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EFDC_Explorer3 Users Guide - CEFD

1. Elevation m 8 1000 1500 4000 6500 9000 11500 14000 Distance m Figure 5 2 Example grid profile plot The Time Step History button provides a time series plot of the internal time step that EFDC used for the simulation being reviewed This is of particular interest only when dynamic time stepping was used for the simulation DS International LLC 5 2 EFDC_Explorer The Water Surface Profile button extracts a profile using the settings in the Profile Location Option frame and then displays the results Two lines are shown one for the water surface elevation and the other for the bottom The user can scroll up and down along all the Snapshot times by pressing the PgUp and PgDn keys using a snapshot increment of 1 Larger Snapshot increments are available using the Shift key for increments of 10 and the Ctrl key for increments of 100 Many other functions are available by pressing F1 See Section 9 for a detailed explanation of how to format and use XY Times Series graphs An example water surface profile is shown in Figure 5 3 Cedar Ortega St Johns River
2. 0 cccecceccecseceeceeceeceeceeeeeeeseeceeseeseeeceeseeseeaes 6 3 Cartesian gridding Expanding amp rotated grid ccccccccccecceeeeeeceeeeeeeeeeeeeeeeeseees 6 5 Expanding Cartesian grid example of San Francisco Ba ccccsceeeeeeeeeeeeees 6 6 Generate new model options form showing the curvilinear option 006 6 8 Curvilinear grid generation example for Cedar RIVEL ccccccceeeeeeceeeeeeeeeeeees 6 8 Grid generation Import Delfts RGFGrid 0 0 0 0 cece cccccecceeeceeeeeeceeeeeseeeeeeseeesaees 6 9 EFDC_Explorer Figure 7 1 Model results loading Options cccccccseeceeeceeeeeeeeeeeeceeeeeeseeeeueeeeeaeeseeeneeseeeneees 7 3 POWO T ab Mam thot ct eda wauinatroaciaadnenuamednescianiaepenssaseselenass pense a AOA aait 1 4 Figure 7 3 Cell Information example acct sacensccecsderancorasamaesesunnianoascnierounaigacbaanigueasaeenbasatgunedinnniaes 7 5 Figure 7 4 Modify Cell form with bed layer sediment mass Sub option cccceeeeeeeeeeees 7 6 Fow er i ariiraa A pendence nied EAA EA A EA A 7 9 Figure 7 6 Tecplot export timing OPTIONS ccc cc cccceccecceceeceeceeceeceeaeeeeceeceeseeeeeeeeeseeeeeees 7 11 Figure 7 7 ViewPlan Display Options General Options ccccccecceeceeceeeeeeseeeeeeeeeeeeeeees 7 14 Figure 7 8 ViewPlan Display Options Velocity Boundary Conditions ccceeceeeeeeeees 7 15 Figure 7 9 ViewPlan Display O
3. From To Model Range SES AE View Flange 1826 00 jz 91 00 J gt G Parameter water Quality Sub Parameter s AmA Return View Figure 4 51 View loadings options form DS International LLC 4 48 EFDC_Explorer 0 14 0 12 0 10 Total P MT Day Legend Group Reach 1 Group Reach 3 0 08 Group Reach 2 Group Distributed Reach 4 Group WWTF 0 06 0 04 he 0 02 Jan 04 Feb 04 Mar 04 Apr 04 May 04 Jun 04 Jul 04 Aug 04 Sep 04 Oct 04 Nov 04 Dec 04 Date Figure 4 52 Example of mass loading plot for Total Phosphorus TP 4 12 6 Boundary Condition Group Editing Form The editing of boundary condition groups is handled by the Modify Edit BC Properties form Figure 4 53 which is accessed by the Edit button shown in Figure 4 49 The same form is used for all boundary condition types but the specific information contained in the form varies depending on the boundary type selected by the user The individual boundary conditions type are explored in the sections following The top frame contains general information on the number of groups the current group number and type and the current boundary group s ID The next frame contains the cell specific information for the current groups and t
4. Figure 4 15 Cell property assignments Vegetation map with IDs Test Reach Model Cartesian Grid 5m Vegetation Map 1 9 Figure 4 16 Example vegetation map assignment DS International LLC 4 14 EFDC_Explorer 4 6 Sediment Toxics and Other Parameters Figure 4 17 shows an example of the Sed Tox Others tab which allows setting for sediment toxics dyes tracer tools and heat temperature Each of the major sections is discussed in the following subsections WO General Benthy Mutrierits Algaerw O IC s WOBC Misc Initial Boundary Timing amp Labels Grid amp General S ed T ox Others Sediments amp Sediment Bed Settings Toxics Dye Age of Water Mdi Mo o Bank Erosion Heat Temperature Tracer Tool cabled Modify Bed Thermal Options Then of Layers f of Bank Channel Pairs Mal 3 Total Thick m 2 H of Time Series Nal EQ Transfer Coeff l mooo Use TEMBP INP Modity 0 Figure 4 17 Tab Sed Tox Others 4 6 1 Sediments The sediment transport parameters and options are set using the forms shown in Figure 4 18 to Figure 4 23 The principal settings for the number of sediment classes and bed layers are specified in the top frame under Major Settings As with the toxics these Major Settings parameters should only be changed with care and usually early in the model calibration process so as not to lose your initial and boundary conditions Figure 4 18 shows t
5. Printer setup options Print to current printer the current view Export the current view to a Windows enhanced metafile EMF Toggles amp Options Toggle the grid Show Edit comment boxes Show Hide markers Toggle between Julian date Gregorian date formats Plot Format and Labels Edit text and fonts for the titles r Parameter display options settings Access the X axis options form Fee Bret wE Access the left Y axis options form Access the right Y axis options form ij Set all the axes formats to the one last edited Navigation Functions Zoom in at fixed increments Zoom out at fixed increments Pan Left Pan Right Pan Up Pan Down r Utility Functions Toggle the display of the coordinates Animation tool Output animations to the screen and or AVI files DS International LLC 8 3 EFDC_Explorer 8 4 Function Keys During both Pre and Post Processing of the model it is often helpful to be able edit and analyze the data via a series of 2 D Time Series Graphs The shortcut keys which can be used to edit the graphs are shown in Figure 8 3 This form can be accessed via function key F1 Enhanced Message Bou Pan 2o00m Settings Refresh Arrow Feys Hove Bight Arrow Reyes Hove Left Arrow Eeys Mowe Up Arrow Keyes Hove Down Goto a Specific Date Palm Next Snapshot Time FaoUp Previous Snapshot Time Shift 10 Ctrl 100 View Boxu Wisker Flot Show Lines as CDP
6. point amp click on the model grid Boundary conditions time series intelligent editor and one button plotting Use familiar names to identify and label boundary cells and input time series Label boundary groups on 2D maps and or export group labels to a file for more control over labeling of maps in EFDC_Explorer or GIS applications HSPF model boundary condition interface to quickly import HSPF results to EFDC Generate spatially interpolated time series for open boundary conditions Use concentrations instead of mass loading HEM3D default for the water quality flow type BC groups Pre Processor Mass Balance Boundary Loadings Compute mass balance of various model constituents with plotting and tabular output of time series Plot the boundary condition loadings for various model constituents or some derived parameters like Total Phosphorus Total Nitrogen or Total Carbon Compute average and cumulative loadings using the Averaging and Integration features of the time series plotting utility DS International LLC 1 3 EFDC_Explorer e Generate mass loading summary tables for each simulated parameter Pre Processor Utilities Tracer configuration utility A bitmap geo referencing tool Perform QA checks on input data prior to model runs Merge multiple continuation runs into single data sets Create new model runs from any saved results from previous runs Unix to Windows CR LF conversion Post Processor Gener
7. 1 Data 29 Sep 99 09 04 Model 636 375 1 _ hoa 1 w Elevation m 4 0 8 16 24 Salinity ppt 32 1 Data 13 Jan 00 09 45 Model 742 4167 Elevation m 16 24 Salinity ppt 32 Elevation m 0 8 Elevation m 1 Data 18 Oct 99 10 45 Model 655 4583 16 24 Salinity ppt 32 oaa 24 Feb 00 10 55 Modal 784 4583 16 24 Salinity ppt 32 Elevation m Elevation m yet 29 Nov 99 10 30 Model 697 4583 i _ M 1 w 4 0 8 16 24 Salinity ppt 32 plas 23 Mar 00 09 40 Model 812 4167 titi H 0 0 8 16 24 Salinity ppt 32 Figure 5 21 Example model data vertical profile plot for salinity DS International LLC 5 19 EFDC_Explorer 6 Generate New Model se Ge Si EFDC_ Explorer can generate a new grid and write to disk the essential EFDC model files to begin building an application Figure 6 1 shows an example model generation options form EFDC_ Explorer can quickly generate simple to complex Cartesian grids These grids can be uniform or expanding rotated and trimmed to match the physical domain For more complex grids EFDC_Explorer can import grids generated with e Delft RGFGrid Delft 2006 e Grid9
8. DS International LLC 4 2 EFDC_Explorer If simulating water quality with the full sediment diagenesis option turn on EFDC_Explorer can display the spatial and temporal sediment fluxes and concentrations if the user enables the Sediment Diagenesis Data check box Because the sediment processes are slow as compared to water column processes the user has the option to output the diagenesis data at a slower frequency If the output interval is gt 1 then the sediment diagenesis data will be output as the frequency of Writes per Reference Period Output Interval As an example if the Reference Period is 24 hours the Writes per Reference Period is 24 1 snapshot per hour and the Output Interval is 24 then the sediment diagenesis results will be output once per day 4 1 2 High Frequency Dates The Use High Frequency Dates option is an EFDC_DS option that inserts higher frequency output snapshots into the base snapshot frequency defined in the Writes per Reference Period field above This allows the user to use a larger base snapshot frequency resulting in smaller output files and faster post processing times and still capture specific times in detail This is very useful when matching model results to specific sampling events 4 1 3 Calendar Julian Date Linkage If the user wants to relate the model timing to actual calendar dates the user is required to enter a base date from which the model Julian
9. NO3 Flux Nitrate Flux between SedimentWater PO4 Flux Phosphate Flux between SedimentWater Sica Flux Silica Flux between Sediment Water DS International LLC 7 36 EFDC_ Explorer The Show Zone checkbox overrides the current parameter and shows the diagenesis zones instead For pre processing the zones can be edited using the cell property copy function and the diagenesis parameters can be edited by RMC ing on a cell if Enable Edit is checked The diagenesis parameters that are available for viewing are provided in Table 7 5 The sub options that are available for each parameter are also listed 7 6 12 2 Sediment Flux There are two specified flux options one for invariant fluxes horizontally and Viewing Opt s temporally and another that varies by zones in conjunction with mud sand Sediment Flux gt distributions not linked to the sediment transport sub model uua Le The parameters that are available for display are Flur Options Mud Zone Sand Zone Percent Mud Sediment Oxygen Demand SOD Chemical Oxygen Demand COD Dissolved Available Silica SAD Nitrate NO3 Ammonium NH4 Phosphate P0O4 Time days fi z6 If the temporally varying option was selected the Time days field is displayed to view the nutrient fluxes assigned for that day These are input flux rates not computed flux rates by EFDC 7 6 13 Vegetation Map If vegetation has been activated th
10. Richardson Densimetric Froude DS International LLC 1 EFDC_Explorer Time VEUEN ViewPlan Option Description Sub Options 2D Velocity Vectors Magnitudes Vertical Velocities Flux Tool Top layer Layer Thickness Sediment mass Displays the sediment bed parameter Sediment fraction values for the selected sup option Porosity Computed dso Delta scour deposition Bed Shear Stress Temperature Salinity Temperature Water Density Toxics Dissolved POC bound DOC Complexed Displays the water column Sediments parameters values for the selected Water Quality Yes Ssup option 21 EFDC Parameters Trophic State Index Other Derived Params WQ Kinetic Zones Secchi Depth Irradiance Habitat Analysis Volumetric Analysis Displays velocity vector plots and flux tool Velocity vectors can be overlaid many of the other Viewing Opt s Velocities Yes Sediment Bed Water Column Concentrations of PON POP POC NH4HN NO3 N PO4 P H2S Silica Benthic Stress Sediment Temperature Flux Rates PON POP POC SOD COD NH4 NO3 PO4 Silica Vegetation Map Displays a map of the vegetation Yes classes ModChannel Displays the channel modifier NA showing connectivity Displays the wave parameter values Radiations Shear Stress Displays organic and nutrient sediment concentrations by G class and nutrient fluxes Diagenesis Wave Params for the selected sub option XX Y
11. DO for layer 1 the average of layers 1 4 and layer 4 Once the options have all been set the user must press Show to view the profile The user can save and later reload a set of line definitions using the Save and Load buttons respectively Figure 7 16 shows the longitudinal profile plot resulting from the selections These profiles can be animated to the screen or AVI file using the animate button from the toolbar 12 5 11 0 10 9 5 E 10 g D c gt 155 4 s 2 T 9 20 2 Q 25 ime 10 Aug 94 13 Bottom Elevation 2 Water Surface DO Layer 1 30 DO Layers 1 4 1 D Layer 4 0 35 0 10000 20000 30000 40000 50000 60000 70000 80000 90000 100000 110000 120000 130000 140000 Distance ft Figure 7 16 Water Column longitudinal profile of dissolved oxygen DS International LLC 7 31 EFDC_ Explorer 6 11 2 Water Quality lf water quality is being simulated the Wtr Quality option button is enabled as is the parameter dropdown list In addition to the 22 EFDC water quality parameters EFDC_ Explorer has 26 derived parameters that can also be displayed Table 7 4 provides a complete list of the EFDC and EFDC_Explorer derived parameters The kinetic subroutines in EFDC allow the parameters to be turned on and off depending on the level of detail in a model However when a parameter is not turned on it still has a value i e the initial condition and
12. File _ Browse HSPF File Infornation 4DM Formatted File F SProjects FOE PS Stevenson Creek SHSPFASBSN4 cew Browse DATE FLOW cts VOLUME acre fe TOT N mg LITOT F mg L CHL_A ma L 00 mol TEMP F BOD mg 02 01 99 0 01 0 03 0 67 0 075 0 0 5 58 71 89 3 09 0 05 0 02 0 27 1 16 0 38 0 028 03 01 99 0 01 0 03 0 67 0 075 0 0 5 58 71 89 3 09 0 05 0 02 0 27 1 16 0 38 0 028 04 01 99 10 21 27 06 3 10 0 154 0 1 7 77 63 60 2 00 0 14 0 08 0 56 0 75 2 45 0 018 05 01 99 6 05 16 03 2 39 0 123 0 1 8 41 48 99 1 66 0 11 0 06 0 45 0 63 1 88 0 015 R F Base jo Jan 99 Begin jo Jan 99 End jo vJan U Lines to Skip fi ASCII File Data Delimitor Space Comma Tab Data is not in System Date Format l Apoly tor All Groups Apply to Curent Group Return Figure 4 50 HSPF model results import utility e The of Cols in the Column Offset frame provides a global column offset This may be needed if there is an E in column 1 some HSPF export series use this or some other information in columns before the date column EFDC_Explorer uses the date time columns as the 1 columns from the left after accounting for the column offset The solids are a special case Along the rows the solids classes for HSPF are displayed In the 1 grid column Col the user specifies the data column number that contains the clay silt and sand Then the user assigns weights or
13. Layer Settings Depth Ava X Bot Layer Layer fa Options Salinity f Temperature f Sediments t orice wr Guality Other wt Zones Enable Edit I lt Show Grid Metric H 430 842 5 Y 2 926 455 0 2 Figure 7 18 Viewing Options Water Column Habitat Analysis tool DS International LLC 7 33 EFDC_ Explorer 6 11 5 Volumetric Analysis A Volumetric analysis may be undertaken to determine the volume of water influenced by the selected water column parameter The volumetric analysis is accessed by the Alt C keystroke which displays the input table shown in Figure 7 19 Yolumetric Analysis by WC Ranges l Description Compute Incremental 1 or Total T Yolures Areas lT Display Time Seres rM Display COF s Prem Botton Cutoff Breakpoint 01 Blank or 0 to Skipl Breakpoint 02 Blank or 0 to Skipl Breakpoint 03 Blank or 0 to Skipl Breakpoint 04 Blank or 0 to Skipl Breakpoint 05 Blank or 0 to Skipl Use a Polygon file to subset cells MM f Cancel Figure 7 19 Viewing Options Volumetric Analysis Tool The user may compute the volume area and shoreline length either incrementally or as a total lf Incremental is selected Explorer will calculate from the Bottom Cutoff to Breakpoint 01 then from Breakpoint 01 to Breakpoint 02 and so on If Total is selected then Explorer will calculate from the Bottom Cutoff to each Breakpoint separately T
14. Reduced SOD Factor for Z4 Summan of Model Timing Delta T and Output Options Aun Logging Options H Fer MEE Start Time 2 501 000 id v Use EE Linkage E n aa Time Fet ME End Time 2 866 000 dj Freq ME hrs Modify write to the log file Negative Depth Courant Stepa Ret aan Time Step a z No WO Linkage write EE_ARRAY S OUT Figure 4 1 Tab Model Title Timing and Output The Run Logging Options frame shows various check box options allowing the user to output to the log file which can be read by EFDC_Explorer s Get Runtime button on the main toolbar Checking the Enable Diagnostics causes EFDC to produce a lot of extra output files and adds to the runtime The diagnostic files generated depend on the EFDC options The source code needs to be consulted to determine the content of some of these files These can usually be turned off after initial model testing The Project Title is an optional label that will be displayed on plots and tables Many of the EFDC input files will be stamped with the Project Title and the date time of the file creation The Run Log Notes text box provides a readily accessible free form notepad to record changes and notes concerning each run If used this can provide a complete run history during a calibration process For each run it is recommended to note which prior run you are using for the current run For example Run012 Based on Run011 provides a
15. These l J Map functions are used during the grid generation importing process to correct any model I J orientation issues This function flips the DS International LLC 3 10 EFDC_Explorer numbering direction for either the or the J index If boundary conditions are already assigned the IJ mapping is remapped to the new IJ space Rotate Cell Angles This function applies a rotation to the cell rotation angles It does not rotate the actual cell If using the Corners inp file it just applies a user specified rotation to the cell rotation matrix In EFDC the cell s rotation matrix is used for velocity plots and interaction with the wind field 3 7 Text Editor This button on the toolbar starts the ASCII editor configured in EFDC_ Explorer Settings see Section 3 3 and directly loads certain input files for the current project From the drop down window the user can directly access the input files EFDC INP DXDY INP LXLY INP CELL INP WQ3DWC INP WQPSL INP or WQ3DSD INP In addition the user can select Other INP to access any of the input files in the current project 3 8 Run Model EOE This is the function that actually runs an EFDC project model It does not first save to disk the currently loaded EFDC project prior to running Therefore if the user has made changes that they desire the run to reflect the user must first save the project This function actually builds a batch file saves it in the EFDC E
16. _ Browse Font C View Label H Layers 4 Del x View Cancel OF Figure 7 9 ViewPlan Display Options Annotations When the using the Particle Tracking functions the user is able to configure the display characteristics of the particles in the Particle Tracks tab as shown in Figure 7 10 The user is able to set the Time History of the particles such as whether to display e the entire track to the current time e the entire track for the whole time e the recent history of the track up to a time specified by the user e current position of the particle only In addition to this the user may also specify the width and colors of the tracking lines and set the symbols for the particles DS International LLC 7 16 EFDC_ Explorer Display Options m Time History Exposure Time Line Format Display Entire Track Display Recent History Length of History 0 1736 hrs Current Position of Particle Only Particle Symbol Options Initial Position Current Position Circle Filled Size inches 0 05 a Symbol Color Set to Line Color Change cme Figure 7 10 ViewPlan Display Options Particle Tracks 7 4 General Pre Processing Functions ViewPlan provides access to the visual point amp click editing features of EFDC_ Explorer The features and functions discussed in this section relate to more than one Viewing
17. amp Other Objects To reposition EFDC_ Explorer pop up s the legend labels notes dialog windows and frames the user may left mouse click hold it down and drag it to move the object to another location on the plot If the legend is moved off the display and the form resized so that the legend is no longer visible it will be repositioned to the center of the current view 7 2 1 2 Cell Information Using the mouse point to a specific cell and then left mouse click LMC to display that cell s general information along with the data of the currently selected parameter with any sub options Right mouse click RMC copies this information to the Windows clipboard Figure 7 3 shows an example for salinity Figure 7 3 Cell Information example DS International LLC 7 5 EFDC_ Explorer 2 1 3 Right Mouse Click Right mouse click RMC on the object to perform the following The Legend Brings up the Display Options form A Cell BC Displays the pop up shown which allows the options of editing the cell deactivating the cell or Set as show I J This sets the and J in Run Time Status form within the Grid amp General tab Depending on the BC type clicked the view cell will display the primary boundary condition parameter as well as the corresponding concentrations The view group displays total group flows or fluxes A Cell Edit When displaying the domain with the Enable Edit check box selected except
