is: d = V dt. So the time integral converts to a space integral as follows: t (t )dt = 0 V t ( )d 0 V t 12 r GRADr + CURVr d = 2 0 V t 2 1 3 r GRADr + CURVr = 2 23 0 (V t ) 2 CURV V t V t r GRADr + r 2 6 or in terms of the material Courant number c, we have t ( c x ) 2 CURV c x r (t )dt = c x r 2 GRADr + 6 0 Error Cancellation in the Presence of Source Terms Consider a mass conservation equation that might result from multi-phase or reacting flow: +V = S (x,t) t x If the mass source term S(x,t) is small compared to the mass flux term then the Quickest difference formula is a reasonable approximation. However, in many such problems a quasi-equilibrium exists with: V S (x,t) x Hence, the substitutions imbedded in Quickest: 2 = V , =V t x t2 2 2 3 , = V x2 t3 2 3 x3 are no longer valid. Use of a vanilla Quickest difference operator for flux terms does not give higher order accuracy. Be cautious of any numerical solution of flow equations that advertises both the Quickest difference method, and the ability to model multi-phase and/or reacting flows.
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Penn State >> M E >> 523 (Spring, 2008)
To demonstrate the semi-implicit numerical method, we consider a simplified model for 1D, single-phase flow in a pipe. The differential equations for this model are listed below. + V = 0 , t (2 - 86) (2 - 87) and e + eV = p V + h(Tw T ...
Penn State >> M E >> 523 (Spring, 2008)
Iterative Solution of Linear Equations Preface to the existing class notes At the risk of mixing notation a little I want to discuss the general form of iterative methods at a general level. We are trying to solve a linear system Ax=b, in a situation...
Penn State >> M E >> 523 (Spring, 2008)
von Neumann Stability Analysis of Explicit Flow Equations The figure below indicates the notation that I will use for spatial location subscripts. For this example the length of a volume x is assumed to be constant. j-3/2 j-1/2 j+1/2 j-2 j-1 j j+...
Penn State >> M E >> 523 (Spring, 2008)
ALLENS METHOD Introduction Assume we have an equation where both the first and second derivative are present d 2T dT a ( x ) 2 + b( x ) + c ( x )T = d ( x ) dx dx A, b, c and d are piecewise continuous in the interval The differential equation is...
Penn State >> M E >> 523 (Spring, 2008)
PREDICTOR-CORRECTOR METHOD INTRODUCTION Basic Principle Uses Two Steps Predictor (Implicit) Form the finite difference equation and the error term at each node using the Taylor Series Method (DEM) Solve the set of finite difference equations to f...
Penn State >> M E >> 540 (Fall, 2008)
PREDICTOR-CORRECTOR METHOD INTRODUCTION Basic Principle Uses Two Steps Predictor (Implicit) Form the finite difference equation and the error term at each node using the Taylor Series Method (DEM) Solve the set of finite difference equations to f...
Penn State >> M E >> 523 (Spring, 2008)
Higher Order Finite Difference approximation to Boundary This describes derivation of a second order derivative at the edge of a finite volume based on volume center information from two volumes on the same side of the edge. Subscripts used in the de...
Penn State >> M E >> 523 (Spring, 2008)
...
Penn State >> M E >> 540 (Fall, 2008)
...
Penn State >> M E >> 523 (Spring, 2008)
NON-ORTHOGONAL GRID A. TRIANGULAR GRID INTERIOR NODE Heat Conduction & 2 T 2 T q c T = + 2+ 2 k k t y x (Transient) Two Dimensional Form of Taylor Series T(x,y) T (x O + x, y O + y) = TO + x T x + y O T y + O x 2 2 T 2! x 2 O + x y 2...
Penn State >> M E >> 523 (Spring, 2008)
The Alternating Direction Implicit (ADI) Method ADI is actually a family of methods. In its simplest form ADI consists of the following two equations, evaluated at each time step. ~ n+1 ~ n+1 ~ n+1 ~ n+1 n n n n 1 Ti , j Ti , j Ti , j +1 2 Ti , j ...
Penn State >> M E >> 523 (Spring, 2008)
Implicit Solution Maximum Temperature 650 600 550 500 T (K) 450 400 dt=0.001 dt=0.05 dt=0.1 dt=0.2 dt=0.4 350 300 0 1 2 Time(s) 3 4 5 ...
Penn State >> M E >> 523 (Spring, 2008)
Iterative solution of Linear Equations Introduction Procedure general 1) Assume initial values for the variable field 2) Use the nodal finite difference equations one at a time or in groups to obtain an improved value for the variables. Repeat the p...