18. e Predictor corrector Euler method This method has the advantage of explicit and implicit features with the approximation of O At2 e Runge Kutta 4 method This method has the approximation of O At4 It has been determined that the Runga Kutta 4 method is preferred due to its higher level of numerical accuracy It has been shown that the computational burden of the Runge Kutta 4 method is not significant within the overall model run rimes DS International LLC 4 34 EFDC_Explorer Figure 4 39 shows the main tab for Lagrangian Particle Tracking In this frame the user may select one of these three computational methods from the drop down menu The user may also observe the number of drifters set the time for release of the drifters and then end time for the observation of the drifters In order to set the values of related to the drifters the user should select the Options Particle Seeding button This displays the LPT Main Options Tab as shown in Figure 4 40 Within the LPT Computational Method and Timing frame the user may again select one of the three computational methods from the drop down menu as well as set the release day and end day for the particle in Julian days The user may also specify the Output frequency in minutes Langrangian Particle Tracking LPT Options Initial Postion Seeding Utility LPT Computational Method amp Timing Random Walk Options Use Drifters Aunge Kutta Number of Drifters E
19. the user should press the Load Compare button Until this button has been pressed no input or output data for the Compare model is loaded The Load 3 Model button is only used to compare water depths and elevations in ViewPlan The viewing option of Water Depths Areal Extents allows the user to overlay the areal extents and depths as a function of duration and depths for up to three scenarios If using this option the base model should have the largest extents with the second and or third model having the smallest extents A typical example would be to display the areal extents of a 100 year flood the base model a 50 year flood Compare model and a 10 year flood 3rd Model i Compare EFDC Model Results i l X Director IF Proyects s T HPCH ar Hinboun UW pper sModel FloodplansRP1O AP1O O00 Browse Active 10331 H Cols BE Water Layers B Cohesives MA HT oxic E Clear H Rows BE Sed Layers H Non Cohstves Nal Model Results Loading Options Load Water Depth x Load Velocities Legend Labels Average Information into Primary Model s Grid Base THPP Q 270 L amp LY Coordinate Scaling Factor fi Compare THPP 000 Simao Model Load 3rd Model Done Finished Reading Comparison Model Time Tolerance for Matching Model Times minutes 10 Figure 5 9 Load a comparison EFDC model DS International LLC 5 7 EFDC_Explorer 5 3 2 Load 2D Measured Data The Loa
20. 13 20 0 000 0 500 1 000 1 500 2 000 2 500 3 000 3 000 3 900 4 000 4 500 17 900 17 890 18 300 21 450 21 640 21 710 21 790 21 790 21 960 22 230 22 340 14 06 Jul 2000 11 20 0 000 0 500 1 000 1 500 2 000 2 4500 3 000 3 000 a4 000 4 000 4 500 5 000 DOU 6 000 30 900 20 300 21 500 21 800 22 200 22 600 23 100 23 100 23 600 23 700 24 000 24 000 24 000 24 000 13 21 Aug 2000 11 55 0 000 05 00 1 000 1 500 2 000 2500 33 000 3 000 3 60 00 4 000 4 500 5 000 Ds O00 154400 1542300 155300 15 400 T5400 I5400 I5s500 15 500 15 700 152700 16x100 16 100 16x 100 14 18 Sep 2000 12 28 0 000 0 500 1 000 1 500 2 000 2 500 3 000 3 000 3 500 4 000 4 500 5 000 5 500 6 000 21 280 21 210 21 240 21 930 22 060 22 200 22 380 22 380 22 230 22 560 22 470 22 850 23 000 23 040 DS International LLC B 3 EFDC_Explorer Data Format B 9 Polygon DSM Format The Polygon Digital Sediment Model DSM define an area followed by a data block that contains the sediment data block ID s must match The data block consists of a line for each depth beginning at the surface or 0 0 depth for which data exists On each line the user must include the depth m thickness m porosity and then the grain size The number of grain size classes and the associated size breaks are determined by the space delimited data of the label line see example The number of grain size classes and their sizes must be the same for every sediment data block in the file However the size classes
21. 5 6 Figure 5 7 Figure 5 8 Figure 5 9 Figure 5 10 Figure 5 11 Figure 5 12 Figure 5 13 Figure 5 14 Figure 5 15 Figure 5 16 Figure 5 17 Figure 5 18 Figure 5 19 Figure 5 20 Figure 5 21 Figure 6 1 Figure 6 2 Figure 6 3 Figure 6 4 Figure 6 5 Figure 6 6 Figure 6 7 DS International LLC Sediment Diagenesis Diagenesis ODtiOns cccceccceeeseeceeeeeeeeeeeeeeeeseees 4 29 Sediment Diagenesis setting the initial conditions cc cececc cece eeeeeeeeeeeeees 4 30 Sediment Diagenesis Diagenesis kinetic ZONES cccecceecceeeeeeceeaeeeeeeeees 4 31 TOAG ai Gy dice erence ee 4 31 Algal Dynamics parameter form c ccccecceecceeceeeceeceeeceeceeeceeceeeceesaeeseesaeesaes 4 32 Tab Water Quality Boundary Conditions and Lagrangian Particle Tracking 4 33 LFT AEM AUT IAD enirir a 4 35 LPT Initial Position Seeding Utility 0 0 00 ccc ccccecceeeseeeeeeseeeeeeeeeeeeeseeeaeesees 4 36 Harbor _U grid showing the masks boundaries and initial particle locations 4 37 Harbor_U Trajectories of 5 drifters over 1 day no random walk 066 4 38 Harbor_U Trajectories of 5 drifters over 1 day random walk c 0cceee 4 38 Tab Initial Conditions wadecaue cident ceniereenuhincsp dindciasardniniardesavadeuesteseteuienls 4 39 Apply Cell Properties via POlyQOns cccccccscceecceeceeeceeceeeceecaeeceesaeeseeeaeeeaes 4 39 Tab Boundary CG eset erteintin
22. 55903 5105733428 910683 263174768 956 764 55902 2638506742 910685 55906 0040186799 910680 55902 8872120085 910684 AA O EED XS023 Geomorph Transect XS023 55867 0383902119 910642 55866 7836519141 910643 55866 6308089354 910643 55866 2741753184 910643 55865 7646987227 910644 007703451 956 594 789637365 956 594 57157128 956 604 135439109 956 404 917373024 956 884 699306939 957 434 481240853 956 954 045108683 957 564 619457468 964 856 049699 12979 01 236 SO SG 4S 0797 959 42 36 910184238 957 346 770668752 957 116 55865 255222127 910645 631153266 957 146 55864 7457455313 910646 352122294 957 106 212606807 956 976 55863 2173157442 910649 55862 7078391485 910649 55862 1983625528 910650 55864 2362689356 910647 55863 7267923399 910648 49163778 957 146 07309132T 9971 26 93357598391950 116 794060349 956 606 55861 688885957 910651 654544862 956 646 95861 1794093613 910652 55860 1604561699 9106054 DS International LLC 515029376 956 696 55860 6699327656 910653 235998404 957 606 99809920909795 74279 L06955 x 55859 1415029785 910655 37551389 957 206 096482917 957 836 956967431 957 716 Header lines for each polyline branch angle deltax are only used for special cases but must be input defaults to open a ee a ne a eee a End of Polyline Block Header lines for each polyline a ne a nee a ee End of Polyline Block The vertical b
23. A100 A400 184900 20 300 12 900 34 100 15 100 154100 15 300 15 100 16 8001 17 000 171200 Repeat lines 2 4 for each profile 13 24 Feb 2000 12 26 0 000 Or BOO 1 000 13 00 2 000 ZSO 3 000 3 000 32900 4 000 4 500 3000 J OO 23 800 24 000 24 000 24 200 24 200 24 200 24 200 24 200 24 300 24 300 24 300 24 300 24 400 14 23 Mar 2000 10 52 0 000 0 500 1 000 1 500 2 000 2 500 3 000 3 000 33900 4 000 4 500 53000 3900 6 000 21000 2A OOO 21100 214200 21 200 21300 214300 21300 214300 21 300 21300 2a tOO 21700 21700 14 10 Apr 2000 11 26 0 000 0 500 1 000 1 500 2 000 2 500 3 000 3 000 Js 300 4 000 4 500 5 000 5 0 6 000 21 600 21 700 21 800 21 800 21 900 22 600 22 700 22 700 22 900 23 000 23 200 23 300 23 500 23 600 15 01 May 2000 12 00 0 000 0 500 1 000 1 500 2 000 2 500 3 000 3 000 37500 4 000 4 500 5 000 92000 6 000 6 500 1 800 1 800 2 200 4 000 5100 6 300 7 200 7 200 8 700 9 400 9 600 9 700 9 800 9 900 9 900 t3 08 May 2000 11 15 0 000 0 500 1 000 1 500 2 000 2 500 2 500 3 000 3300 4 000 4 500 5 000 5500 2 300 2 500 2700 2 700 2 800 2 900 2 900 2 900 2 900 3 200 34900 3 900 4 200 LL 25 May 2000 12 15 0 000 0 500 1 000 T500 2 000 2 500 3 000 3 000 3 500 4 000 4 500 6 100 6 100 6 100 8 200 10 900 13 700 16 100 16 100 18 700 21 200 21 600 12 Of Jdun 2000 11 30 0 000 0 500 1 000 1 500 2 000 2 500 2 500 3 000 3 500 4 000 4 500 5 000 T8 400 Lee POO 291 OO 19 300 20 100 207600 2076005 21100 21 700 227300 23 T00 23 300 11 2o Jun Z000
24. AV Alternatively there is the option for Specified Constant Diffusivities that should be inputted by the user To set the locations of the drifters the depth options Figure 4 41 shows the Initial Position Seeding Utility The Seeding Options frame allows the user to select from Uniform Spacing or Random Placement The Uniform Spacing option enables the user to selecting the X and Y coordinates at LL X and LL Y as well as the spacing between each seed with the Delta X DS International LLC 4 35 EFDC_Explorer and Delta Y input In the Vertical Depth Options frame the user may select from one of three options Random Depth Fixed Elevation and Fixed Depth For the latter two options the user should enter the elevation or depth as appropriate When the seeding options have been selected by the user the Create button should be pressed which will save the selection Another drifter may then be defined and Create selected until all the drifters have been defined The user may view the location of the drifters by selecting OK and then selecting Particle Tracking in View Grid editor Selecting Show IP will display the initial position of the particle seeds The user may create or delete drifters by right clicking on the grid An alternative to manually entering the drifter coordinates within the Initial Position Seeding Utility is the option of loa
25. Add Random walk Component to Particle Wovements Julian Day to Release Particles 0 Random walk Dimensional Options Julian Day to Stop Particle Tracking Computations 1 Horizontal Component Only Tesi ise ata HE O Vertical Component Only Both Horizontal and Vertical Components 3D Vertical Movement Option Fandom alk Step Size Options Particle Depths are FIMED at the Initial Seeding Depths Ci Fully an Lagrangian Neutrally Buoyant Particles ry Use 4H amp A from the EFOC Duttusion Cales O User Specified Constant Diffusivities Vertical 0 001 Horizontal 0 01 Figure 4 40 LPT Main Options tab The Vertical Movement Option frame provides the user the option of fixing the particles at their initial seeding depths If this is unchecked the particles will drift vertically as Fully 3D Lagragian Neutrally Buoyant Particles Within the Initial Particle Vertical Position Input Option the user may also specify whether the vertical positions provided are elevations or depths If the Random Walk checkbox is checked the user has a number of options for the Random Walk Dimensional Options The user may select the random walk in only the vertical direction in only the horizontal direction or in both vertical and horizontal directions at the same time In addition the user may specify the Random Walk Size Options by selecting to allow EFDC Diffusion calculations to be used for the AH and
26. Craig 2009 The fetch for each sector for which the wind is blowing may be viewed in ViewPlan see Section 7 6 ViewPlan Main Viewing Options The Wave Parameter amp Options form allows the user to specify Ks which is the Nikuradse sand roughness value This can be estimated as Ks 2 5 x d50 EFDC Hydrodynamic Options amp Parameters E Turbulent Diffusion Turbulent Intensity Ware Turbulence Wave Options O No Wave Effects intemal Generated Wind Wave Bed Shears O Wave Effects Boundary Layer Only ks the Nikuradze sand roughness m 0 000025 O Wave Effects Boundary Layer and Currents Wave Parameters amp Options Number of Wave Cells 1433 Import Existing Data Set Spatially Waring wawe Inputs cont Figure 4 10 Wave Turbulence Tab Internally Generated Wind Waves Alternatively EFDC also the ability to import wave generated turbulence from wave models such as REF DIF1 Ver 2 5 1994 Figure 4 11 These imported Rad Shears XY stresses can then be used to either impact only the boundary stresses for a enea 4 sediment transport ISVWVAVE 1 or can be used to impact the flow field and boundary layer ISWAVE 2 DSLLC has tested and verified this option for both EE and EFDC using the RefDif ShoreCirc modeling of rip tide currents Svendsen et al 2000 Wave Properties to be imported DS International LLC 4 10 EFDC_Explorer EFDC Hydrodynamic Options amp Parameters Turbulent
27. General Benth Mutrients Algae ID s WOBC Misc Initial Boundary Timing amp Labels Gud amp General Sed T ox Others Run Time Status Water Depth Settings Flag i Ho 8 Tae E Additive Factor jo Dry Depth oor Use Multiplicative Factor h 37 Minimum Height 0 001 Wet Depth Joi TE odify Dry Step 20 d 34 Print Interval Mass Balance Reporting Options ie l Do Additive Factor 0 Layer Suri 360 500 1 Compute Steps 360 Multiplicative Factor f Bottom Elev Adjustments Figure 4 4 Tab Grid numerical solution and miscellaneous options The Water Layers frame shows primary water layer settings KC number of water layers and the distribution of the relative layer thicknesses The relative thicknesses must add to 1 or very close EFDC Explorer checks this for the user EFDC_Explorer will automatically divide the water layers into an equal fractions based on the number of layers specified by the user Note that layer 1 is the bottom most layer and that the highest layer number is the surface layer i e KC A feature here that is very useful during preliminary testing of a model application is the rapid adjustment of layering simply by changing the number of layers EFDC Explorer simply reallocates the layering based on the new KC and then adjusts all the boundary conditions to reflect this change Use this feature with care but it has been tested on several applications and found to w
28. Model Metrics excscnrrcsuvetaxcdexetuncsnnehennenuciuacsenetansignstuacssueiareiaxninacsiaennatixctaxerdGiasd 1 25 7 6 8 Nee ETE EE E E nein esa yale 7 26 Pool PAO T gt ee eee ee ar AA SRC T anne tere e rT tener Renner ery 7 26 Te T eerie 1 26 7 6 9 SF eraai aE AEA AAAA AEEA i 7 28 Be i Be scree asa eee reread ta AEA EEA IAO E N EOE IEA E AA 1 29 Te a a hac ern eect ee tates ee 1 29 DS International LLC vi EFDC_ Explorer Wr creer AIEEE E EEA EEN FEE AEE EEA 1 29 Kekk 12 Pee ree eee enn EE 7 30 7 6 11 1 PPE Ast saarnien EEE AE EEEE 7 30 olL Water eraser re ieee ee eee eeu cemecheant 7 32 7 6 11 3 De eats enciavetwntinsscinavancencincicivedanereasaaceeineiaceiuenianetinniawemaniainnedias 1 32 7 6 11 4 ig ce EA er VAEA PEAS Mave ee eens oe nee een ve oe 1 33 10 115 voume ANdIYE IE naraenia 1 34 7 6 12 Sediment Diagenesis Specified Fluxes cccccceccceeeceeeseeeseeeseeeseeesseesaeees 7 36 7 6 12 1 sediment Mar ssiri adai 7 36 7 6 12 2 Ne Wil A A T cans E T E A ET 1 37 Pe Me 9 1 2 en ee ee en eee een re eee eee aoe a eee ann nt eer ene 1 37 7 6 14 Internal Variables EFDC_DS On ly cc ccccecccecceecceeeeeeseeeeeeseeeeeeseeeeeeeees 1 37 Pi o Da ares A E AE nad EN O acer ard N EA O NEA 7 38 7 6 16 Wave Parameters neste reciente eerie eeeciomianisiearasiemaieratn 7 38 DO E ea EEEE 8 1 8 1 OOPTE SENO irori EEEE 8 1 8 2 I anea ES 8 2 8 3 Primary eR ODHONG sossa a A EA 8 2 8 4 DESE Ea PEE A EE E A asia ae A EE
29. RMC on a cell located on one side of the desired profile location A popup menu will ask the user if they want to generate a Profile When clicked the message Starting i j Now select the end point with the Right Button Press OK to continue If the next mouse click is a RMC EFDC Explorer will extract the velocities or flows from the cells between the two cells selected inclusive Multiple profiles can be extracted However they will all be for the current time 7 6 8 2 Water Flux Tool Another method to extract flows across certain cell boundaries is provided via the Flux Tool This method calculates the flow across one or more flux lines contained in the P2D file Selecting the Flux Tool button display the option form shown in Figure 7 13 Flux Calculation Options Poly File Dallc nas1 public Projects FotzebuesM odels Centerline pd X Show Timeseries i Cancel OF Flow Option Total Flow EW Flow O NS Flow Dominant Flow Figure 7 13 Water flux tool control options The water flux tool computes either total discharge across the section or on a layer by layer basis based on the options selected on the ViewPlan form If a single snapshot is selected then the results will be displayed in a dialog box and also placed onto the clipboard If Show DS International LLC 7 26 EFDC_Explorer Timeseries is selected then the user must specify which flow component desired
30. S A ES NE AEEY 8 4 9 Time Seres Piloting IY scnurernsnssssnsnsncnunanun n 9 1 9 1 AnaS ond SEI C aaa ET E 9 3 9 2 EAEE a a e EAEE E AEI dec E AAE AE AA AE AEA E AA AIE A A ANE AAE 9 3 e P E r E EER E E E E toes 10 1 Appendix A EFDC Internal Array Visualization Instructions cccecceeceeceeeeeeeeeeeeeeeeeeeeens A 1 Appendix B Data Formats cccccccccecccceeceeceeceeeeee ee eceeseeeeeeeeseseeseeeeeeesesseseeeeeeeeeeeeseeseees B 1 DS International LLC vii EFDC_ Explorer List of Tables Table 1 1 EFDC_ Explorer user interface CONVENTIONS ccccecceeeceeeeeeeeeeeeeeeeeeeeeeeeeeeaess 1 7 Table 1 2 Operator descriptions asisceveasisisiessaincansarcadtecarnxsieisiotanarsintastalintneesadeann 1 8 Table 3 1 Main toolbar summary of functions cece cece ece eee eeeceeceeeceeeeeeseeeeeeseeeeeeseeeaeesaes 3 2 Table 4 1 Dye decay rate options wisi tedacidiccdaiisatedatisscxanitaiiedadidsinsodlaieadesidaaniinieeenidananiiaas 4 25 Table 7 1 Main Functions of ViewPlan ccccecceeceeceeeeeceeeeeeseeeuecseteeeeeeeeeeeeeeeeeenseteeaeeees 1 1 Table 7 2 ViewPlan keystroke function summary ccccccceeceeeceeceeeceeceeeeeeseeeceecaeeceesaeesaes 7 7 Table 7 3 Summary of ViewWPlan toolbar cccccccceccsecceeceeeceeeseeceeeseeceeeseeeeeeseeeeeeseeeaeesees 7 9 Table 7 4 Water quality parameter list available for display ccccecceeeeeeeeeeeeeeeeeeeeeeeees 7
31. This simply reverses the order of the first two date fields The delimiter must be specified as space tab or comma The correct delimiter must be selected before processing the linkage The time series HSPF File that will be linked to the current boundary group is shown in the HSPF File Information WDM Formatted frame The user should Browse to the file If the same file will be used for all boundary groups the user may press Citrl A when the HSPF File field has focus to assign the same file for all the groups To actually link the HSPF data to the EFDC boundary condition group s the user must press one of the following e Apply to Current Group This button processes all the parameters designated for import for the currently selected boundary group only Only those parameters selected for import are processed e Apply for All Groups This button processes all the parameters designated for import for every flow type boundary group All the options defined for each boundary group are used Groups are added and deleted by setting the focus to the group list and then pressing INS or DEL as is appropriate If deleting a group make sure the correct group is selected 4 12 4 Check Boundary Conditions The Check button runs a series of checks all the currently defined boundary conditions Some of the validation checks include amp J cell indexes point to active cells Table series are valid Mat
32. Time Steps Info H of Steps HE Selected Select All Output Interval 1 Options Horizontal Skip 1 Cony Factor 1 Cancel Figure 7 6 Tecplot export timing options 7 2 3 3 Create New EFDC Model This function saves to disk a new project using the model results at the current views time as indicated in the legend as the initial conditions When selected the user is prompted to select a new project directory to save the new model to All appropriate flags and settings are adjusted in the current model to allow the user to load the newly saved model the original model is still the current project and run EFDC All parameters being simulated use a spatially variable initial conditions file This feature is useful for testing various adjustments or corrections to the model inputs after a particular date An example would be to test why a model crashed after a certain time by adjusting boundary or wetting drying options and running the continuation model If appropriate the model results from a continuation model can be merged with the original model to produce a single model output for plotting and analysis 2 3 4 Polyline Polygon Creation Tool This tool is the primary utility in EFDC Explorer to create and edit the various polylines and polygons that the user may need to help define boundary cells flux lines model annotation velocity profiles etc When the toolbar button is pressed EFDC_Ex
33. are contained in columns i e Excel type csv or tab delimited data The dates can be Julian or Gregorian calendar dates If Julian dates the Base Date used for the imported time series should be the same as that used in the EFDC project The import tool shown in Figure 4 50 works by linking the time series HSPF files to specific boundary groups The only groups that can have HSPF data linked to them are flow boundaries Each group can have its own HSPF file and import options Flow temperature solids and water quality are optionally selected in the Import Parameters Frame To view each parameter s options select the corresponding radial option in the Import Parameters frame When the parameter is selected the options frame is shown to allow the user to e Select whether to import that parameter for the current group using the Import check box To activate all the groups for the current parameter press Ctrl A e Set the column which contains the data Column 1 is the 1 column after the column offset e Define a conversion factor to convert whatever units are in the file to the appropriate units for EFDC i e m s for flow C for temperature and mg l for solids mg l for water quality and MPN 100mI for fecal Coliform In addition the conversion factor can be used to split a single number into its sub components For example total organic nitrogen from and HSPF run can be split into the dissolved and particular refract
34. can vary from file to file or project to project to meet the project needs format is file that contains any number of polygons that The polygon ID and the data POLY ID1 X Y X Y X Y END DATA LEI depth thick density porosity Sizelmm Size2mm Size3mm Depth 1 data Depth 2 data SizeNmm POLY dl SO al 56694 6 901917 27 S669 2 3 GOLIST 2 5667323 901944 2 56674 4 901924 5 END DATA 1125 01 depth thick density porosity 50mm 19mm 9 5mm 0 85mm 0 25mm 0 075mm 0 065mm 0 023mm 0 013mm 0 004mm 0 003mm 0000 0152 L749 304500 100000 099998 0999880198257 0290709 070847 0267613041642 O22 8167 009082 0 2064 1 7 OTDA Osea ATT 0 490 TOOTE 0 99996 0709976 02907 702 U0 seOlS6 Oie 776 065569 0 40269 0 274299 OOIT 006564 0 305 Unda Legon T OAT Oo Oy 99999 Oy 9999 099956 0 97004 0 87465 6606S 0 63396 0 30991 0 26726 02092300 06695 OSAST Onl 52 1866 7 0 469 0 99998 0 999620 99921 0 961338 0 85544 0 64229 0 61100 0 387518 0 25857 0209199006749 OGL OLS LOOT 6 Usd 59 0 99996 0 99964 0 99864 0 95077 0283405 ULol167 07586030 0485953 024902 0409101 0 06747 C2762 ODA LARA Ordo O19 9990 0 99933 O 9O7I2 O 9S 794 Oe LOS 0 591 74 0 560167 0434323 0 25869 O08 94 O 06692 END DS International LLC B 4 EFDC_ Explorer Data Format B 10 Sediment Cores with Grainsize DSM Format format is file that contains any number The Sediment Cores with Grainsize Digital Sediment Model DSM of cores Each core can have any number of samples a
35. capture of the TSP Most of the functionality is provided in the toolbar at the top of the utility but some of the functionality is accessed via keystrokes see Figure 8 3 Time Series Data Grapher Ioj x F eleelea Hle r El E elel Perdido Bay Water Quality Calibration 1994 Boundary Condition Time Series Legend Flow m 3 s Lili IMA T Wa aint a 1991 1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002 2003 2004 2005 Date Figure 9 1 Time Series Plotting TSP utility Table 9 1 provides a brief summary of the toolbar functions This is very similar to the ViewProfile toolbar The main difference is the import I and export E gt data series features These are extremely useful to save a data series out to a file and then later when viewing another model or other series load that series in for comparison The format of these files is shown in Appendix B A DAT file the default extension can contain an almost unlimited series Since the TSP is used to view every time series from water column to sediments and boundary forcing series the user can develop their own series from data for calibration or any other comparison purposes Exporting When exporting the TSP exports only the data in the current view If data has been loaded but turned off that data will not be exported The legend is exported with each series DS International LLC 9 1 EFDC_Explorer Importing The TSP utility
36. change a line format or color for a particular option LMC on the picture box displaying the format A format form will be displayed allowing the user to make the desired adjustments The Timing Frame in Figure 7 7 selects whether to show the frame on ViewPlan and if so what will be shown The value of the scale field is dependent on what type of boundary forcing time series was selected For winds the scale is m s for flows and pressure the scale is days The values that represent the blue and red ends of the color ramp can be specified The direction of the color ramp depends whether the blue value is gt or lt the red value If the Autoscale with View option is selected then the blue and red range will be reset to the minimum and maximum values for the current parameter that are within the current viewport Display Options RaDa ehi Beta Particle Tracks Plot Title Harbor U Masks Font Hodel Grid Characteristics Background Color Time Display ES Use Corners x Julian Time Gregorian Date E N Scales Modifiers Horizontal Units Scale Ix Show Easting h Northing f Units Meters Coordinate Grid Precision 4 Timing Frame Use x Show Scale 1 Easting jo View Heade 01 Color Ramp Autoscale with Yiew Blue 0 Red E Auto Precision 4 Northing jo Modify Figure 7 7 ViewPlan Display Options General Options The E N Scale Modifiers is used to scale up
37. choose between no bed changes option 0 and allowing bed elevation changes option 1 The Max Water Depth is the maximum allowable depth to allow for the lost due to NEG DEPTH morphological change EFDC_DS version only Bed Consolidation amp Mechanics Options frame provides input to the main sediment bed consolidation options The Bed Mechanics option must be O None 1 Simple or 2 Finite Strain Option 2 is very a specialized approach and requires a detailed understanding of the of the Finite Strain implementation in the FORTRAN code The consolidation rate is in seconds not 1 seconds as earlier versions of EFDC INP reported The rate will usually be gt 100000 seconds The impact of the rate of consolidation can easily be tested using EFDC_Explorer s Single Column Sediment Layers post processing function see Section 5 2 1 Sediment and Sediment Bed Properties Major Settings of Sediment Bed Layers j 0 Cohesives h Non Cohesives 3 Warming Changing these may cause loss of current inthal and boundary conditions HonCoh Susp NonCoh Bedload Initial Conditions Bed Morphology Options Bed amp Deposition Settings Option li Max Layer Thickness 0 074 im Mas Water Depth jo 5 Eis wo EMEN EJE m Deposition Constant Porosity 0 6032 Wod Ratio of Depositing Cohesives 1 5202 Minimum oid Ratio 5 Bed Consolidation amp Mechanics Options Bed Mechanics Consolidation Constant a s
38. current flow table setting for cells in the current group The user may also enter an Offset which will apply an offset to the result of HP BELV to obtain the H to lookup from the H vs QA table The Shift All button prompts the user for an offset after which a uniform shift is applied to all the offsets in the group In the Flow Control Type the user has the following options e Flow from Upstream Depth Rating Curve e Flow Driven By Elevation Or Pressure Difference e Flow Accelerating Flow Through Tidal Inlet The rating curve may be generated within the Generate Rating Curve from a Power Series frame DS International LLC 4 52 EFDC_Explorer 4 12 7 Time Series Editing Form A common function needed for all of the boundary forcing time series is the need to edit view and compare these series These processes and other time series utilities are available using the Data Series time series data management form Figure 4 54 This form is broken down into several sections The Title Block displays and allows edits of the title block EFDC requires for the specific boundary file s The number of lines vary between boundary forcing files EFDC_ Explorer ensures the correct number of header lines are used for each type of file Pressing Reset will overwrite the current header with a standard header for that type of file using the Project Title as the project specific label The user may a
39. dates will be added to compute the corresponding Gregorian date The use of the base date and model Julian dates allow EFDC_Explorer to compare model versus data for a range of plots and statistics The base date is entered in the Model Simulation Start Time frame Typically this date is the 1 of some calendar year but this is not required any date time is acceptable The user can use the J lt gt G button to convert Julian to Gregorian or visa versa If using Microsoft Excel dates for the Julian day counter the EFDC_ Explorer date base should be set to 01 Jan 1900 This allows number formatted dates in Excel to be directly used by EFDC Explorer without adjustment However a projected oriented base date is recommended to prevent large numbered Julian dates e g 39234 375 01 Jun 2007 09 00 If 01 Jan 2007 was used as the base date the corresponding Julian date is 151 375 DS International LLC 4 3 EFDC_Explorer 4 2 GVC Generalized Vertical Coordinate Options Figure 4 3 shows the GVC and model selection options EFDC_ Explorer supports two EFDC models the EFDC_EPA version with GVC and the EFDC_DS version When loading an existing model EFDC_ Explorer identifies the type of model and automatically sets the options on this tab based on the data in the EFDC INP file In addition the user can switch from one type of model to the other using the model selection option in the Model Selection frame When changing fro
40. does not change until the user saves the project When the user reloads the project the deactivated cells will be completely removed EJ EFDC Explorer amp Working Form Eh 5 x Ej S o 2lr B ale Ol 0 t alee ajej Perdido Bay Water Quality Calibration 1994 Viewing Opt s Ces Map gt a a E 90 Cell Map Opts BX Unitorn Grid X Label Cells Skin F 8 0 2 4 6 6 2 2 N 3 3 9 R2 NSRD y Engish X 27 00 Figure 7 11 Example Cell Map Retaining deactivated cells in memory allows the user to reactivate a cell without losing information if needed during the cell editing process To reactivate a deactivated cell or a originally deactivated cell RMC on the cell and select activate If the cell was previously activated it will just change to active cell flag to on On the other hand if the cell was not DS International LLC 7 21 EFDC_ Explorer previously activated EFDC_Explorer looks to the immediately adjacent active cells to try to set the appropriate cell dimensions depth rotation etc Because EFDC_Explorer is using adjacent cells to assign properties the user should add cells in a manner that has the most active cells adjacent to the cell being activated The cell properties are displayed to allow the user the opportunity to make adjustments to the cell properties before accepting the activation If cells are activated near the edge of the IJ space EFDC Explorer adds to the appropriate di
41. eres araicaniniprnmssieirseeemisiarimnaieess 4 41 Example WSER series weighting for two Stations ccccecceecseeeeeeseeeeeeeees 4 43 Boundary Condition DefinitiONS GroupS cccccccsecceeeceeceeeceeeeeeeeeeeeeeeeeeeeeees 4 44 HSPF model results import Utility ccc cecceeeeeeceeeeeeceeeceeseeeseeseeeseeeaeenaes 4 46 View loadings options form assxicwsntinacavadinasanassdcersscinneinsasinensrsaexenadadncnmaaarnaiins 4 48 Example of mass loading plot for Total Phosphorus TP ccceecseeeeeeeees 4 49 Modify Edit Boundary Condition Properties ccccecccecceccseeeeeeeeeceeeceeeaeeeees 4 50 Boundary conditions time series editor cccceccecceeceeceecaeeeecceeceeseeseesensaees 4 53 ASCII data time series import fOrM ccccceeceeceeceeceeeeeeeeeeeeeeeeeeeeeeeeteeteteees 4 56 Time series keystroke function help MESSAGE ccccecceecceeeeeeceeeeeeeeeeeeeeees 4 57 Tak ed otra es esannineusatiaa OA A E 5 2 Example grid profile DIG nansiesrenininczssiadionianarinavinivinsdaeinineredininimisidnindeaeonamiinrinns 5 2 Example water surface elevation profile with bathymetry cccccceecseeeeeeeees 5 3 Tab Miscellaneous Series ccccsssssssssssccsccscceccescussursursescesccsccescuseuusursarsassescs 5 4 Example of sediment column consolidation a Initial conditions b End of Day 1 5 4 Example Bed Top Profile for water column and sedimen
42. factors to each grain size class modeled in EFDC to the data columns In this manner the user may combine HSPF sizes into whatever EFDC class they desire If the class weights totaled for each row add up to 1 then the same mass that is predicted by HSPF will be input to EFDC It is possible to assign more of any HSPF size class to EFDC than HSPF computed by using weights that add up to more than one This same approach is true in reverse as well The period of extraction from the HSPF files is controlled by the Begin and End dates specified in the input boxes located at the bottom of the HSPF preview pane The HSPF File preview pane shows the some of the data from the HSPF File for the user s reference It can be seen in this example that the flow is contained in column 2 0 01 cfs and dissolved oxygen is contained in column 7 5 58 mg l DS International LLC 4 46 EFDC_Explorer EFDC_ Explorer interprets a calendar date using the Windows date settings This is important if files are processed on different computers with different date settings i e files from Asia being processed on computers in America The issue here is if the dates are ambiguously formatted as MM DD YYYY or DD MM YYYY A date of 01 02 2008 can be interpreted as 01 Feb 2008 or 02 Jan 2008 depending on the windows date format To correct a date interpretation problem between windows configurations check the Data is not in System Date Format checkbox
43. for boundary conditions a Modify Cell form Figure 7 4 is displayed that allows the user to modify many of the cells properties in one location EFDC Explorer amp Working Form l OX H sle aral alel Olt o elste ell Zils ousatonic River Housatonic River Sediment amar Mikina Opis Sediment Bed ai cE n le Ew 4 Ns Active Be w Bottom Elevation 11 65436 Delta X Baz Layer Settings Total x Delta Y 25 1 T Water Depth 3 864384E i a Layer 10 Roughness 0 02 x VegType e Total Seds Sed Class 1 _ Wind Shelter fi Centroid X 56917 4 Seen C Top Layer Centroid Y 909324 C Thickness Angle 0 87895 Sed Mass Cell Type C Sed Frac C Porosity Masks West 7 South C d50 l C Delta E C Toxics Total v Sediment Bed Mass kg m2 kg m X Enable Edit Ix Show Grid Sediment Bed Bed Processes 39 62 Time 18 00 361 1 Shear Total Shear Coh Shear NonCoh A MENS kg m 2 Bedload Sediment Class 1 Layer Totals 127 3431 35 51159 Layer 2 92 48989 60 4798 Usel C Velocities C Cell Map ID Metric X 56 903 1 Y 909 315 8 Figure 7 4 Modify Cell form with bed layer sediment mass sub option In addition to these functions RMC ing on zones for the water quality diagenesis and vegetation zones allows the user to edit the data for the entire zone During post processing water quality if viewing dissolved oxygen with the time series toggle on the user can selec
44. formatting and labeling information for the time series calibration plots CalForm_VP DS This file contains formatting and labeling information for the vertical profile calibration plots DS International LLC 2 2 EFDC_Explorer In order for EFDC_Explorer to post process the data the following files must be generated by EFDC EE WS OUT EE VEL OUT EE WC OUT EE BED OUT EE ARRAYS OUT EE WQ OUT EE SD OUT DS International LLC Required This file contains the water depths Recommended This file contains the 3D velocity field This file contains the water column results as well as the information for the top layer of the sediment bed This file contains the sediment bed data for each layer including the toxics associated with each layer This is an optional file that the EEXPOUT subroutine in EFDC optionally generates This file contains snapshots of almost any internal EFDC array desired EFDC_Explorer automatically loads this file and provides visualization if it exists See Appendix A for more details This file contains the water column results for water quality constituents simulated This file contains the sediment diagenesis results if the full sediment diagenesis option is turned on 2 3 EFDC_Explorer 3 EFDC Explorer Primary Toolbar Upon starting EFDC_ Explorer the user will be presented with the form shown in Figure 2 1 This form is basically divided into three parts The middle section represen
45. mass fluxes are to be specified either as constants or variable in time and space DS International LLC 4 28 EFDC_Explorer then the diagenesis tabs are not used If the Full Diagenesis Model DiToro amp Fitzpatrick 1993 option is selected then the three diagenesis tabs are available to allow the user to specify the diagenesis parameters Sediment Diagenesis Options amp Parameters Constants amp General Diagensis Options Diagensis Fates Benthic Mutnent Flus Method C Spatially amp Temporally Constant Full Diagenesis Model Specified Spatially Temporally Varying Fluxes Spatial Temporal Waring Benthic Flus Fates Phozphate o m g m 2day Silica lo fon 2day Ammonia Nitragen o m fg 2 day Chemical Oxygen Demand lo g m 2day NO2NO3 Nitrogen jo g m 2fday Sediment Oxygen Demand 3 gem 2day Sigh Convention From Sediments to Water column From Water Column to Sediments Zoneg Block Times Current lil 4 Hof Zones 2 SetZones Current O B Bi tof Times 2 _ Spatial Temporal Y arping Flus File EPE Creek Model2008 03_ 03 WO _03 W5C ah PM COO ww gbentls inp Browse Figure 4 33 Sediment nutrient flux Sediment Diagenesis Options and Parameters Figure 4 34 shows one of the diagenesis tabs for defining the diagenesis parameters The best way to initialize all of the diagenesis parameters is to use the Load Settings button This will read an existing WQSD3D
46. may be used in the kinetic equations of parameters that are being simulated Therefore EFDC Explorer always allows the display of all EFDC parameters However to make it clear as to which parameters were simulated and which were not a NS is placed at the end of the parameter abbreviation shown in the dropdown list for those parameters not simulated For the EFDC_Explorer derived parameters a DP is placed on the end of the abbreviation to clearly indicate that the parameter was derived 6 11 3 lrradiance The ability to determine the Bottom Irradiance can useful when the user is interested in cases where the amount of light penetration must be determined such as where there are macrophytes or aquatic vegetation Note that this tool only determines the potential for irradiance and does not allow for day or night or factor in cloud cover etc Pressing ALT B accesses the Bottom Irradiance Tool The user is first prompted for analysis of a polygon which must then be loaded or the whole model The subsequent option form is shown in Figure 7 17 The user should enter the Maximum Bottom Depth in meters Cells deeper than this depth are displayed as white As depths will vary due to tides it is usually most useful to calculate an average for the Depth Criteria Approach The user should finally enter the Irradiance Target as a percentage EFDC_ Explorer will then calculate all the cells that fit the criteria and calculate statistics
47. model is an understanding of the topography bathymetry of the region If bathymetry is to be applied at this phase a file must be selected that contains topographic data over the region to be modeled The formats of this type of file are provided in Appendix B Once selected EFDC_Explorer loads the file and displays the corner coordinates in the Upper Right and Lower Left frames The units displayed are assumed to be in meters with direct correspondence to the coordinates to be used for the LXLY file An example digital topographic data file using colors to represent the elevation range is displayed in Figure 6 2 The user should note that this file is not necessary to generate a new model EFDC_ Explorer allows the user an ability to reapply revised or new topographic information to an existing model using the Bottom Elevations button on the Initial conditions tab of the main form Figure 6 2 Example digital topographic data 6 3 EFDC INP Template File There are many settings that need to be assigned when building a new model The approach taken by EFDC_ Explorer is to input a template EFDC INP file that has the basic features the user desires This only applies to computation options hydrodynamic settings and a range of miscellaneous settings The major settings such as the grid settings water layers cell map and processes simulated are all reset by EFDC_ Explorer A valid EFDC INP must be selected prior to being ab
48. neighbor approach is used to interpolate the horizontal spatial data onto the grid As this is for the water column the user must specify which layer this assignment is for one layer or all the layers The Options button brings up a form allowing the user to change the interpolation options Depending on whether bathymetry or wave parameters are being set the Option button also allows the user to define raw data zonation options The zonation option simply automatically divides the raw data into a specified number of X and Y zones with overlap to handle zone edges before applying the requested interpolation process This significantly soeeds up many applications with no loss in accuracy Zonation is recommended if the raw data has a large number of points EFDC Explorer informs the user of the range in number of data points in each zone before conducting the actual assignment For bathymetry and wave data the user has two choices for cell assignment spatial interpolation via nearest neighbor or averaging data into each cell If the XYZ data is very dense relative to the model cell size then the best approach will be to use cell averaging However if the XYZ data is not dense enough to completely assign at least one value for every applicable model cell then the nearest neighbor interpolation option is better Pressing the Apply button causes EFDC_Explorer to perform the requested operations You can perform a series of operat