Penn State >> M E >> 540 (Fall, 2008)
Iterative solution of Linear Equations Introduction Procedure general 1) Assume initial values for the variable field 2) Use the nodal finite difference equations one at a time or in groups to obtain an improved value for the variables. Repeat the p...
Penn State >> M E >> 523 (Spring, 2008)
Basic Euler Equations for 1-D Flow + V = 0 t , e + eV = p V + h(T w T ) t V 1 + VV = p KV V . t , Here, K is a wall friction coefficient that may be a function of velocity and fluid properties, h is a heat-transfer coefficient multiplied ...
Penn State >> M E >> 540 (Fall, 2008)
Basic Euler Equations for 1-D Flow + V = 0 t , e + eV = p V + h(T w T ) t V 1 + VV = p KV V . t , Here, K is a wall friction coefficient that may be a function of velocity and fluid properties, h is a heat-transfer coefficient multiplied ...
Penn State >> M E >> 523 (Spring, 2008)
Time Error Cancelation with Diffusion Term This derivation is a variation on the method of undetermined coefficients. The Taylor expansions that we need are: ip1 = i + n=1 4 x ddxi n! n n im1 = i + n=1 4 ( x) nddxin n! im2 = i + ...
Penn State >> M E >> 540 (Fall, 2008)
Time Error Cancelation with Diffusion Term This derivation is a variation on the method of undetermined coefficients. The Taylor expansions that we need are: ip1 = i + n=1 4 x ddxi n! n n im1 = i + n=1 4 ( x) nddxin n! im2 = i + ...
Penn State >> M E >> 540 (Fall, 2008)
Derivation of a Higher order Upwind. Results of our stability analyses show that central differencing for the advection terms isn\'t a very good idea. Pure upwind differencing (w=0) is very stable, but formally first order accurate. Let\'s try for a hi...
Penn State >> M E >> 540 (Fall, 2008)
Iterative Solution of Linear Equations Preface to the existing class notes At the risk of mixing notation a little I want to discuss the general form of iterative methods at a general level. We are trying to solve a linear system Ax=b, in a situation...
Penn State >> M E >> 540 (Fall, 2008)
...
Penn State >> M E >> 540 (Fall, 2008)
Iterative solution of Linear Equations Introduction Procedure general 1) Assume initial values for the variable field 2) Use the nodal finite difference equations one at a time or in groups to obtain an improved value for the variables. Repeat the p...
Penn State >> M E >> 540 (Fall, 2008)
Basic Euler Equations for 1-D Flow + V = 0 t , e + eV = p V + h(T w T ) t V 1 + VV = p KV V . t , Here, K is a wall friction coefficient that may be a function of velocity and fluid properties, h is a heat-transfer coefficient multiplied ...
Penn State >> M E >> 560 (Fall, 2008)
ME 560 DIGITAL PROCESS CONTROL SPRING 03 COURSE: ME 560, Section 1: Digital Process Control Lecture: T R 11:15A - 12:30P, 202 E E WEST Lab: Schedule Attached, 243 Reber M E 560 DIGITAL PROCESS CONTROL (3) Analysis and design of control systems wi...
Penn State >> B M B >> 401 (Fall, 2008)
BMB 401 Spring EXAM 1 February 6, 2003 1. Which of the following could be used to detect any amino acid upon elution from a gel-filtration column a. ninhydrin b. dithiothreitol c. DTNB d. 2-mercaptoethanol e. none of the above 2. Which of the followi...
Penn State >> B M B >> 401 (Fall, 2008)
BMB 401 EXAM 2 March 06, 2003 Please write your name on your exam sheet and turn it in with your Scantron sheet! Do not forget to include your student ID on the Scan Tron Sheet. It is not necessary to include a section number. People whose last names...
Penn State >> B M B >> 401 (Fall, 2008)
Strategies in Enzyme Catalysis As stated earlier, the role of a catalyst is to decrease the energy of activation of a reactionthe energy necessary to attain the transition state. Several themes recur in enzyme catalysis. Catalysis by approximation G...
Penn State >> B M B >> 401 (Fall, 2008)
Fat Soluble Vitamins Vitamins are compounds that must be obtained from the diet, because they cannot be synthesized de novo. They are essential for the health of humans and other vertebrates because they are typically precursors to cofactors that fun...
Penn State >> B M B >> 401 (Fall, 2008)
EnzymesDisplaypHOptima ThepHofasolutioncanaffecttheoverall activityofanenzymeinanumberofways. Theunravelingofthetertiarystructureofa proteinoccursatextremesofpH.Thisiscalled denaturation,andisdueinparttothe disturbanceofnormalhydrogenbonding patter...