49. one dimension in order to better view a model This should only be used for models that only have one active cell across the dimension needing scaling For example viewing a test case model of a straight river 100 km long l component and 100 meters wide J component If viewed with a 1 1 horizontal scale if would be difficult to see the model cell colors Using a scaling factor of 5 in this case would produce better visualizations The display of the horizontal scale is optional The units are set in the Units dropdown list The scale units are set independently of the current reporting units Sect 7 2 5 A grid can be overlaid on the model using Coordinate Grid options The desired delta X and delta Y spacing should be entered in the Easting and Northing fields respectively The label DS International LLC 7 14 EFDC_ Explorer and line styles can be adjusted by pressing the Modify button On the formatting form the user can select the Link check box to assign the same format for both the X and Y Figure 7 8 shows the Velocity Boundary Conditions tab of the Display Options form This tab provides access to the velocity vector formatting options including scaling display units and many other formatting options If the Scale Vectors check box is checked then the length of the velocity vectors will be proportional to the Scale factor If this checkbox is not selected then a constant length vect
50. output settings are set using the Display Options form accessible from either the toolbar or RMC on the legend timing frame or horizontal scale Some of the general features of the post processing will be discussed in the following subsections 7 5 1 Time Series A family of time series curves of the same parameter can quickly be displayed Press the Time Series button on the toolbar and then LMC on each cell desired For all parameters but water depth derived parameters each time the user selects a new cell the user will be asked if they would like the time series to be displayed Up to 10 time series can be shown at once Answering yes to the loading question causes the time series data to be loaded and displayed for the selected parameter and cells The user can close the time series and select a new cell up to a maximum of 10 series Section 9 provides a discussion of the use and options for the Time Series utility The user may also the save the series profile locations for later use with the alt O keystroke as well as reload a previously saved series profile with alt l Toggle the Time Series button to reset the series list or change the view option the view series Is reset 7 5 2 General Statistics EFDC_Explorer ViewPlan has the ability to calculate some general statistics of the current parameter and snapshot time Click the General Statistics button and the user will be prompted with a browse window to select a
51. polygon file If the user clicks Cancel DS International LLC 7 19 EFDC_ Explorer EFDC_Explorer will use the current window not the entire domain If the user selects a polygon file then the cells inside that polygon will be used From the selected cell list a set of general statistics of the currently displayed snapshot in time will be computed The exact statistics vary with the parameter It is anticipated that this section will be enhanced in the future as resources become available 7 5 3 Animation of Results The results of any of the time dependent results can be output as an animation to either the screen or an AVI file If the animation is to be saved to an AVI file the user is asked for the number of frames per second to be output to the file This will be application specific but a number of 4 frames per second seems to provide a fairly smooth but not too fast animation Be careful as these files can get quite large quickly The frame size of the animation will match the frame of the ViewPlan Press any key to stop an animation 7 6 ViewPlan Main Viewing Options As previously mentioned the ViewPlan form Viewing Opt s is adjusted based on what parameters are being modeled what data has been loaded and what option has been requested at a particular time by the user 7 6 1 Cell Indexes This Viewing Opt displays the EFDC indexes of amp J and the linear index L on a cell map based on LXLY coordina
52. profile can be extracted from EFDC There are three options The user may either select a value of to extract the active J cells along that I or select a value of J to extract the active cells along that J The third option is to use a Drape Line which is a polyline in the same coordinate system as the LXLY data The amp J s from along the line will be assembled and the profile will be output along that slice If an or J extraction is used the user can use the keys to scroll up and down the selected coordinate For example if the 15 was selected the keystroke would display the I6 section the keystroke would display the 14 section This feature is not applicable to the Drape Line Cedar Ortega St Johns River Curvilinear Grid Model Elevation m Legend Specified IJ Time 117 25 7 O Salinity ppt 15 0 Sediment Mass 1000 Class Coh 1 kg m 2 9 0 2500 5000 7500 10000 12500 15000 17500 Distance m Figure 8 1 ViewProfile example showing salinity at one snapshot in time during a tidal cycle DS International LLC 8 1 EFDC_ Explorer 8 2 Toolbar Summary The ViewProfile toolbar provides access to a range of different functions and utilities Some of these functions are dependent on the current context while some are not Table 8 1 contains a summary of each function During animations it is usually better to fix the Y axis elevations
53. to select a Source Cell and then copy the current property into subsequent cells Target Cell First the user must turn on the Copy Cell Properties button on the toolbar The Source Cell is then selected using Ctrl LMC An input box is then displayed and filled with the Source Cell s property The user can change the value or use the operator method noted above The user can then apply the Source Cell property or whatever is in the property input box by Ctrl RMC The user can keep applying the value or operator by continuing to Ctrl RMC ing on the desired cells The user can also apply Operators using this function For example to apply a rise of 50 over the current value of whatever parameter is being edited follow these steps e Select the desired Viewing Opt s e f output data is currently loaded set the current time back to the start The Enabled Edit will be enabled if the user is at the IC timing position e Check Enable Edit e Press the PP button on the toolbar This is a toggle button This function will be active until the user toggles it off by pressing the button again or changing the Viewing Opts e Enter 1 5 in the Cur Value field note the space between the and the 1 5 e RMC ing on the cells while holding down the Control key will apply a 150 factor to the value of the cell For example if bottom roughness is being edited and the initial value was 0 02 m after Ctrl
54. types The default settings shown are appropriate for most applications However for special cases e g flume studies or other types of research applications the user will likely have to make adjustments to the defaults This information is stored in the project specific EFDC DS file The default settings for EFDC_Explorer are saved in the EFDC_EXPLORER INI file that is located in the same directory as the EFDC_Explorer executable Many _ installation machine specific default EFDC Explorer settings are saved in the EFDC_Explorer NI file This is an editable ASCII file though care should be exercised to not corrupt the file The file structure follows the Windows standard INI file using groups and tags The project specific settings for information data that the EFDC model does not use i e labels plot formatting etc are saved in the EFDC DS file that is located in the project directory If the user wants to maintain a complete data set either with all the ASCII INP files or the binary archive file the user must also save the EFDC DS file This also applies when the user is sending the model to another person The EFDC DS file is also an ASCII file that can be edited with any ASCII editor ig EFDXC_Explorer Settings l X Paths to the EFOC Executables EFDC_GVC E Code FORTRANNEFDC EFDC_GVC Curent EFDC_GVC Release eide_ave 080228c2ene _Brawse EFDC_DS E Cede FORTRANNEFDC EFDC_DS CunertiEFDC_DStRelease efds de 0B0220c2en rons Text
55. utility allows the user to specify certain groups of output files from EFDC to be deleted The main purpose of this function is to clean up all the project directories and save disk space by deleting all the files in a project directory that are not needed by EFDC or EFDC_Explorer This utility works on the specified directory and ALL subdirectories under the top level directory specified The utility scans the directory structure and then lists all the files that may be deleted if the user presses the DS International LLC 3 8 EFDC_Explorer Delete Matched Files button If a few files are listed that the user doesn t want deleted the user can delete their file names from the list This will keep them from being deleted as the utility uses the files in the list to delete Merge Continuation Runs This utility merges EFDC_ Explorer specific output files from two EFDC runs into a single output file Multiple runs can be merged by starting with the earliest runs and sequentially appending each subsequent run At the end of each Merge process the EE _ WS EE Vel EE WC EE WQ and EE Bed from the base run will be saved in the base run project directory but with an org extension The newly merged files will have the out extension and can be used by EFDC_ Explorer The models projects must be of the same model domain and discretization Re sample Output Allows the user to reduce the number of saved output snapshots in the EFDC_Expl
56. water quality parameter being assigned In this case the XYZ File will be the file that contains the vertical profile data When the Apply button is pressed EFDC_Explorer interpolates this data onto the water column initial conditions horizontally and vertically all active layers 4 11 3 Restart Options The user can enable the use of the RESTART INP file for hot starting the model by checking the Use Option check box If the user wants EFDC_Explorer to configure the restart files the user should press the Set Files button When pressed EFDC_Explorer checks to see if the needed files exist based on currently selected computational options and if not asks the user to point to the appropriate RESTART file s EFDC Explorer copies the file to the current project directory and renames the file if required i e RESTART OUT gt RESTART INP 4 12 Boundary Conditions Figure 4 47 shows an example of the Boundary tab that contains boundary condition information and editing features The user can also view create and edit boundary conditions from the ViewPlan Boundary Conditions feature Timing amp Labels GYC J Grid amp General Sed Tox Dthers WO General Benth Nutrients Algae IC s WO BC 7 Misc Wind Dat At heric Dat G dwat Edit A evier View Loadings see daa es eicate aes Sheltering Shade Factors 0 tion O Import HPF __ Check Genes weighting Series Weighting p Hof Series EE Numb
57. with zero constant flow even if the boundary has flows assigned via a time series the salinity input to the model will be zero If using a time series for flows the user must use a time series to assign salinities even if they are constant DS International LLC 4 50 EFDC_Explorer 4 12 6 2 Open BC Specifics For open BC s unlike flow BC s the concentrations specified in the Constant Concentrations frame are always used for boundary assignments The Constant Concentrations will be added to any time series concentrations defined For example if the user has a tidal time series of salinity that varies from 5 to 10 ppt and specifies a concentration for salinity of 10 ppt in the Constant Concentrations frame EFDC will apply time variable salinity concentrations ranging from 15 to 20 ppt The Interpolated Series frame provides access to two functions e Build Generates new pressure series for the unassigned cells interpolated from the cells along the boundary that were assigned prior to pressing Build Interpolated series always have an ID that begins with l to identify the series as an interpolated series Each unassigned cell has its own interpolated series generated then that series is assigned to that cell Two or more prior assigned cells to existing series is required The cells at either end of the open boundary must be defined for this process to work properly e Reset Scans the c
58. 10 2 Lagrangian Particle Transport LPT ccccccccecceecseeceeeseeceeeseeeeeeeeeseeeeeees 4 34 VIR ee PE E A EE E EA A N E A A 4 39 4 11 1 Apply Cell Properties via Polygons cccccccccccecceeceeeceeeseeceeeseeeeeeaeeseeesees 4 39 4 11 2 Set Initial Conditions Water Column cccccccecceeceeceeeeeeeeeseeeeeseeeeeseenes 4 40 wla RT epee ects eters asad ect dct wt sev a nec insincere anise 4 41 4 12 Boundary Conditions ics esac nnd cane sddcesasnanioiancndeauiendabornpatabesauedasdehaiadasasnlabornnetabeteratnls 4 41 4 12 1 Spatial Factors for WSER and ASER cccccceceeceeeeeceeeeeeeeeeeeseeseeeeseeeaes 4 42 4 12 2 Edit Review Boundary Conditions cccccccceccsecseeceeeeeeceeeeeeseeseeseeeeeees 4 44 et MOO ROFE D honea isan ciacinetantescaineen 4 45 4 12 4 Check Boundary VONCKOMwicccintcicmeninnicinmnaniiiunnmanwciienamen 4 47 dea Von LONS erara sa ses eas AE EAEE E A AAEE A 4 48 4 12 6 Boundary Condition Group Editing FOrm cccccccceecceeeeeeceeeaeeeeeeseeeeeeeeees 4 49 4 12 6 1 FOW oe ee sonrai E 4 50 4 12 6 2 Cs le orarin na aA EA E A EN 4 51 4 12 6 3 Withdrawal Return BC SpecifiCs cccccccecseeceeceeteeeeeeeeeeeeeeeeseseeeeees 4 51 4 12 6 4 Hydraulic Structure Speclfics ccccccsccsecceeceeceecceeceecceeseeseeeseeseeesaes 4 52 4127 WTS Editing PI scsissie cscs nn cn ernac de traasaseeeere a 4 53 4 12 8 Groungwatef oo ctnic tpn cakecece
59. 17 Nov 2003 09 39 24 0 895 28 175 27 914 BR31 Bot Temperature C Layer 1 01 Jan 2003 01 00 31 Dec 2003 23 00 8759 1 888 25 353 24 594 BR31 Top Temperature C Layer 4 01 Jan 2003 01 00 31 Dec 2003 23 00 8759 1 564 25 564 25 283 CCORAL Bot Temperature C Layer 1 01 Jan 2003 01 00 23 Aug 2003 17 00 5541 1 215 25 730 25 029 CCORAL Top Temperature C Layer 4 No Data Model Match Composite Statistics Salinity ppt Temperature C 27376 1 23107 1 314 601 Prepared by EFDC Explorer c developed by Dynamic Solutions Intl LLC ciptoard_ FT Figure 5 13 Example time series calibration statistics report The bottom of the report contains a listing of the composite statistics for the entire model run for the parameters configured The number provided after the parameter is the total number of model data pairs and the last number is the composite statistic for that parameter for that run These results should be copied to the clipboard for pasting into Excel or some text editor A good practice is to save these statistics in each run s directory for quick future reference DS International LLC 5 12 EFDC_Explorer 5 4 2 Time Series Comparisons 5 4 2 1 Model Data Configuration The Time Series Comparisons frame contains the buttons that configure Define Edit and plot Plot a series of EFDC cells and measured time series data Once configured the linkages between the EFDC cells and the data is auto
60. 2000 3000 4000 5000 6000 7000 8000 Distance m Figure 5 6 Example Bed Top Profile for water column and sediment bed DS International LLC 5 5 EFDC_Explorer 5 2 3 Mass Balance Tool The Mass Balance Tool Figure 5 7 allows the user to evaluate the total model s sediment and or toxic balance as well as determining the mass fluxes through each boundary Time series plots of the mass loading through the flow type boundaries can also be obtained see Figure 4 52 The mass loading plots can be obtained and used without computing the mass balance This tool is computing the mass balance based on model output snapshots The smaller the output snapshot interval the more accurate the reported results will be 5 3 EFDC Mass Balance Toolbox E Model Results Timing Mase Balance Computation Options From To Date Range 1096 14 f 456 06 Parameter water From To H Times Water Surface 1096 14 H 456 06 Water Column 10961 14561 Sediment Bed Ma Maa Velocities 1096 1 1456 1 Water O uality 1096 1 14561 View Timesteps Export File Browse Return View Loadings so Figure 5 7 Mass Balance Tool Options Form Comparison Data The Comparison Data tab shown in Figure 5 8 also provides access to the compare model input currently limited to bathymetry and model results currently limited to water surface and velocities functions Post Processing Optio
61. 35 Table 7 5 List of sediment diagenesis parameters and sub options available 1 36 Table 8 1 Summary of ViewProfile toolbar cccccccsecceecaeeceecaeeceecaeeceecaeeseesaeeseesaeesans 8 3 Table 9 1 Summary of Time Series Plotting Utility toolbar ec eccecc eee seeeeeeeeeeeeeeeeeeees 9 2 DS International LLC vill EFDC_Explorer List of Figures Figure 1 1 EFDC Explorer Splash Screen ccccccecceeceeceeceeeeeeeecseceeceeeeeeeceeeeeeeeesseseeeness 1 1 Figure 2 1 Main EFDC Explorer form nnnnenonnnnenonnnnensnnnrennnrnrsrrrrererrrrnrsrrnrererrrrersrrnrersrrerne 2 1 FOUG Main Tonm TOODA cas crsrces css enrezenreearecanienqacegennd atasuaieaaeesuancureceesamandanelateauneadaaswrnierecaneends 3 1 Figure 3 2 Project Open Main FOI iin incisiiesuictacadenacsseanstabbadesadibecudiceuadnindsdenadwsdwededddbdunediaiens 3 1 Figure 3 3 Select Directory Open Operation ccccccecceccsecceeeeeeceeeeeeceeeceeceeseeseeeeeeseeeseees 3 3 Figure 3 4 Select Directory Write Operation cccccccecceeccseceeseeceeeceeeeeeceeeeeeseeseeseeesaees 3 4 FOUS 20 PE Sep eea sai aa aa n a a a aa 3 5 Figure 3 6 EFDC_ Explorer settings TOMI iacecncincscvnsennsannsennsexasassauensesnsewnsanedddndensseandexsseensensecness 3 6 Figure 3 7 Julian to Gregorian Date conversion ccccccecceecceeeeeeceeeeeeceeeseeceeeeeeeeeeseeseeeaeees 3 7 FOUS oG TOODA UNCION sorina E EAE 3 8 Frouwe S9 an
62. 5 or e SEAGRID Signell 2007 EFDC_Explorer can also import the grids from the following models e GEFDC Hamrick 2007 e CH3D WES version and University of Florida version and e ECOMSED In addition to these grid generation import options EFDC_Explorer can import a generic set of nodal points x Upper Right Topographic Information File Easting QB 0 e sProjects FDEP Perdido Model Qutlines amp Data InitialwQ_199 Organic carbon dat Browse EFOCINP Template File JE Projects FDEP Perdido M odel Build0S Aund0etde inp Browse Grid Element Generation Options Lower Lett az EE Grid Type Cartesian Curvilinear EE Import Grid ha Easting Morthirg Uniform Grid l C Expanding Grid Rotation Angle fo Lower Lett set to Data Update Upper Right Easting o Delta E res Easting o o Northing o Delta E rnr o Morthirg o Uniform Grid Roughness Channel jo g2 Active Cell Polygon FO Browse FloodPlain oos Channel Folygon P Browse Elevation Options Cell Test Moo Average all z s in Cell f Flat Bottom B Jn Water Surface ottom Eley m HC Ai Use Minimum 2 Bottom Slope Direction ene H of Water Layers E Use 2 at Cell Centroid Bottom Slope J Direction fo Cancel Keep Titles _ Generate Figure 6 1 Generate new model options form with expanding Cartesian option DS International LLC 6 1 EFDC_ Explore
63. 69 T TURB QQQ 0 0200 T VERT DFUSN 0 0010 TADY TRANSP 0 0000 TLRPD 0 0000 T MISC TIME 0 0000 CPU USER 0 1249 CPU SYSTEM 0 0187 ELAPSED TIME 0 1561 CPU TIME 0 1436 Water Surface From 0 04 To 0 05 Snapshots 40 Water Column From 0 04 Fo 0 05 Snapshots 40 Sediment Bed From N A To N A Snapshots N A Velocities From 0 04 To 205 Snapshots 40 Figure 3 10 Example of the model run times DS International LLC 3 12 EFDC_Explorer 3 10 ViewPlan Viewer The ViewPlan button of the main toolbar provides access to the utility for viewing two dimensional 2D plan views of the model This function is used for pre processing visualization and editing of the grid initial conditions and boundary conditions Once the model has been run and output files generated see Section 7 1 ViewPlan can be used to view 2D plots extract model cell time series and vertical profiles and other post processing visualizations and analyses Section 7 contains a more complete description of the features and use of ViewPlan ViewPlan has many options and features for displaying background maps georeferenced bitmaps line features e g shorelines labels measured data model data residuals and many more An example plot is shown in Figure 3 11 of Perdido Bay s bathymetry with the 250K scale USGS topo map in the background a timing frame showing the Gulf of Mexico tide level at the date time indicated in legend and the location I
64. 7 LOG 3627016 144355 15 gt 0 AN1599 112271NK 2APFEAD 21854415 N Data Format B 2 TB2 XYZ Gridded Data This format iS a compact way to store regular grid xX Y and Z data It contains three lists each with the number of data points as the first value in the list The file contains a list of the X coordinates a list Y Coordinates anda list of the 2s 62660 OSTO aor GIC6624 Oo Joda 22030 NZ er come rod 20 246999 72 1040890 DS International LLC B 1 EFDC_Explorer The DX format is described by the following outline Data Format B 3 DX Polyline Polygon File actual left side of the file Loop over nPts Notes Contents of line beginning Column 1 of the actual file Line01 Description Line Line02 Polylines LineOlpl Index nPts branch type angle deltax Line02p1 PolyLine ID Line03p1 PolyLine Desc Line0lpini X Y or X Y Z Data Points Line02p1n2 IX Y Or X Y Line03p1n3 X Y Or X Y Linennp2nn X Y or X Y Z LineOlp2 Index nPts branch type angle deltax Line02p2 PolyLine ID Line03p2 PolyLine Desc Line0lp2n1 X Y or X Y Z Data Points Line02p2n2 X XY Or Ayes Loop over nPts Line03p2n3 X Y Or X 74 Linennp2nn X Y or X Y Z Example HR Test Sections 2 EOE O O XSO022 Geomorph XS022 55907 8741026827 910678 55907 2507413484 910678 55906 6273800142 910679 299909 L95796 eD 55905 3806573456 910681 55904 7572960113 910681 55904 1339346771 910682