Penn State >> B M B >> 401 (Fall, 2008)
EnzymeSpecificityandRegulation Incellularmetabolism,groupsofenzymescanformapathway,orworktogethertocarry outagivenmetabolicfunction.Thesepathwaysneedtoberegulatedinordertoallow thecelltomeetitschangingneedsforenergyorcertainbiomolecules. Regulationi...
Penn State >> B M B >> 401 (Fall, 2008)
PhosphorylTransfer Inbiologicalsystems,theelement phosphorousalmostalwaysexistsas phosphate.Phosphorousisstableinseveral differentoxidationstates,butinphosphate,the oxidationstateis+5.Therefore,the phosphorousatominphosphatewillalways behaveasanelec...
Penn State >> B M B >> 401 (Fall, 2008)
BMB 401 (2003) Make-up Exam #2 1. Describe the predominant forces that are responsible for maintaining primary structure, secondary structure, tertiary structure, and quaternary structure in a protein (15 points). 2. If the following section of a pol...
Penn State >> B M B >> 401 (Fall, 2008)
BMB401(Spring2003) IntroductiontoBiochemistry Professor:Dr.SquireJ.Booker GeneralInformation TA: David Iwig, 331 South Frear, 5-8794, Email: dfi101@psu.edu Office Hours: 10:00 1 1:00 am Thur. TA: Robert Cicchillo, 331 South Frear, 5-8794, Emai...
Penn State >> B M B >> 401 (Fall, 2008)
Problem Set #4 BMB 401 Spring 2003 Problems from Lehninger: 1, 2, 3, 4, 6, 7, Problem 1 Identify the distal and proximal histidines in hemolglobin / myoglobin, and summarize their roles in the respective protein\'s function. Problem 2 Explain from ...
Penn State >> B M B >> 401 (Fall, 2008)
StrategiesinEnzymeCatalysis Asstatedearlier,theroleofacatalystistodecreasetheenergyofactivationof areactiontheenergynecessarytoattainthetransitionstate. Severalthemesrecurinenzymecatalysis. Catalysisbyapproximation Generalacid,generalbasecata...
Penn State >> B M B >> 401 (Fall, 2008)
Problem Set #6 BMB 401 Spring 2003 Problems from Lehninger: Chapter 9: 2, 3, 4, 5, 7, 9, 10, 11, 15, 16 Chapter 11: 1, 2, 4, 5, 7, 9, 10, 13 Chapter 12: 3, 4, 5, 12, 14, 15, 17 Problem 1 The open chain structure for D-Fructose is shown below as its ...
Penn State >> B M B >> 401 (Fall, 2008)
Department of Biochemistry and Molecular Biology Pennsylvania State University Syllabus for BMB 401 (Spring 2003) Spring 2003 Tues. 5-8793, Email: sjb14@psu.edu Off...
Penn State >> B M B >> 401 (Fall, 2008)
...
Penn State >> B M B >> 401 (Fall, 2008)
BMB 401 EXAM 2 March 22, 2001 1. The linear arrangement of amino acids in a protein via peptide bonds is referred to as which of the following. a. The protein hydrolysate. b. The proteins primary structure. c. A posttranslational modification. d. The...
Penn State >> B M B >> 401 (Fall, 2008)
Enzymes Twofundamentalconditionsforlifearethat1)alivingentitymustbeabletoself replicate,and2)alivingentitymustbeabletocatalyzechemicalreactionsefficiently andselectively. Almostallbiochemicalprocessesarecatalyzedbyahighlyspecializedclassofproteins,...
Penn State >> B M B >> 401 (Fall, 2008)
Lipids Lipidsarehighlyreduced(i.e.oxidationreduction)carbonrichsubstancesthatareinsolublein water. Thefunctionsoflipidsinthecellarediverse. StorageLipids Triacylglycerols Phospholipids Glycolipids MembraneLipids Reading:LehningerChapter11p...
Penn State >> B M B >> 401 (Fall, 2008)
The Glycosidic Bond Two sugar molecules can be joined in tandem, when a hydroxyl (alcohol) group of one sugar displaces the hydroxyl group on the other sugars anomeric carbon. The bond formed is called a glycosidic bond. In forming the glycosidic bo...
Penn State >> B M B >> 401 (Fall, 2008)
Overview and Themes of Protein Structure The three-dimensional structure of a protein is determined by its primary sequence. A proteins function is dictated by its primary sequence. Any isolated protein of a given primary sequence will have a uniq...