65. Ammonium Nitrogen 804 Hefractory FOC 815 Nitrate Nitrogen 505 Lakile POC 16 Part Biogenic Silica 806 Dissolved Org Carbon S17 Dissovled Available Silica 207 Hefractory FOP 218 Chemical Oxygen Demand 508 Labile FOP 815 Dissolved Onyqen 209 Diss Org Phosphorus 820 Total Active Metals 810 Total Phosphate S21 Fecal Coliform Sll Hefractory PON S22 Macroalgae Derived Water Quality Parameters 823 Total Organic Carbon S24 Total Nitrogen 25 Total Phosphorus 26 Chlorophyll a S27 Total Organic Nitrogen 826 Total Inorganic Nitrogen 8229 Total Organic Phosphorus B30 845 Algae Growth Limits Not Avail 843 Particulate Org Carbon 850 Particulate Org Phosphorus S51 Particulate Org Nitrogen 852 TSS Inorg Org 8453 Total Hjedahl Nitrogen Clipboard le Figure 5 15 Available calibration parameter codes DS International LLC 5 14 EFDC_Explorer 5 4 2 2 Time Series Plots The Plots function allows the user to view on screen or export the plots that are currently defined and enabled i e Use flag 1 The Plots function loads the EFDC model linkage files e g EE out reads the observed data files and then scans the model linkage files to build the model data plots The user can press ESC during the model output loading process to abort the loading and plotting When the data has been loaded the time series plotting utility is displayed This is the same utility use
66. Browse Modify Options Set Initial Conditions Use Constant Operator or W alue fo Use Point Measurements Gridded Data O Assign Value Using Vertical Profiles Options Layer Options Set for All the Layers Laver i Inside Cell T est i Centroid Sal Comers H E Include Centroids Done Read P20 Figure 4 46 Apply Cell Properties via Polygons DS International LLC 4 39 EFDC_Explorer The Poly File field is an optional field to specify a polygon file in P2D or DAT formats that contains one or more polygons Cells that are inside the polygon s using the Inside Cell Test options will be adjusted according to the options specified in the Modify Options frame If the Poly File is missing EFDC_Explorer will use all of the cells in the model The XYZ File is an optional file that identifies the measured or otherwise determined data that the user wants to assign to the EFDC cells Generally this file is required unless the user is simply applying a constant to the cells or is applying an operator Under the Modify Options frame various functions and features will be displayed based on what parameter or process the user is assigning or modifying In this case Figure 4 46 salinity is being assigned The user can select either to apply an operator to the currently defined field or interpolate the data in the XYZ File to the selected cells via the Poly File Nearest
67. C The interpolation process has two options nearest neighbor interpolation or cell averaging Cell averaging should be used when the imported data is denser than the EFDC model grid this will usually be the case The nearest neighbor interpolation scheme should be used if the imported data is sparser than the EFDC model grid An example of the XX component of the radiation shear stress is shown in Figure 4 13 Apply Cell Properties via Polygons Wave Data Poly File Browse ere File C Projects40 ceanPointesA efD if ang dat Browse Modify Options Set Weave Field Parameters C Use Constant Operator 0 Use Point MeasurementsGridded Data Options Use Nearest Neighbor Wave Field Parameters SMP tes ts omen O Average Data Inside Cells Interpolate Empty Cells Inside Cell Test f Centroid acts Comers H lz Include Centroids Figure 4 12 Wave generated turbulence import data form DS International LLC 4 11 EFDC_Explorer see eee wa i t Sea he ae 7 S 7 ix i o ji in g kN ia a a ht i 4 X ee eee mti 4 ee a m a Per aS Wave Params aa e 74 16 0 000 16020 ae a Radiation Shears XX A J 7 i D Li Figure 4 13 Wave parameters Radiation shear stress XX component i B ri r 2 tone a Milby eee ae apih aes e ne m _ ca gy get ee EE A EAn jimin aa a a a g pe d Frag a Ma TT ati O r s pri Eo oe r i gt P ereng s Tew n r a e N F 5 i a el l
68. C model linkage files e g EE out reads the observed data files and then scans the model linkage files to build the model data plots The user can press ESC during the model output loading process to abort the loading and plotting When the data has been loaded the vertical profile plotting utility is displayed This utility displays up to 8 model data vertical profiles per page The following graphic shows the toolbar functions elo ala H The first group of left and right buttons move to the previous and the next vertical profile Stations respectively The 1 and gt A buttons export the current or all defined dates for the current station respectively to a Windows EMF file The and buttons move back and forward in time for the current station The PgUp and PgDn keys have the same functionality The remaining buttons provide formatting control over the plots DS International LLC 5 18 EFDC_Explorer As an example of the vertical profile plotting function Figure 5 21 shows a single page containing a subset of time snapshots for salinity for a data single data station for a 5 layer model ples 18 Aug 99 10 15 Model 594 4167 Elevation m 0 8 16 24 Salinity ppt 32 jpa 15 Dec 99 10 03 Model 713 4167 Elevation m 16 24 Salinity ppt 32 St Lucie Estuary Tide Calibration Vertical Profiles SE 01 Model Cell 113 16
69. Coh Bedload Bed amp Consol Initial Conditions Erosion amp Deposition Parameters Parameter IC WC Cone mg l IC Bed Mass g m2 per layer Specific Yol m3 q Cohesive Settling Flag ig Specific Gravity Settling Vel m s Tau Critical Deposition m2 s2 Tau Critical Erosion m2 s2 Ref Surf Erosion Rate g m2s Erosion Exponent Cohesive Armoring I Surface Erosion Opt I WRSP 0 3 Reference Void Ratio IWRSP 2 3 Cohesive Fluids Concentration Cohesive Hiding Factor Exponent Correct Bottom Layer Conc 0 1 Min 5000 mg l Diameter um Viewing Only Max ft 0000 mgl Figure 4 19 Sediment Transport Cohesives DS International LLC 4 16 EFDC_ Explorer Figure 4 20 shows the form with the Non Cohesives Suspended tab shown It is similar in function and operation to the cohesives tab Grain size for each non cohesive class is required for the sediment transport computations This value is also used as the grain size for the dso calculations A number of options for computing equilibrium concentrations are available in the Equilibrium Conc frame This includes the option of equilibrium concentrations calculated from Sedflume data with or without critical shear stress Setting the settling velocity or the critical shear stress values to numbers lt 0 results in EFDC computing those parameters values using the Van Rijn equations 1984a 1984b Pressing F1 for help pops up information relevant to the curr
70. Curvilinear Grid Model EFDC Time 117 750 Days Elevation m 7 50 Legend Bottom Water Surface 0 2000 4000 6000 8000 10000 12000 14000 16000 18000 Distance m Figure 5 3 Example water surface elevation profile with bathymetry DS International LLC 5 3 EFDC_Explorer 5 2 Miscellaneous Analysis Access to Single Column Sediment Layer analysis Bed Top Profile and a Mass Balance Tool are located in the Misc Analysis tab Figure 5 4 Post Processing Uptions Profile Series Calibration Plots Output File Loading x Single Column Sediment Layers Bed Top Profile E Load Results Reload Show Top j2 a2 Mass Balance Tool Model Results Loaded Top Series Export at Fue Profile Location Options Estua Humber Use Drape Line ec Show Layers Show water Figure 5 4 Tab Miscellaneous Series 5 2 1 Single Column Sediment Layers The features located in the Single Column Sediment Layers frame all deal with analyzing in detail a single cell and its sediments with time These options produce single cell plots similar in style to the profile plots but for only one cell You can use the PgUp and PgDn keys to scroll up and down in time or press the animate toolbar button to view the consolidation in time Figure 5 5 provides examples of results using th
71. D of the defined calibration stations Food Perdido Bay Water ua ctl 1994 je ym ia ao Lewd a oft F A AR i ot AA Bottom Elev ft ips ek y oe Tate 43 23 6 Nov 93 00 a i 7 m aa a E Be d a i J be J a i Fos r E Sees el f FT an F 1 p 2 SEN Mi a Soni Li tg ail Lo oral rki E r Tai T nh a ak oe mhe D a E A E Figure 3 11 Example of ViewPlan output for the Perdido Bay water quality model DS International LLC 3 13 EFDC_ Explorer 3 11 ViewProfile Viewer The ViewProfile button of the main toolbar provides access to the visualization of the 2D vertical section post processing utility of EFDC Explorer An example of the type of plot available is shown in Figure 3 12 This plot shows a 2D profile of dissolved oxygen along the user defined transect shown in Figure 3 11 see the black dotted line for Perdido Bay Section 8 contains a more complete description of the features and use of ViewProfile Perdido Bay Water Quality Calibration 1994 t c 2 5 i i i t t gt i i i 3 m i i i 7 Legend Specified IJ 1 Aug 94 10 Dissolved Oxygen i i 4 9 mg l 1 i i gt K EE g 9 at ei o VvV i 7 E i gt 2 gt ms i Hi i i 11 0 5000 10000 15000 20000 25000 30000 35000 40000 Distance m Figure 3 12 Example of ViewProfile output showing dissol
72. DS International LLC 4 41 EFDC_ Explorer manage the boundary conditions If the user needs to specify the water column parameters on a cell by cell basis the EFDC_Explorer user needs to manage each cell as a separate group The boundary condition time series available in EFDC are displayed in the Number of Input Tables and Series frame see Figure 4 47 The number of currently defined tables and series are displayed along side of a button labeled E A time series boundary condition editor is displayed if the user clicks the E button see Sect 4 12 7 Currently EFDC_Explorer does not provide a GUI for the Jet type boundary conditions However if the user defines these outside of EFDC_ Explorer they are maintained as defined when EFDC_Explorer reads and writes the project 4 12 1 Spatial Factors for WSER and ASER The Wind Data frame provides access to the WSER spatially varying options The wind sheltering coefficient can be assigned using the Sheltering button and or edited in ViewPlan If you are using more than one WSER series you must distribute the wind field assignments This is done using the Series Weighting function To build a spatially varying wind map the user needs a XYZ DAT file with the location of each station or desired maximum weighting location The third column contains a 0 or a 1 depending on which station is currently being assigned The wind series weight for each station used mu
73. Delta x 141 1 Total x Delta Y 34 5 z Water Depth Layer a l Roughness 0 02 Total sets VegType Sed Class _ PART Wind Shelter Options Centroid x 56731 2 Sediment Bed C Top Layer Centroid Y 909162 39 62 Time 18 00 361 1 Thickness Angle 1 1724 Sed Mass Cell Type C Sed Frac Mass kg m 2 C Porosity Masks West South Sediment Class 1 C d50 Layer Totals oie C Toxics Cancel Total Sediment Bed Mass kg m2 x Enable Edit x Show Grid Bed Processes Shear Total Shear Coh Shear NonCoh Bedload Layer 2 105 5725 15 72063 4 Use 119 054 4759123 9 i C Velocities C Cell Map ID DS INTL Py Metric X 56 712 7 Y 909 152 6 Figure 7 15 Viewing Options Sediment Bed with Cell Editing The sediments can be viewed a single class at a time or all together as total sediment The user needs to specify either the Total Seds checkbox to select all classes If only one class is desired uncheck the Total Seds option and specify the class in the Sed Class field DS International LLC 7 28 EFDC_ Explorer The Delta function displays the differences in bottom elevation between the initial condition elevation and the bottom elevation at the current time The computation is BotEl BotElic therefore delta s lt O indicate scour and delta s gt O indicate deposition In order for the Delta option to function the bed morphology option needs to be
74. Diffusion Turbulent Intensity Wave Options No wave Effects C Internally Generated Wind Wave Bed Shears Wave Effects B oundary Layer Only Wave Parameters amp Options Wave Pernod Seconds 14 Activate Boundary Layer Impacts i Wave Effects Boundary Layer and Currents Rotational Radial Stress fi Inotational Radial Stress 1 Number of Wave Cells E H of Steps Between Wave Updates 1000000 of Steps to Transition to Waves 200 a Fraction of Diss In Vertical TRE Closure Import Existing Data Fraction of Diss In Horz 556 Closure i Set Spatially Varying Wave Inputs Weight For Depth as Eddy Wis Length Scale lo Sgt Dsdy Weight as Eddy Wis Length Scale h Include Wave Stokes Drift In Mase Transport fo Figure 4 11 Wave Turbulence Tab Wave Options Figure 4 12 shows the main import field interpolation form for the wave parameters The user must match the input data file which should be in XYZ format tab space or comma delimited to the parameter drop down list Wave Field Parameter options shown in adjacent inset The user can either have wave height 2 wave amplitude or wave energy EE will compute the one from the other The user has the option of using a polygon to select which EFDC cells will be used for the assignment If a Poly file is not selected then the assignment operation will be for the entire model domain EE interpolates and converts the wave model results into the formats needed for EFD
75. EFDC_Explorer whose geometric mean of the upper and lower limits is the corresponding sediment class diameter When the user clicks on the Apply button after all the inputs have been provided EFDC_Explorer generates the sediment map in memory and then writes out the files The current sediment map if any will be replaced by the new one It is recommended that the project be saved into a new subdirectory prior to implementing this option in order to save different versions of the sediment bed configurations Figure 4 27 shows an example of a digital sediment model derived from sediment cores The data contained grainsize distributions by depth interval The black diamond symbols show the locations of the cores The plot shows the resulting depth averaged dso grainsize Tra Khuc Base Case Sediment Bed 171 4 Time 210 00 671 1 d50 um Layer Totals Figure 4 27 Example digital sediment model generated from sediment cores with grainsize DS International LLC 4 23 EFDC_Explorer 4 6 4 Toxics The toxic transport parameters and options are set using the form shown in Figure 4 28 The number of toxics included in the simulation are displayed in the top frame titled Major Settings This can be changed by the user but since boundary and initial conditions are predicated on the number of toxics changing this value resets many of the toxics inputs Therefore this should only be changed when the user is prepared to re
76. Editor NUE ee pr Company Data amp Defaults Edit Default Precision for Write Operations Prec Elevations amp Depths 3 amp amp Y Locations 1 Time Display D ays 2 Cancel Figure 3 6 EFDC_ Explorer settings form DS International LLC 3 6 EFDC_Explorer 3 4 Julian to Gregorian Calendar Converter This toolbar button brings up a calendar conversion function Figure 3 7 that allows the number of days to be calculated from the time of a Base Date to the time of a specified Gregorian calendar date If the Gregorian date entered is before the Base Date a negative number of Julian days in given This tool can also be used to determine a Gregorian Date given any number of days before lt 0 or after gt 0 a given Base Date The default Base Date is the Projects Base Date However the user can change the Base Date in this utility without impacting the Project s Base Date Julian lt gt Gregorian Date Conversion x Julian Date Gregorian Date B50 Hi 08 Feb 2008 11 00 44 Base Date 472972006 11 00 44 4 se Ef Figure 3 7 Julian to Gregorian Date conversion DS International LLC 3 7 EFDC_ Explorer 3 5 Toolbag General Utilities The Toolbar function provides access to a range of general utilities that support the modeling process but may not be directly related to the EFDC model Figure 3 8 shows a screen capture of the current functions available under t
77. F s Display Line Statistics by Time Blocks Export Metafile Save the Layout to a File Load the Layout from a File Change Eey Font Set the ViewFort to a Specified Size Toggle Greyscale Color Ramp Toggle the Display of Titles Compute the averages for the time series Integrate the time series Compute the 4 of Time the Y Values Specified level Left Mouse Click on a Cell to Display Cell Data Clipboard e i Figure 8 3 ViewProfile keystroke functions Note the ability to display lines as Cumulative Distribution Functions CDF s This feature may be toggled on and off with the use of ALT C Other useful tools are the ability to display Line Statistics by Time Blocks ALT S and to be able to compute the of time the Y Values are ata specified level Ctrl L Ctrl can be used to Integrate Curves by using a simple multiplication where x is time days and y is Q m s The user should adjust between units in days and seconds when prompted Ctrl A average calculates average of the data which is then sent to the clipboard so it can easily be copied to Excel or other programs DS International LLC 8 4 EFDC_Explorer 9 Time Series Plotting Utility Many of the plotting features of EFDC_ Explorer use the Time Series Plotting TSP utility In addition to time series plotting the TSP is also used for any XY plot as well as ViewProfile but with a completely different plotting subroutine Figure 9 1 shows a screen
78. Figure 4 6 Tab Computational Options If the user has elected to Activate Temperature then the drop down list provides several options including Atmospheric linkage Full Heat Balance External Equilibrium Temperature Constant Equilibrium Temperature and Equilibrium temperature CE QUAL W2 method EFDC_DS only The Global Transport Options subframe allows the user to select from Upwind Difference Central Difference and Experimental Upwind as well as to use Anti Diffusion or Anti Diffusion Correction methods The Numerical Solutions Options frame provides access to several of the numerical solutions schemes available in EFDC Most of the recent development and testing has been made using the conjugate gradient solver Solution schemes available are Standardized 0 Ordered R B Conjugate gradient 2 reduced R B Conjugate gradient 3 and Conjugate gradient for Wetting and Drying 9 Internal Buoyancy forcing options can also be selected The 3 Time Level 3TL or 2 Time Level 2TL Options allow the user to select the method to be used for numerical simulation If using the EFDC_EPA model with GVC layering the Time Level must be 3 Time Level If using the 2TL solution the Momentum Equations Solution frame allows the user to choose between explicit and implicit solution options If using the 3TL option the user must specify the momentum solution option ISCDMA of Upwind Central and Upwind f
79. INP file from another project and initialize the settings for the current project with those from the loaded project After the user initializes the parameters they can modify the settings during the model development stages The diagenesis values from the Chesapeake Bay ICM application Cerco amp Cole 1995 provide a good starting point for diagenesis model parameterization Sediment Diagenesis Options amp Parameters Constants amp General Diagensis FAates Initial Conditions E patially Y arming OS DICILINF Spatially Constant IE s Spatially Varying IC s gio Projects FDEP Perdido Modeliw Model Cal 2007 1002 Aunt 04 Final wasdici inp Use Benthic Mixing Hysteresis Settled Algae Nutnent Split to Gi Classes Benthic Mining Hysteresis Parameters Spatially Constant Sediment Flus Parameters N F Spatially Constant Parameters H25 CH4 500 Spatally Constant Parameters x Write Restart file IwLSORST OLT Diagenesis Stoichiometry Activate diagnostics to 7BRENT LOG Spatially Constant SILICA Parameters Load Settings Cancel OE Figure 4 34 Sediment Diagenesis Diagenesis Options DS International LLC 4 29 EFDC_Explorer In addition to the diagenesis kinetic parameters the sediment bed diagenesis initial concentrations also need to be specified This can be accomplished by applying measured data for each parameter using the Spatially Varying IC s button When pressed the form show
80. Load Results Reload View Vertical Slice of Grid Water Surface Protile Profile Location Options Use Drape Line cicu Metric Ds Ver 090910 Time Step History Figure 2 1 Main EFDC Explorer form DS International LLC 2 1 EFDC_ Explorer 2 2 General Program Operation Upon starting EFDC_ Explorer the user will be presented with the form shown in Figure 2 1 This form is basically divided into three parts At the top of the form the main Toolbar is shown providing quick access to many of the primary EFDC_ Explorer features and actions The main form is then divided into two primary sections The upper section represents the pre processor functions and the lower section provides access to some of the post processor functions The operation and further instructions for each of these groupings will be described in the following sections 2 3 EFDC Explorer Files The main control file for every EFDC application is the EFDC INP file EFDC INP is an ASCII file structured into card groups that generally have the same basic objective e g card group 8 C8 contains the settings for the run time but it also contains other miscellaneous parameters This file contains almost all of the computational options and data settings The EFDC model uses fixed file names e g DXDY INP based on the type of information each file contains The files that are required for a model application vary based on the computational and grid optio