Penn State >> B M B >> 401 (Fall, 2008)
Protein Purification Before any particular protein can be sequenced and characterized, its is necessary to separate it from all of the other proteins in the cell. This purification process involves separating proteins based on their ionic propertie...
Penn State >> B M B >> 401 (Fall, 2008)
BMB 401 Make-up Exam #1 Please write your answers legibly and in proper order for full credit. Problem 1 (10 points) Give two reasons why biomolecules, and therefore life are carbon based. Problem 2 (20 points) Discuss the hydrogen bonding pattern i...
Penn State >> B M B >> 401 (Fall, 2008)
Carbohydrates Of the macromolecules that we will cover in this class, those involving carbohydrates are the most abundant in nature. Via photosynthesis, over 100 billion metric tons of CO2 and H2O are converted into cellulose and other plant product...
Penn State >> B M B >> 401 (Fall, 2008)
ClassesofProteins EnzymesThelargestclassofproteins.Theseproteinsarecatalysts.Theyacceleratetheratesof thevariousbiologicalreactionsthattakeplaceinthecell.Almosteveryreactionthatoccursin biochemistryisfacilitatedbysomesortofenzyme.Theyaretypicallynam...
Penn State >> B M B >> 401 (Fall, 2008)
BMB 401 Exam 3 April 17, 2001 1. What are the units of the rate constant (k) for the following elementary step? k A+B+C Products a. b. c. d. e. sec-1 M-1sec-1 Msec-1 M-2sec-1 Msec-2 2. The combination of oxygen with myoglobin is described by the fol...
Penn State >> B M B >> 401 (Fall, 2008)
The Peptide Bond What allows amino acids to polymerize to form peptides and proteins is the unique covalent linkage called a peptide bond. The bond is the result of a head to tail condensation of the amino group of one amino acid and the carboxyl gr...
Penn State >> B M B >> 401 (Fall, 2008)
Lipids Lipids are highly reduced (i.e. oxidation-reduction) carbon-rich substances that are insoluble in water. The functions of lipids in the cell are diverse. Storage Lipids Triacylglycerols Phospholipids Glycolipids Membrane Lipids Read...
Penn State >> METEO >> 414 (Fall, 2008)
Bombs Away! A look at an occluded low pressure system off the eastern coast of the United States Anthony Chipriano Overview on occluded low pressure systems Slang for an occluded low is called a bombed low. Most winter weather fanatics like to see t...
Penn State >> METEO >> 471w (Fall, 2008)
Bombs Away! A look at an occluded low pressure system off the eastern coast of the United States Anthony Chipriano Overview on occluded low pressure systems Slang for an occluded low is called a bombed low. Most winter weather fanatics like to see t...
Penn State >> METEO >> 440w (Fall, 2008)
Paramaribo, Suriname Amplitude (% of mean) (Total Lamina) 25 20 Altitude 15 10 5 0 0 20 40 60 Amplitude 80 100 Paramaribo, Suriname Frequency (% of soundings) (Total Lamina) 25 20 Altitude 15 10 5 0 0 20 40 60 Frequency 80 100 Paramarib...
Penn State >> METEO >> 440w (Fall, 2008)
Sable Island, Nova Scotia Lamina Amplitude (% of mean) (Total Lamina) 25 20 Altitude 15 10 5 0 0 20 40 60 Amplitude 80 100 Sable Island, Nova Scotia Lamina Frequency (% of soundings) (Total Lamina) 25 20 Altitude 15 10 5 0 0 20 40 60 Fre...
Penn State >> METEO >> 440w (Fall, 2008)
Adventures in Satellite Validation The AURA Satellite - Study Trace Gases as they apply to pollution and climate -Ozone Monitoring Instrument -Microwave Limb Sounder OMI and TTOR Troposphereic Ozone Column to 200 mb - TTOR version 1.3, 1.4, and Ozo...
Penn State >> METEO >> 440w (Fall, 2008)
SHADOZA TROPICAL OZONESONDERADIOSONDE NETWORK FOR THE ATMOSPHERIC COMMUNITY BY ANNE M. THOMPSON, JACQUELYN C. WITTE, SAMUEL J. OLTMANS, AND FRANCIS J. SCHMIDLIN A new observing network reveals complexities of tropical ozone while providing an int...
Penn State >> METEO >> 440w (Fall, 2008)
Literature Review: Impacts of background ozone production on Houston and Dallas, TX Air Quality during the TexAQS field mission R. Bradley Pierce (NOAA/NESDIS), Jassim Al-Saadi (NASA/LaRC), Chieko Kittaka (NASA/LaRC), Todd Schaack (UW/SSEC), Allen Le...