81. NTIAL FORM BINARY WRITE 97 VER FILE FORMAT VERSION WRITE 97 1 OF TIME VARYING ARRAYS FLAGS ARRAY TYPE TIME VARIABLE ARRAY TYPE 0 S L DIM D 1 eke DIM D 2 L 0 KC DIM D 3 L KB DLIM D 4 L KC NCLASS DIM D TIME VARIABLE OQ NOT CHANGING 1 TIME VARYING WRITE 97 0 0 ARRAYNAME WVKHV WRITE 97 ARRAYNAME DO e 2 208 WRITE 97 WVKHV L ENDDO ENDIF x TIME VARYING ARRAYS WRITE 97 2 1 ARRAYNAME QQ WRITE 97 ARRAYNAME DO 2 A DO K 0 KC WRITE 97 QO L K Turbulent Intensity ENDDO ENDDO ENDIF C DS International LLC EFDC_Explorer Appendix B Data Formats DS International LLC B 1 EFDC_Explorer Data Format B 1 P2D Polyline Polygon File Any number of polylines polygons can reside in the same file Each one begins with a single line header that is used as the ID of the polyilane polygon Next comes the data im either 2D or 3D rormat the importing automatically handles either Finally the polyline polygon is finished not necessarily closed by an in column 1 There is no difference between polyline and polygon ina P2D file only how the data are treated by the application reading the file Polyline Test GOO1LIS 69390674 S643612 72035394 0 608628 057738002 30429223939 rG I4 608569 186338242 3642232 06904821 0 608396 604307826 3640908 94563456 0 601493 oA 7946 362671134 k90 0 GULAGA 566301699 36277603 9974 1289 0 GOLL 41135
82. O00 s0000 0000 000 0000 EFDC_Explorer
83. Opt View specific pre processing functions are discussed in the respective sections below ViewPlan is used for both pre and post processing Therefore if model results are loaded the user needs to make sure the current time is set to the 0 time or initial conditions Of course only initial conditions data can be edited the model results cannot be edited When the user desires to edit the initial conditions make sure the timing scroll bar is moved to the far left The Enable Edit check box should then be displayed and enabled As a safeguard to prevent inadvertent data modification you can only edit data if the Enable Edit check box is checked The following discussions assume that the above two conditions have been met 7 4 1 Single Cell Edits To edit the cell properties of a single cell RMC on the desired cell Depending of the Viewing Opt either the cell editing form will be displayed or a popup menu will be displayed If a menu is displayed select Edit The Modify Edit Cell form is then displayed see Figure 7 4 You may enter a new value for any of the parameters displayed or use an operator see Sect 1 3 4 DS International LLC 7 17 EFDC_ Explorer 7 4 2 Multiple Cell Edits A group of cells may be edited at the same time using the same Modify Edit Cell form The groups of cells may be selected in one of two ways The simplest is to use the Alt RMC and drag method to select a group of cells withi
84. Organic Carbon on po fossovesoweon femre oae Lmt Temperatre Cyanobaciera LimT G Algae Limit Temperature Green Algae EFDC_Explorer Derived Parameters DS International LLC 7 35 EFDC_ Explorer 7 6 12 Sediment Diagenesis Specified Fluxes If the full sediment diagenesis sub model is being used then the user has the ability to view the concentrations and or resulting nutrient fluxes using the Diagenesis Viewing Opt If the user is applying a constant or time variable specified nutrient flux then the user can view the nutrient flux zones and flux rates using the Sediment Flux Viewing Opt Viewing Opt s Diagenesis m Timing 4 b 1 6 12 1 Sediment Diagenesis m Options When the full diagenesis option has been selected the Viewing Opt Diagenesis is available to view edit the initial concentrations and after a model run post ees process the concentrations and nutrient fluxes An example of the Options O G Class 1 frame is shown in the adjacent graphic Below the dropdown list for the diagenesis parameter is a sub option area that changes with the parameter selected I G Class 2 G Class 3 Show Zone Table 7 5 List of sediment diagenesis parameters and sub options available Abbrev Name Sub Options Benthic Stress BenthicStess To Sediment Temperature not linked to heat sub model NHA Flux Ammonium Flux between Sediment Water
85. P file for the different models Care must be exercised to ensure that all the parameters have the desired values when switching models see Section 4 2 3 2 Printer Setup The current default printer is automatically used by EFDC Explorer Figure 3 5 shows an example printer setup form that appears when the highlighted toolbar button is pushed If no printers are available during the startup of EFDC Explorer it will display a warning but will continue Besides being used for printing the settings from this form also impact certain exported graphics The primary setting used is the portrait versus landscape option to set page orientation Page amp Printer Setup Printer Settings RP Pitomat C120 sins HP Photosmart C4200 HP Photosmart C4200 series Letter 81 2x11in Ef 6 1 2 x 11 in oe Page Onentation j __ Show Printers _ Printers Portrait Landscape Margins 8 Printable T f u E oa Left i B Fight fi B oa Bottom ji B o Cancel e All margins are expressed in inches OF a Figure 3 5 Printer Setup DS International LLC 3 5 EFDC_Explorer 3 3 EFDC Explorer Settings This toolbar button allows the user to specify some installation specific parameters like the location of the EFDC executable to use as well as project specific settings like default precisions Figure 3 6 shows the settings form The precision settings are for setting the output display precisions for the indicated data
86. Popup Menu 7 6 6 Fixed Params The Fixed Params Viewing Opt provides access to viewing and editing parameters that are invariant in time These parameters include Viewung Opt s Fired Params e Roughness e Cell Angles e Wind Shelter shown only if WSER gt 0 e Shading Factors shown only if shading is used e GVC Layers shown only if GVC Model is used e Groundwater Map shown only if groundwater is activated e Wind Series Weightings shown only if NWSER gt 1 e Atmospheric Series Weightings shown only if NASER gt 1 GVC Layers Show Layers C Sigma Type C Bad Cells Most of the Fixed Params do not have sub options Only the GVC Layers option has sub options The adjacent graphic shows the options area when the GVC Layers was selected When viewing the GVC Layers RMC ing on the model provides the user with several options to reset the layering or compute the layering using specified surface and bottom reference elevations The GVC layering type impacts the assignment process The vertical layering type needs to have been set to 1 for GVC or 2 for local Sigma Bad layers will display the cells whose bottom elevation relative to SELVREF is bad when using automatic layering DS International LLC 1 24 EFDC_Explorer 7 6 7 Model Metrics The options available to the user in Model Metrics drop down menu are CFL Time Step Courant Orthogonal Deviation Celerity The Coura
87. Projects EFOC_Explorer E xamples Mobile 2006 6 ase g Create Hew Cancel Figure 3 3 Select Directory Open Operation An option to open a previously EFDC_Explorer saved archive file is given These files all have an extension of efdc for example CedarRiver efdc When you select the Open Archive check box the right panel only shows the available archive files in the selected directory The Scale input box allows the user to apply a conversion factor to the centroid units used in the LXLY file EFDC Explorer defaults these units to meters Many applications use kilometers UTM s or miles as the unit base in the LXLY file For the model to be correctly displayed the user must convert these units to meters which is done by entering the conversion factor in the Scale box when loading the model for the first time Note When a model is loaded and then viewed and it looks like a bunch of large cells stacked on top of one another it is likely to be a LXLY units conversion issue Historically different versions of EFDC used different CELL INP formats EFDC_ Explorer automatically handles the file format to correctly load the CELL INP file Similarly the main EFDC INP file and other input files have changed over the recent development history of EFDC EFDC_ Explorer attempts to correctly read most of the historical input files while ensuring the latest version works and is the standard The check boxes concer
88. RMC ing the updated value would be 0 03m The cell color would be updated DS International LLC 7 18 EFDC_ Explorer 7 4 4 Data Field Smoothing The bathymetry salinity and temperature data can be smoothed over the whole domain or using a polygon to subset the cells Pressing Ctrl S displays the smoothing control form The Load button in the Polygon frame can be used to input the polygon file otherwise the entire domain will be used Enter a weight in the Smoothing Factor input box and then click Apply as many times as desired Each click performs a single pass through the data After each pass the data are redisplayed so that the user can view the results prior to applying another smoothing pass 7 5 General Post Processing Functions The basic use of EFDC_Explorer s ViewPlan post processing function is 2D maps of various parameters at user specified times The viewing options have many variations depending on the context For example for water column information the user may specify depth averaged results or review the results for each layer of the water column Another example is for the sediment bed for which the user may view the results as either mass weighted depth averaged results e g dso S total mass summed over all the layers or layer by layer The desired time is scrolled to using the Timing scroll bar using the PgUp PgDn keystroke combinations or Ctrl G to jump directly to a specific date The
89. Reference Elevations EFDC_Explorer can set and display the GVC layering Use the Initialize Layering button to set the layering automatically using the Surface and Bottom Reference Elevations You can then view modify and reset the layering in the PlanView function e A GVC grid has two types of cells Local Sigma or GVC cells Local Sigma cells use the number of layers specified in the of Vertical Layers in Sigma Region The number of layers must be less than or equal to KC The Utility Options frame allows the redistribution of the total flow into the active layers for all the flow type Boundary Conditions by pressing the Distribute BC Flows button When using the GVC Grid the Initialize Layering button allows the user to initialize the GVC layering using the Surface and Bottom elevations specified in the Reference Elevations form The Surface and Bottom Reference Elevations should initially be set to something near the maximum water surface elevation and minimum bottom elevation respectively These can be altered at any time and the layering recomputed using EFDC_ Explorer to determine their validity The validity of the layering can be viewed in the ViewPlan function under Fixed Params viewing option DS International LLC 4 4 EFDC_Explorer 4 3 Grid amp General Figure 4 4 shows the Grid amp General options tab This tab has a range of different types of inputs which are examined below WL
90. S Legend Line Formatting Thickness ali 0 02 Inches Color Style a Solid Hidden Symbol a Hidden Details General Options x Show Show az Bars Invalid Flag s95 Y Axes o Transform gt l Let Right Add Subtract Series Figure 9 2 TSP Line Options and Controls form DS International LLC EFDC_Explorer The standard value y axis formatting form is shown in Figure 9 3 It is accessed by RMC on the y axis Main Y Axis Labeling Options Title amp Axis Bounds Logrithmic Axis Axis Scaling x Automatic Scaling Max 1125 Major 125 Auto Min jo Hinor 62 5 xX Auto Options Reverse Order Set Default Cancel OK Figure 9 3 TSP Utility standard value axis options form The standard value x axis formatting form is shown in Figure 9 4 It is accessed by RMC on the x axis Most of the options in this form are intuitive However one shortcut to selecting a calendar year is to enter the year number e g 2003 in either the min or max field and then hit enter or tab and the dates will be set along with appropriate tick marks Title amp Axis Tick Marks Axis Title Text Data Properties Bounds M Grid Line Options xX Show Major Use Auto Memon 25Jan 31 af gt Select Properties _ Maximum 31 Dec 0512 00 00PM 4 b Select Axis Line Format Properties a Properties Minor Se
91. Some of the functions only use the water depths and bathymetry i Saree which is always available but some of the functions also require velocities to E have been loaded The graphic to the right shows some of the water level WL Options options grayed out because the velocities were not available The following s sen summarizes the other options nA 6 Pane any Wet Dry Provides a two color display for wet cells blue and dry gray The ear wet dry determination is made using the dry depth unless the Use Wet C Areal Ext D option is checked in which case the wetting depth will be used The EE areas and the numbers of wet dry cells are reported O Delta Use Wet Transparent DS International LLC 1 22 EFDC_Explorer Total Head Displays the total head water surface elevation velocity head v 2g Only available if the velocities have been loaded Overtopping This displays the FEMA defined overtopping depth which is defined as depth Areal velocity head v 2g Only available if the velocities have been loaded Ext H This option displays the FEMA velocity hazard level defined as depth velocity head v 2g The areas displayed and the areas computed are based on the computed hazard level over a specified minimum The user can change the minimum level and EFDC_ Explorer will recompute the areas and display the results Areal Ext D This option displays an inundation map and
92. The following is a description of each type Total Flow The absolute value of the total flux across the section EW Flow The sum of the flows in the EW based on the cell map i e EW I component flow NS Flow The sum of the flows in the NS based on the cell map i e NS J component flow Dominant Flow Computes the total flow across the section and assigns a sign based on dominance The Dominant Flow option is the most useful for most applications If the Poly File has more than one section flux line defined EFDC Explorer will compute the fluxes for all the defined lines up to 10 max Figure 7 14 shows an example of total discharge using the dominant flow option for the San Francisco Bay application San Francisco Bay Demonstration Model hi 50000 40000 20000 10000 i i 40000 Discharge cms oO u Legend ape A Ea S Flow 1 00 1 50 2 00 2 50 3 00 3 50 4 00 4 50 5 00 5 50 6 00 6 50 7 00 7 50 8 00 8 50 9 00 Time Days Figure 7 14 Water Flux tool example results using Dominant Flow Note When drawing the Flux Lines be aware of the fact that the velocities in EFDC are computed on the South and West faces Try to draw the Flux Lines along cell faces to obtain the most accurate fluxes Cell selection is based on the Flux Line crossing through any part of a cell The entire cell face will be used to compute the flux for that cell DS International LLC 7 21 EFDC_ Explore
93. The default is automatic scaling During an animation the water surface elevation changes due to tides and or storm events If the axis is set to automatic scaling the plot appears to jump around due to different scaling at different times maximums to an appropriate range 8 3 Primary Display Options This problem is solved by setting the elevation minimum and The user may select which parameters are to be displayed by accessing the Display Options form by RMC ing on the legend pressing Ctrl O or using the toolbar An example of the form is shown in Figure 8 2 ig Profile Options Sediment Bed P Show Sediment Bed Water Column M Show Water Column J Show Grid e Show Grid Parameter Options Parameter Sediment Range Velocities Seale 1 Sed Mass Mire 0 Salinity Were i Sed Frac Temperature Exageration fi Porosity Max 1000 Dye Reverse Direction _ 150 C Density f Tonics Uptions asics Simple Magnitude Total iE Sediments veaa EE Class fi Wh Guality Time Display Julian Time C Gregorian Date Timing Frame Precisiory 2 E Show Scale 30 Vien University x General Options Label Cell ID s Cancel Figure 8 2 Profile display options DS International LLC EFDC_Explorer Table 8 1 Summary of ViewProfile toolbar General Functions Exit ViewProfile ce i Lihai Ext ViewProfie
94. User s Manual for EFDC Explorer A Pre Post Processor for the Environmental Fluid Dynamics Code Rev 00 November 6 2009 Paul M Craig P E Dynamic Solutions Intl LLC Knoxville TN 37933 865 212 3331 FAX 865 212 3398 www ds intl biz EFDC_ Explorer5 GVC Version Version 091101 Copyright 1999 2009 a Y Acknowledgements The author would like to acknowledge the contributions of several key people that have helped in a number of ways Earl Hayter U S Environmental Protection Agency For his vision and commitment to help develop EFDC EFDC_ Explorer into a tool that can assist the scientific engineering and regulatory community to better understand assess and manage our water resources John Hamrick Tetra Tech Inc For his commitment to the EFDC code and continuous development of EFDC To the Users of EFDC_Explorer that have provided testing feedback and suggestions to improve previous versions of EFDC_ Explorer DS International LLC iii EFDC_ Explorer Table of Contents 1 TELERA a DS a y IAEA AEA AAA AA AEA AREA EAE AEA AAE AEA AEE AASA A 1 1 1 1 EFDC Explorer Gee IS crsa Naa 1 2 1 2 Recent Enhancements to EFDC_Explorer Capabilities ccc ccceecseeeeeeeeeeeeeees 1 7 1 3 O S a A A AA 1 7 Lal Windows Interface tina viencacnacn extant ant wets qxtacamecineeauincenestininermeenerenenciee 1 7 1 3 2 Message Boxes and the Clipboard cccccccecceeeceeeeeceeeeeeceeeese
95. Y XY Dissipation Angle cae O O DS International LLC 7 2 EFDC_ Explorer Time ViewPlan Option Description Sub Options Variable Computed Vars Displays the internal EFDC for the Horizontal diffusivities Ves i selected sub option Other User Defined 7 4 Simulation Results Loading As a post processor ViewPlan requires the output data as well as the input data to be loaded The user can control when output data is loaded using the Output Loading Frame as shown in Figure 7 1 When a file is initially loaded the Output File Loading frame will appear as No Results Loaded until the ViewPlan button is pressed Once ViewPlan has been used the Output File Loading will appear as Model Results Loaded After output files have been loaded they will not be reloaded for that project until the user checks the Reload check box loads a new project or exits EFDC_Explorer and then restarts it The user should note that this is a streamlining over previous versions of EE The user now chooses to either load or not load the results All the old check boxes have been eliminated For some time EE has been using file pointers making the check boxes obsolete Output File Loading IX Load Results Reloadif Figure 7 1 Model results loading options The Reload button is useful when the user is loading the results while the EFDC model is running see Section 5 0 It is better to pause EFDC before you lo
96. _DS the EFDC_ Explorer form will have different options shown in the Heat Temperature frame The following provide an overview of the approaches The EFDC_EPA model uses a new thermal bed model to determine the bed water column heat exchange Tetra Tech 2007c A sediment thermal thickness is assigned for the entire model This thickness is not related to either the sediment transport model s bed or the water quality sediment bed This thermal layer is then divided into KBH layers must be gt 2 A constant initial bed temperature can be used or alternatively the TEMPB INP file can be used to assign a spatially variable initial temperature by layer Check the Use TEMPB INP checkbox in the Bed Thermal Options frame for this option The EFDC_DS version of the model has two different approaches for the bed heat sub models If the standard EFDC full heat balance ISTOPT 2 1 sub model is used the water sediment bed heat exchange model of the pre GVC version is used If the user has selected the equilibrium temperature sub model ISTOPT 2 4 then the bottom heat exchange is computed using the heat exchange coefficient and the user can assign spatially varying sediment thicknesses and initial temperatures using the TEMB INP file DS International LLC 4 25 EFDC_Explorer Various atmospheric parameters can be adjusted using the Modify button in the Heat Temperature form An example of the Atmospheric Parameters val
97. _Explorer ASCI Data Import Form File to Import F Projects FDEP Stevenson Creek Data e fluent Datat w TF_TS_BOD5 wd Browse Data Format EE DAT or WO Data C Yr MM DD HH Values Date Time Values C Yr MM DD Values C JulianD ate Values Date Values YY MM OD HH MM Values C HSPFAWDM Format Time Date Values MM DD r HH MM Values Date Values Not System C Yr MM DD MMMM Values 1440 Min Time Delinntor Space Comma Tab Import Settings Rows to Skip fi Flow Colum E Data Column to Import 2 ot E Import Base Date o Jan 99 Add Date Conversion Factor f First Line Results of Importing i 3171999 2 1 Date Time EEEE Y Value o Cancel Preview Graph OF Figure 4 55 ASCII data time series import form The following provides a quick guide to the use of the ASCII data import form Select the data file to import using the Browse button Select the delimiter Depending on the Data Format selected other options will also need to be selected in the Delimitor and Import Settings frames The Data Column to Import should point to the column number that contains the Y data As changes are made the information in the First Line Results of Importing frame provides the results of the current settings Preview Graph the results of the current settings to see if the import results are what was expected If not make further adjustments as needed until the da
98. ad the data to prevent file handling errors but it is not required especially if EFDC is writing to the EFDC_Explorer files infrequently If the Reload button is checked when the ViewPlan option is pressed it will cause EFDC_ Explorer to reload the model results requested at that time The water depths are automatically loaded as they are necessary for any post processing to be performed The depths are stored in the EE _ WS OUT file This file contains the depths for all the cells for every snapshot time This file is completely loaded into memory when post processing If the water surface file is not loaded no post processing is available For all other model results only the current time is loaded This approach allows for quicker file loading and viewing and allows for very large model results files gt 4 gigabytes to be saved and used However when generating any time series type processing each snapshot has to be loaded for all the times requested Many hard disks have caches to allow frequently accessed files to load quicker Therefore the first time a time series is processed the data may load slowly However the subsequent processing may be much faster During the file loading process pressing the ESC key aborts the file loading process and returns to the main EFDC_ Explorer form DS International LLC 7 3 EFDC_ Explorer 7 2 Introduction The ViewPlan form viewing options is adjusted based on what parameters were simulat
99. al e Post Processor for the 3D sigma stretch and GVC versions of EFDC e Calendar day Julian date labeling of plots and animations e EFDC output file management utility for resampling i e reducing snapshot frequency or merging continuation runs into a single output file e High Frequency Snapshot capability to insert high resolution results snapshots into the standard EFDC snapshot frequency e Optionally plot the color ramp in grey scale for publications e Toggle on off the display of titles on plots for reports and publications DS International LLC 1 4 EFDC_Explorer Post Processor ViewPlan 2D Plan View label cell maps Quickly animate many of the results to the screen or an AVI file Export results to the commercial graphics package TECPIot Compute model results statistics for current view or by polygon Overlay the model with line drawings and labels Display one or more georeferenced bitmaps as a background to the model grid o Several views allow for transparent grid cells to view the background and model results Display a Timing Frame to temporally reference results to a boundary condition like o Tide series o Inflows Outflows o Winds Display spatial scales in various units Generate a new model from the output of an existing model for any selected time View water surface depth maps animations and time series o Transparent Cells for water depths elevations and other water column results o Flood Inunda
100. annel modifiers Care should be exercised in using channel modifiers as model instability is sometimes increased and mass balance errors can occur w Add Edit Channel Modifier xj C U Dominance Y Dominance ChannelPipe Length Length m f Compute Length Cancel Figure 7 21 Add Edit Channel Modifier option form 7 6 16 Wave Parameters If the wave options have been activated Hydrodynamics gt Wave Turbulence then the Wave Parameter Viewing Opt will be available This feature displays the 2D assignment of the wave parameters The input parameters that can be displayed are Wave Energy Wave Height Radiation Shear Stress XX Component Radiation Shear Stress YY Component Radiation Shear Stress XY Component Dissipation Losses Wave Angle In addition the derived parameters listed below are available e Total Depth with wave heights e Water Surface with wave heights DS International LLC 7 38 EFDC_ Explorer 8 ViewProfile The ViewProfile button of the main toolbar provides access to the profile cross section post processing utility of EFDC Explorer An example of the type of plot available is shown in Figure 8 1 The contents of the current cell can be displayed as in ViewPlan by LMC ing on the cell Many of the operations of this feature are similar to ViewPlan 8 1 Slice Profile Selection The Slice Extraction Options frame needs to be set first before a
101. ar Header lines 0 Undefined 1 Polyline indicates the lst line in the file EFDC_Explorer Data Format B 4 Measured 3D Velocity Point Data TecPlot TITLE ADCP TUK Data VARIABLES XT Vy Ba Te We Te em DY ZONE 1257 ea Ky P POmNT Ta Avg Vel So pou OOOO OO Zoo so SOE On LOZ OO 001 DOTS LIE IUCOIULO0 2goc4s AUL0ST0 HOLA O 000 SCISUSIO 200933200 236 45 O 582 OLIZ1e O 0001 2612140 JOS 30 70 200 49 0 05 71 gt SU 2042 S030 t SO 33s 02 IUOS LA 290 2352 39 0 0543 0 1524 0 0007 Data Format B 5 I J K Formatted Measured 3D Velocity Data TecPlot TITLE ADCP Luk Data VARTABI ES S18 Tey OU ye ae Ny TA De ZONE I 40 J 26 K 1 F POINT T Velocity S6723 200 90651 00 286 04 0 0457 0 1574 0 00000 S07 32200 JULO TIUU 200 1 S0320492 0 5635 000000 S6735 00 JUOS TL gO 286 02 040549 U 1552 O 200000 DOF 00 SOGLO 2068 13 O 20 930 HU IAS US OO UO Data Format B 6 Apply Cell Properties via Polygons Assign Value Using Vertical Profiles This file is used to assign a vertical and horizontally variable initial condition field for any of the water column parameters The data is basically a series of vertical profiles at any number of locations The following summarizes the input format for one location This can be repeated for as many locations as needed LineO Data file description Loop over the number of vertical profile locations Lane 14 ID any u
102. ary of each function E Sa alr ial ale oHe llth Fa Figure 7 5 ViewPlan Toolbar Als 3 Table 7 3 Summary of ViewPlan toolbar s Create a new EFDC model using the current time to assign the IC s Julian date gt Gregorian calendar calculator Display options for color ramp vectors grid lines overlays etc Zoom out at fixed increments Pan Left Pan Right DS International LLC 7 9 EFDC_ Explorer Navigation rik Longitudinal profile tool Polyline polygon creation edit tool A point amp click data extraction tool E Multi cell selection tool for general purpose editing using Modify Cell form Bp A rapid point amp click method of cell by cell adjustments using operators View calibration stations data and or Model Data residuals 7 2 3 1 Export EMF Files As most of the modeling efforts end up in engineering and scientific reports it is very important for EFDC_Explorer to have the ability to produce high quality graphics that can go directly into all of the most popular word processing packages The ability to export enhanced metafiles EMF s meets this need EMF s are a native Windows based graphic that easily imports into almost all word processing and presentation packages General statistics tool Results are copied into the clipboard Animation tool Output animations to the screen and or AVI files Post Pro Pre Pro a Post Processing The size and shape of
103. asic nutrient parameters The nutrient parameters have been grouped by nutrient type and can be edited by clicking on the respective button For example to edit the Nitrogen settings the user would click on the Nitrogen button Timing amp Labels Grid amp General Comp Opts Hydrodynamics Sed T ox Others WO General AlgaewG IC s WOBC Misc Initial o Y Bounday Benthic Flux Nutrient Options amp Parameters Computational Method Specified Spatially Varying Fluxes Carbon Mitroager Phosphorus Number of Diagensis ones 2 COD amp DO Modify Parameters _oo0 00 Sorption Option Solar Radiation for Algae None Modify DOUCE Use Solar Rad in ASER INP Modify Total REN Maa TAn Cezar Parameters O Cohesive Sediment Based Daily Avg 350 Langley d Frac of SA is PAR for algae growth 0 75 wet Deposition Dry Deposition Figure 4 32 Tab Benth Nutrients The atmospheric wet deposition concentrations for the constituents being simulated with the kinetic module selected are edited via the Wet Deposition button The dry deposition mass fluxes are edited via the Dry Deposition button The nutrient benthic flux computational options are set using the Modify Parameters button in the Benthic Flux frame Clicking the button brings up the form shown in Figure 4 33 The top frame Benthic Nutrient Flux Method is the option that controls EFDC s benthic flux approach If the nutrient
104. ater Column Spatially Varying Bed amp WC Specify Mass Fraction Initialization of Sediment Beds C Use Polygon DSM C Use Sediment Cores with Grainsize Create Uniform Bed File F Projects Kotzebue D ata S ediment Sediment Sampling Data 5 dat _ Browse Number of Initial Layers f Minimum Layer Thickness mi 0 2 Constant Porosity C Use Constant Porosity Create Labels Interpolation Appl Options Figure 4 26 Tab Sediment Bed Model Initial Conditions Tab 4 6 3 Digital Sediment Model A very useful feature in EFDC_ Explorer is its ability to build the EFDC sediment files from a defined digital sediment model DSM that was generated by some third party package e g Spatial Explorer The DSM format requires a polygon followed by the layer thickness bulk density porosity and grain size distribution for each depth available Sediment depth intervals are based on data More information on the data structure is available in Appendix B EFDC Explorer uses the DSM coupled with the number of size classes requested the maximum size for each class the number of sediment layers and the layer options e g minimum layer thickness to build the EFDC sediment files The Max um sediment diameters one for each sediment class are needed to break the sediment grainsize curves into ranges These diameters are not the class diameters but represent the grainsize breakpoints DS International LLC 4 22
105. be consistent between concentrations and the water column and sediment bed sorption parameters Generally these are in mg m or g m The internal EFDC time units are in seconds For EFDC most of the input files can use any units along with a conversion factor to change the input units to seconds EFDC_Explorer has fixed the user input units to days All of the timing input should be in days and EFDC_Explorer generates the necessary conversion factors to seconds DS International LLC 1 8 EFDC_Explorer 1 4 Terms amp Abbreviations The following is a description of common terms and abbreviations used in this report LMC Left Mouse Click On a standard mouse this refers to the left side button Some Windows configurations can reverse the function of the left and right mouse buttons RMC Right Mouse Click On a standard mouse this refers to the right side button Ctrl The Control key on the keyboard Alt The ALT key on the Keyboard DS International LLC 1 9 EFDC_Explorer 2 Installation amp Startup 2 1 Installation 1 If you received EFDC_ Explorer in a zip file EFDC_Explorer ZIP unzip the zip file into a temporary directory on your hard drive To simplify the cleanup of files later it is recommended that the temporary directory be empty before unzipping 2 You may either a Select File Run from the Program Manager or File Manager and run the EFDC_ Explorer Install program SETUP EXE or b use Explore
106. bel The main difference is the labels in the labels file can be individually formatted while those in the data posting file all use a single format For labels EFDC_ Explorer uses a file with the same name as the file with the labels but with a LBF extension to save the individual label formats When calibration data in the Time Series Section 9 or Vertical Profile Section 8 has been configured the user can use the View Calibration Data Sect 7 2 3 5 toolbar function to DS International LLC 7 15 EFDC_ Explorer display calibration information on selected plots The symbols fonts and time tolerance in the Data Posting File frame control the display format of the calibration data The Global View checkboxes allow the user to turn on or off the entire corresponding feature For both labels and overlays individual items can be turned on or off also To change the display format of an overlay line LMC on the line display Display Options Data Posting File F PropectstFOEPS Perdido Model Outlines amp Data Calibration 199441C Temp dat View Symbol Symbol View Label Font Browse Time Tolerance for Matching Model Times minutes 360 Labels File Global iew F Projects FDEP4Perdido D ata TideSAll UTH dat Edit Labels Save of Labels ol Re Load Browse Overlay Files Global iew x F Projects FDEP Perdido D ata P2D Files VAll Rivers ped Layer Order fi Layers IM _Add
107. ber of the Number of Vegetation Classes into the input box and press return The grid will be expanded to accommodate the desired number of classes All of the inputs required by EFDC are shown with a couple of exceptions The Beta1 and Beta2 variables are actually not used but are included in the list The VEGE INP file must have data in those columns but they are not actually used by EFDC The other exceptions are the ID and Description fields They are only used by EFDC_ Explorer The ID field is used to match vegetation classes to polygon ID s see the following description of Apply Overlays to automatically set the vegetation map that is needed for input via the LXLY INP file The Description field is only used for labeling Vegetation Classes Options Load Existing VEGE INP Special Save VEGE INP Number of Vegetation Classes fi 0 Veg Class Veg Class Veg Class Veg Class Veg Class Yeg Class 1 2 3 4 5 6 ID LOW PFO EM P55 PFO PEM PFO SS Description Open Water Forested Emerc Scrub Shrub Forested Emergent Forested Scrub Plant Density m 2 0 5 5 1 30 20 Stem Diameter rm 0 01 0 2 0 05 0 5 0 05 0 1 Stem Height rm 1 4 2 5 1 3 Alpha depth factor 0 7854 0 7854 0 7854 0 7854 0 7854 0 7854 Betal not used 1 1 1 1 1 1 Beta2 not used 0 0 0 0 0 0 Drag Coeff Factor 0 5 0 5 0 5 0 5 0 5 0 5 4 gt Cancel Figure 4 14 Vegetation class parameters The Apply Overlays button uses the vegetation class ID field and ma
108. button of the main toolbar provides access to the primary utility for the pre processor visualization and map based interface functions as well as the primary post processing utility Table 7 1 contains a list of the main parameters that can be displayed using ViewPlan The Sub Options column lists only the major sub options Almost every function has a number of sub options and features to combine and split the data in a range of different ways These sub options are explored in more detail in the following sub sections Table 7 1 Main Functions of ViewPlan Time WET a rele Displays EFDC model number Cell Indices schemes for amp J indexes and the NA No linear L index Displays the computational cell map CENAR that is saved in the CELL INP file mw me Bottom Elev Displays the bottom elevations Elevation Displays various views using the Wet Dry LET EENES water levels Total Head Overtopping Areal Extents FEMA Areal Extents Depth Boundary C s Displays the model domain with the NA Ves boundary cells shown by type ViewPlan Option Description Sub Options Roughness Cell Angles Wind Shelter l Displays the model input parameters Shading Factors EE Sans that are generally fixed in time GVC Layers me Groundwater Map Wind Weightings Atm Weightings CFL Time Step Courant Displays some model metrics Some Orthogonal Deviation Model Metrics of the sub options are time variable Celerity and others are fixed Froude
109. cancun eased oncscwedintennnuauancdaeieaeadteiunesdaetunadss 7 12 7 2 4 Me me eA oriei A 7 13 feck Fe a Boas san cornain E S eae E ea ams E ES 7 13 7 2 6 apes tee i cei sce eee ee ne ss weed teen a nm dence 7 13 7 3 ViewPlan Display Options cccceccscceecsecseceeeeeeeeeeseceeceeeeeeeeeeeeeeeseeseeesetseteeeaeees 7 14 7 4 General Pre ProcesSsing FUNCTIONS ccccccecceeeceeeeeeceeeeeceeeaeeseeeeeeceeeseeeeeeseeees 7 17 7 4 1 SrO GOl EUS arrr sean ene 7 17 7 4 2 Pe ae Cee E Ie E A EAE PNI EAA E T A AIS EAA EN 7 18 7 4 3 Gell to Cell Copy ASSO ocrni 7 18 7 4 4 Da Fod SMOG ereas ea Eaa 7 19 7 9 General Post Processing FUNCTIONS ccccecceecceeeeeeceeeeeeceeeseeeeeeeeeeeeeseeseeaeeees 7 19 To OG ech cece toad E 7 19 pees General Statistisessa a 7 19 fers Animation of Results ice cersaneawcaiiaserernavecsiuiaserenciaversoeian beeaneseianereriemeaien 7 20 7 6 ViewPlan Main Viewing Options cccccccssccecceeeceeeceeceeeceeceeceeseeseeeeeeeeeeesaes 7 20 7 6 1 O N Go ec ee ae ae ees A te ne ea Teme erent TT Sree ene Trae rer 7 20 7 6 2 Fee e E E E E E OEN 1 21 7 6 3 Be E T artes acetate E ces rics denen ves acs region R 1 22 1 6 3 1 Bathymetry CI 0 iia cntds ics cw encidsaednwinteccaneitabawdunnad onnddadandenidiseansiaianinniass 1 22 7 6 4 Oe E icin cri ss tes aceon E EN 1 22 7 6 5 Ba gages at oder thse ec nents needs css cle ete wed ne cee 7 24 7 6 6 PGT a EE inated mcneea AET 1 24 7 6 7
110. ching head concentration cells for open boundaries Etc lf errors are found they are reported and can be copied to the clipboard for pasting into other reports DS International LLC 4 4 EFDC_Explorer 4 12 5 View Loadings The View Loadings button brings up the loadings option form shown in Figure 4 51 This form shows the valid model timing based on the model start and end times and allows the user to select a date range to process within the model dates The parameter to view is also shown This list varies depending on the computational options When the View button is selected EFDC_Explorer computes the mass loadings time series for all of the flow type boundary groups selected and displays them in a plot The units displayed will vary depending on whether the user is configured to display metric metric tons MT per day or English tons 2000 Ibs per day Figure 4 52 shows an example of mass loading by group for Total Phosphorus To then compute the total mass loading for the time period displayed on the plot press Ctrl l to integrate the series see Sect 9 2 for more details Since the time units are days and the mass loading is MT day entering a 1 for the conversion factor results in the mass loading being reported in metric tons Note that the user is now able to use concentration loadings rather than mass loadings as discussed in Section 4 10 Constituent Boundary Loadings Mass Balance Computation Options
111. clear run path After that DS International LLC 4 1 EFDC_ Explorer entry the user should then note any changes made to the current run These data are stored in an ASCII text file in each run directory called EFDC_LOG DS Selecting the Modify button on this tab displays the model timing and output options available to EFDC_Explorer Figure 4 2 EFDC has many more output options but the majority of them have become obsolete due to the capabilities of EFDC_Explorer In the Time Options frame the user must specify the time to start and end the run along with the time stepping options Time of Start is the Julian day relative to the Beginning Date Time to begin the simulation The Duration of Reference Period is used to define a project specific meaningful period This is often set to 24 hours to select a 1 day long reference period The duration of the simulation is then set by specifying the number of reference periods The ending time is computed from the starting time and duration EFDC Run Time Parameters amp EE Ouput Options EFOC_Explorer Output Options REQUIRED for Post Processing Time of Start 220 days x Use Reset All Other Output Options H Reference Periods E Duration of Reference Period 24 hra x water Surface X water Column Writes per Aet Pernod 24 f X Velocities Bed Layers Time Step ft sec Sediment Diagenesis Data Output Interval fo Dynamic Timest
112. cles are free to move in full 3D e Particles can be fixed at a user specified depth and e A random walk component can be added to either of the two options above The differential equations for the Lagrangian movement of particles are as follows dx dxarige dXran u D4 dt J2Dydt 2p 1 1 dD dy dYari t Aran v Gt dt J2Dydt 2p 1 2 dz dzarige d2Zran w dt 2Dydt 2p 1 3 In which dt is the time step and p is a random number from a uniformly distributed random variable generator having mean of 0 5 When transformed using the 2p 1 the random component has a mean of zero and a range from 1 to 1 The transformed random value allows the diffusion term to move particles about the advected position Equations 1 to 3 follow the 3D random walk approach used by Dunsbergen et al 1993 In order to determine the Lagrangian trajectory of the particle the equations 1 to 3 were incorporated into EFDC model The numerical solution was separately divided into the advective transport and random components as described above This approach allows the user to enable i e turn on random walk or disable advective transport only the random components for either the horizontal and or the vertical directions Three options are available for the solution of the differential equations 1 to 3 They are as follows e Explicit Euler method This method is very simple with the approximation of O At