Penn State >> METEO >> 440w (Fall, 2008)
Launching Site (name, country) Min Date (most recent) 1/1/1992 1/1/1978 7/16/1977 1/18/1977 11/22/82 Max Date (most recent) 12/28/2002 6/30/1991 7/31/1977 5/23/1989 12/20/2006 Site Files 174 175 176 177 178 Sestola, ITA Neuglobson, DEU Ft. Sherm...
Penn State >> METEO >> 440w (Fall, 2008)
January 2008 - Outline, Syllabus Meteo 597E: Remote Sensing of the Earth System Outline Meeting 1325-1555 Wednesdays in Dieke Room 4 Instructors: Dr. Anne M. Thompson, amt16@psu.edu Phone: 814-865-0479 Room: 510 Walker Bldg Office Hours: Wed., Thurs,...
Penn State >> METEO >> 440w (Fall, 2008)
Fire/Pollution Sources Fire/Pollution Sources Determining the potential sources of enhancement to tropospheric ozone by using back trajectories and fire maps Broken down into 3 general categories Siberian Fires Asian Pollution/California Fires ...
Penn State >> METEO >> 440w (Fall, 2008)
Project Goal Reduce costs due to forecast error Identify costs associated with AQ forecasting Devise methods that produce forecasts with minimum cost Apply methods to everyday AQ forecasts Improve NAQFS forecast Evaluate NAQFS and identify pro...
Penn State >> METEO >> 440w (Fall, 2008)
JOURNAL OF GEOPHYSICAL RESEARCH, VOL. 111, D01301, doi:10.1029/2005JD006241, 2006 Enhanced view of the tropical Atlantic ozone paradox and zonal wave one from the in situ MOZAIC and SHADOZ data B. Sauvage,1 V. Thouret,1 A. M. Thompson,2 J. C. Witte,...
Penn State >> METEO >> 440w (Fall, 2008)
Reassessment of Tropospheric Ozone due to Fires/Pollution Stephan Gallagher Motivation The contribution to the total tropospheric ozone of these sources can be accurately determined: Boundary Layer Regional Convection and Lightning (Gravity Wa...
Penn State >> METEO >> 440w (Fall, 2008)
Resolute, NU Amplitude (% of mean) (Total Lamina) 25 20 Altitude 15 10 5 0 0 20 40 60 Amplitude 80 100 Resolute, NU Frequency (% of soundings) (Total Lamina) 25 20 Altitude 15 10 5 0 0 20 40 60 Frequency 80 100 Resolute, NU Amplitude (%...
Penn State >> METEO >> 440w (Fall, 2008)
Panama TC4 Site Survey Gator Team Meeting 11 April 2007 Site 1: Finca Cerro Site 1: Finca Cerro Location: 7.754533N, 80.25255W in Santo Domingo ~3 km south of Las Tablas privately owned by retired teacher Advantages: 360 view for radar outside o...
Penn State >> METEO >> 440w (Fall, 2008)
So what exactly DID David do this summer? or How I learned to stop worrying and start loving remote sensing David Doughty So what exactly is Assimilated Data? Model (GEOS-CHEM) Compare to Measured data OMI & MLS Initial Quick Look A few Typica...
Penn State >> METEO >> 466 (Spring, 2008)
Lecture 12: Venus Atmosphere and Surface Meteo 466 Venus: Physical data Sidereal rotation period : -243.01 Earth days (retrograde) Orbital period: 224.7 Earth days Venus day: 116.75 Earth days Synodic period: 583.92 Earth days (= 5.001 times Ven...
Penn State >> METEO >> 466 (Spring, 2008)
Chapter 15: Prospects for the more distant future The two TPF, or TPF/Darwin missions described in the previous chapter could go a long way to answering some of our fundamental questions about whether other Earthlike planets exist and whether some of...
Penn State >> METEO >> 466 (Spring, 2008)
Lecture 24 Transits and Upcoming Space Missions Meteo 466 Transiting planets If a planets orbital plane is nearly aligned with the observer on Earth, then the planet may transit its star, i.e., it passes in front of the star (and behind it) Transi...
Penn State >> METEO >> 466 (Spring, 2008)
Lecture 15SNC Meteorites/Loss of Heavy Gases from Mars Meteo 466 Mars avalanche in progress Active avalanche photographed by the Mars Reconnaisance Orbiter (MRO) near the martian north pole, Feb. 19, 2008 http:/www.cnn.com/2008/TECH/space/03/03/ma...
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