113. computes areas using a specified Delta minimum depth and duration The user can change the minimum depths and durations and EFDC_ Explorer will recompute the areas and display the results If a Compare model or a Compare model and a 3 model have been loaded Sect 5 3 then each model s results will be plotted in the order of Base Compare then 3 The colors displayed for each model can be changed by LMC ing on the colored boxes beneath the Areal Ext checkboxes Figure 7 12 provides an example using a Base and a Compare model Note the areas computed and displayed in the yellow information box Displays the differences in water surface elevations between the Base model and the Compare i e Delta Base Compare A Compare model with depths must be loaded for this option to be available The default is to use the dry depth as the cutoff between wet and dry cells If Wet depth is checked then the wet depth water level will be used Using the wet depth results in less cells being considered wet This option is only applicable for models using wetting drying options DS International LLC EFDC Explorer amp Working Form E aleas al OHS lol tle soled a el elele P Expansion Project Lower Nam Hinboun Flood Plain Model 100 Yr THPP Oe Viewing Opt s WaterLevels v Timing CZ WL Options Depths Elevation O Wet Dry Total Head Areal Extents COvertopping Ti
114. context sensitive area for alternative Viewing Opt s It can be seen that having selected the Water Column major option different options are available Within the context area only the appropriate options will be shown DS International LLC 7 4 EFDC_ Explorer The toolbar located at the top of the form provides functions that operate on with the current Viewing Opt s selected For example clicking on the animate button animates the variable that is being displayed Table 7 2 provides details of the various functions available from the m7 toolbar Section 7 6 provides more details on the various Viewing Opt s available The Timing frame provides a scroll bar that provides direct access to the model output snap shots When the slider bar is scrolled completely to the left Timer 0 the data displayed are the initial conditions specified in the model input The current time is displayed in Julian date in the legend The resolution of the time display is controlled by the EFDC_Explorer settings for time resolution The form may be resized shrinking it too small will cause EFDC_ Explorer to limit the size maximized and minimized However if minimized it must be restored prior to doing anything with EFDC_ Explorer 7 2 1 Mouse Functions The toolbar changes the function of some of the mouse clicks but in general the following summarize the basic mouse click functions 2 1 1 Repositioning Legend
115. d shear Newton m by pressing Alt P Set the focus to the plot by LMC on the plot The bedload flux rate if simulated can be displayed by selecting the Bedload option 7 6 10 Bed Heat The Bed Heat Viewing Opt allows the user to view bed heat in terms of temperature or thermal thickness The nature of the information displayed depends on whether the model is EFDC_EPA or EFDC_DS Viewing Opt s Bed Heat tid rr r 4 Options When viewing the Temperature option only the top layer i e the layer in contact with the water column is displayed If the Time Series toolbar function is on then the Show Water checkbox is enabled and the user can view the time series of the sediment temperature and the bottom water layer which varies for the GVC model together Temperature C Thermal Thk O Show water DS International LLC 7 29 EFDC_ Explorer 7 6 11 Water Column The Water Column Viewing Opt is the primary 2D viewer for all of the water column related parameters Viewing Opt s The first options to set are the Layer Settings Water Column There are three layering options for processing the water column data They Timing are Depth Avg for depth averaged results Bot Layer for viewing the bottom Ei active water column layer this varies in the GVC model standard sigma model this is layer 1 and a specified layer When viewing sediments or to
116. d 2D Measured Data button brings up the form displayed in Figure 5 10 Currently only velocities can be loaded here but this feature will be expanded as resources become available The options area is context sensitive to the option selected for importing Input Data F Projects Kodiak M ode D ata OutlinestA DCF Airport Womens Depthdyvg _30Min vg plt Browse Parameter Nothing Velocities O water Surface TEC C Concentrations TEO Data Timing Options x Zone Name is Time Conversion bo Days fi Date Offset jo Time Tolerance for Matching Model Times minutes q Velocity Options Average Data to Model Cell Centroids f Use Raw Data Cony to ms f Depth Average the Imported Data l ST Grouping Tolerance fm f Return OF Figure 5 10 Loading measured 2D calibration data The data format used for the 2D data currently is the ASCII PLT format used by Tecplot An J and K 3D regular grid or a series of discrete measured 3D vectors X Y Z Vx Vy Vz can be input Pre processing of the data is expected to be completed so that the data are ready for direct comparison to the model results For example if Acoustic Doppler Current Profiler ADCP data are being used the spatial and temporal averaging must be done prior to importing to average the Reynolds stresses i e turbulent fluctuations One exception to this is EFDC_Explorer has the ability to average the data into the matchin
117. d for all other time series and X Y plots However when viewing the time series calibration plots three 3 additional function are available on the toolbar The following graphic shows the time series plotting toolbar with the three calibration specific functions outlined in red tH lel7 lel eeel These buttons all close the current calibration plot and in order of the buttons shown move to the previous plot move to the next calibration plot or exit the time series calibration viewer When moving from one plot to the next when the last plot has been viewed the user is requested to either continue viewing the plots starting over at plot 1 or exit the viewer l Als lafe 2 e arf Figure 5 16 and Figure 5 17 provide example plots produced by the time series calibration tool Figure 5 16 is for a water surface elevation comparison layer option K O Figure 5 17 shows a MMA time series plot the average series is turned off for this example of dissolved oxygen layer option 1 St Lucie Estuary Tide Calibration Calibration Results Time Series Summary 1 50 1 40 1 20 1 10 Inlet Model Inlet Data 1 00 1 30 Legend Water Surface m 11 Jan 00 14 Jan 00 17 Jan 00 20 Jan 00 23 Jan 00 26 Jan 00 29 Jan 00 Date Figure 5 16 Example model data time series comparison for water levels DS International LLC 5 15 EFDC_Ex
118. ding a Regional Control File This is a p2d file which contains the coordinates and elevations of the drifters Pressing the Create button will load the file into EFDC_Explorer 5 Langrangian Particle Tracking LPT Options LPT Main Options Seeding Options Vertical Depth Options Uniform Spacing LL 30 m LL Y 30 Mm C Random Depth Delta 1 ni Delta Y 1 m Fixed Elevation Fixed Depth Fixed Depth 1 rm Random Placement Region Control File Optional e Browse Total Number of Drifters Defined Number of Particles to Seed in next Create 1 Clear Create Figure 4 41 LPT Initial Position Seeding Utility DS International LLC 4 36 EFDC_Explorer An example of the LPT function may be seen in Figure 4 42 This example consists of a rectangular domain with flat bottom an open boundary to the east and a flow boundary along the southwest edge U component masks were inserted to demonstrate the functionality of the Lagrangian Particle Tracks computations when masks are used SJWMD LPT Test Harbor U Masks Open BC Flow BC Particle Tracks Time 0 0000 Ss Track Length Previous O hrs M 8 8 88 75 Meters Figure 4 42 Harbor_U grid showing t
119. dit Exiting Masks Add Masks f Create Y Only Flow Mask Create U Only Flow Mask Beginning Ending H Masks ay Mask 19 16 Mask 19 17 Mask 30 6 Mask 31 6 Mask Status Maid Mask Mask Onentation Beginning J Ending d Clear Existing Masks Create Use Masks X Figure 4 5 Mask Editing Tool DS International LLC 4 6 EFDC_Explorer 4 4 Computational Options The Comp Opts tab is shown is Figure 4 6 This tab provides access to the main computational options for EFDC The Computational Options frame provides access to the computational and transport switches and options that are contained in C6 in EFDC INP These switches are the primary activation switches to specify which state variable s will be simulated by EFDC WO General Benth Nutrents Algae O IC s WOBC Misc f Initial Boundary Timing amp Labels Grid amp General Sed Tox Others Computational Options Numerncal Solution Options oe Residual IX Activate Salinity Details Array Solver 3 THE E Activate Temperature No Atmospheric Linkage E Buoy Forc Internal Pressure Gradient Activate Dye Global Transport Options Activate Toxics Upwind Difference X Activate Cohesive Sediments Ant Diffusion Correction IE Trapezoidal Correction Timing 2 Activate Non Cohesive Sediments _ No Flux Lirnitor x Momentum Opt Upwind Difference X Activate Water Quality 3TimeLevel 2 Time Level
120. e Post Processing Time Selection user is displaying Julian or Gregorian dates Specific View Water Levels Inundation Extents Ctrl O Export the displayed inundation outline as a P2D file Specific View Sediment Bed Bed Shear Stress Alt P Toggle Display of Bed Shear or Stream Power Specific View Water Column Alt B Conduct a Bottom Irradiance Analysis Alt C Conduct a Volumetric Analysis Alt H Conduct a Habitat Analysis Specific View Comparison Model Alt M Toggle the display of model comparison Alt V Compute and display the volume differences between two models in bottom elevation view Calibration Data Display Go to previous data snapshot If calibration data has been configured and the current view is the water column this keystroke will cause EFDC_Explorer to jump forward to the next measured data point and display the model results with the data or residuals labeled Go to next data snapshot Miscellaneous Functions DS International LLC 7 8 EFDC_ Explorer Alt K Save the Layout form size scale legend location etc to a File Alt L Load a Layout from a File and apply it to the current view Alt LMC COPY Cell Data to Clipboard 7 2 3 Toolbar Summary The ViewPlan toolbar provides access to a range of different functions and utilities Figure 7 5 Some of these functions are dependent on the current context while some are not Table 7 3 contains a Summ
121. e Show Layers option with Show Water checkbox checked This example used simple bed consolidation IBMECH 1 with bed elevation changes IMORPH 1 The consolidation rate SEDVRDT was set to 100 000 sec Note that as the sediment consolidates Figure 5 5 a to Figure 5 5 b the water depth increases reflecting the extrusion of water from the sediment porosity 446 Bed Mechanics Sediment Consolidation Testing IBMECH 1 IMORPH 1 s Bed Mechanics Sediment Consolidation Testing IBMECH 1 IMORPH 1 2 00 Legend Legend Time 0 00 Time 1 00 0 90 0 90 n 6704518 Void Ratio 2 034458 H 3034511 Elevation m n 6704997 Void Ratio 2 034899 H 303493 Elevation m 0 20 0 20 n 6704997 Void Ratio 2 034899 H 303493 n 6704997 Void Ratio 2 034899 H 303493 n 6704997 Void Ratio 2 034899 H 303493 1 30 n 6704997 Void Ratio 2 034899 H 303493 n 6704997 Void Ratio 2 034899 H 303493 n 8 Void Ratio 4 H 5 n 6704997 Void Ratio 2 034899 H 303493 1 25 1 00 0 75 0 50 0 25 0 00 0 25 0 50 0 75 1 00 1 25 1 25 1 00 0 75 0 50 0 25 0 00 0 25 0 50 0 75 1 00 1 25 Width m Width m Figure 5 5 Example of sediment column consolidation a Initial conditions b End of Day 1 DS International LLC 5 4 EFDC_ Explorer 5 2 2 Bed Top Profile The Bed Top Profile function provides a 2D plot of a vertical slice through the mode
122. e current series with the results The timing does not need to match EFDC_Explorer uses the current series timing and computes the value of the second series at the times of the current series e Delete Deletes the current series All the series number above the current series are renumbered to the next lower number and boundary conditions that use these series are updated e BreakPt This function breakpoints the current series The breakpointing process removes consecutive points that have the same value within a user specified tolerance leaving the 1 and last points with the same value An example of a series breakpointed is shown below Raw Series Breakpointed Series X Y X Y 1 0 0 2 1 0 0 2 2 0 0 3 2 0 0 3 3 0 0 3 5 0 0 3 4 0 0 3 6 0 0 4 5 0 0 3 6 0 0 4 DS International LLC 4 54 EFDC_ Explorer e Smooth Applies a smoothing process to the current series The weights are 1 6 2 3 and 1 6 A single pass is applied The user can apply the smoothing repeatedly to attain the desired smoothing Since the current series is overwritten with the results of the smoothing process it is useful to export via the Time Series plotting function the unsmoothed time series first As smoothing is applied the user can import via the Time Series plotting function the original series for comparison Editing Tools File Tools File Tool Merge Series Import Data Import nave As e The Fil
123. e Options Full write O Write All except Time Series Files O Save Profile File Only EFDC 05 no WProjacts EFOC_Explorer E xamples Mobile 2006 B ase Create New Cancel Figure 3 4 Select Directory Write Operation If the user only has the efdc archive file and wants to create a set of files that EFDC needs to run that project the user must select the Full Write option to create all the input files required To create a new project using the existing project use the Create New button to create a new subdirectory under the currently displayed directory All the INP files will be copied to the new directory after the user selects OK on the Write Operation form DS International LLC 3 4 EFDC_Explorer Cross Platform Note Many users may want to use EFDC on both a PC and a UNIX based computer When transferring the input files from the UNIX machine to the PC the carriage control MUST be reset to the Windows DOS carriage control EFDC_Explorer has the ability to convert non Windows DOS carriage control to Windows DOS via the Toolbox Also the user may use one of several ASCII editors that have this capability as well If the user wishes to save in the EPA GVC Model format rather than EFDC_DS model format this should be selected in the GVC tab of the EFDC Information and Pre processing frame of the main EFDC_Explorer form This method allows quick reformatting of the EFDC IN
124. e Tools option changes the frame to that shown here The purpose of this option is to provide ways to populate the time series from existing data files In addition to importing data from existing files the user can paste data into the time series from another application e g Excel as long as the formats are compatible e Merge Series Imports an existing ASCII data file and then interpolates the data series onto the timing of the current series This is especially useful for time series that have multiple groups for the same series i e sediments toxics and water quality Figure 4 55 shows an example of the ASCII data time series import form e Import Data Imports an existing ASCII data file and replaces the current series data with the new data The same import form Figure 4 55 used for the Merge Series is used for this function e Import Imports an existing EFDC formatted time series for the current time series type i e if editing flows will import a QSER INP file All the currently defined series for the current boundary type are overwritten with the contents of the import file e Save As Allows the user to write all of the series of the current boundary type to an EFDC formatted file EFDC Explorer writes these files during the project save process However this function is useful for backup during the editing process or to provide output for other user needs DS International LLC 4 55 EFDC
125. e data extraction location is identical to the 2D Slice Extraction Options used by ViewProfile see Sect 8 1 Up to ten lines are allowed per plot The Water Column data selected is the main parameter to be plotted DS International LLC There are some 7 30 However the layering options are controlled by the Longitudinal Profile tool not the settings in the Layer Settings frame special cases available for display The following list provides the options available for each line T Profile Location Options PX Use Drape Line Viewing Opt s water Column ATH 4 r Line 1 3 Layer Settings Line aj Depth Avg Line 3 1 Bot Laver Line 4 1 4 Line 5 4 Lay erf4 5 Line 6 Total Seds Line 7 Line 8 Line 9 Line 10 x Show Grid EFDC_Explorer Layer A specific layer number or a range of layers to average In the adjacent graphic the Line 4 field has 1 4 entered Therefore for that line DO being plotted is the average DO for those layers 0 If a 0 is entered then the value extracted will be the depth averaged value 1 Special Case Water surface elevation 2 Special Case Water depth 3 Special Case Bottom elevation 4 Special Case Bed shear stress If the layer field is blank for a certain line it will be skipped The screen capture graphic shows five lines being defined with 3 of the lines extracting dissolved oxygen
126. e he 4 q r ad oe AX pi rake ye A tir y LE r Bt a e week Da fi s ir k 7 b 2 A P r 3 Pi A iis Tham Ve N Tal b mipi x r E i 4 6 al as A E i 5 w p l r i ay e F lt We et ha i 5 F x s Ee F b T 4 5 2 Roughness Options Under Roughness Options other than the standard additive and multiplicative factors that EFDC will apply to whatever z s are input in the DXDY INP file EFDC Explorer has several methods to set and or modify the zo s that will be written in the DXDY file Floodplain Z s and Channel zo s If the model was constructed with channel and floodplain cell ID s i e 5 for channels and 7 for the floodplain in the cell map file i e cell inp then the user can set each one quickly using these buttons Polygon Set The user can use a user defined polygon to modify set the Z s This tool may be applied as many times as needed anytime during the model construction and calibration process DS International LLC 4 12 EFDC_Explorer 4 5 3 Vegetation In the Vegetation frame on the main form the user can set the primary computational option for enabling the feature and at what level see the tooltips The vegetation class settings are available via the Modify Classes button option which provides a user interface to the data that are needed for the VEGE INP file Figure 4 14 First the user should specify the number of vegetation classes needed Enter the num
127. ec Bed Consolidation Constants Hyd Cond Opt jo Coett jo Coetfe fo Coetfs jo Coeff lo Coeff fo Cancel OF Figure 4 22 Sediment Transport Bed and Consolidation DS International LLC 4 19 EFDC_Explorer Figure 4 23 shows the sediment parameters form with the Initial Conditions tab selected On this form the user selects how they would like to initialize the bed sediments for the model This is done by selecting the option from the Sediment Initial Conditions Options frame Sediment and Sediment Bed Properties Major Settings of Sediment Bed Layers j 0 Cohesives f Non Lohesives 3 Warming Changing these may cause loss of current intial and boundary conditions NonCoh Susp NonCohBedload Bed Consol Initial Conditions Sediment Initial Condition Options Constant Water Column and Bed Spatially Yaring Bed Conditions Bed Mass Specification Uptions O Specifiy Mass 4rea Spatially Varying Water Column Spatially Yarving Bed amp WC Specifiy Mass Fraction Initialization of Sediment Beds Use Polygon DSM Use Sediment Cores with Grainsize Create Uniform Bed File Browse Humber of Initial Layers h Minimnurn Layer Thickness m 7 400 Constant Porosity 4 C Use Constant Porosity Interpolation PR Options Appl Cancel OF OO oo Figure 4 23 Sediment Transport Initial Conditions To set up a simple horizontally uniform sediment bed for the mode
128. ed If the user has specified 3 of the 4 entries per dimension pressing the Ctrl U key in the field needed will cause EFDC_Explorer to compute the required entry 6 5 1 2 Expanding Grid An expanding grid is simply a variable spaced Cartesian grid that expands in all directions from a focal point The form shown in Figure 6 3 shows the parameters needed for developing an expanding grid The user must specify the coordinates of the focal point the initial smallest delta X and delta Y s the rate at which the user wants them to expand at and the maximum cell sizes Specify an Active Cell Polygon to trim the cells to the desired model domain The Spatial limits of the grid are set either by the topographic data or the active cell polygon Grid Element Generation Options Ci Uniform Grid l l E andng aid Rotation Angle 62 Expanding Grid Options Focal Point Coordinates Initial Masimum Easting 556506 Delta 200 Factor 1 03 Delta fioa Northing i T546 Delta 200 IE Delta 1000 Active Cell Polygon F Projects 2003 an Francisco BaySF Bay Wain pzd Browse Channel Polygon Browse Figure 6 3 Cartesian gridding Expanding amp rotated grid Figure 6 4 shows an example of the expanding grid developed for the San Francisco Bay The focal point is just offshore from Hunters Point DS International LLC 6 5 EFDC_ Explorer Bottom Elev m 101 7 Time 1 000 Figure 6 4 Expanding Cartesian grid examp
129. ed what data has been loaded and what option has been requested by the user Figure 7 2 shows an example of the ViewPlan form with the Water Column option selected This plot shows several standard features of ViewPlan including the Timing Frame Legend and the Horizontal Scale With the exception of the Legend these features can be turned on or off Fa EFDC Explorer amp Working Form i IO x B e gjej lra af OHO Ha aell Aelel Housatonic River Housatonic River Sediment stabilization run Viewing Ops Water Column z Timing Frame Timing a gt Layer Settings gt Depth Avg PE Bot Layer Laef El l Total Tox 7 TOX Classi Options 2 pe ee ee Legend Box Water Column 0 Time E 50 Toxics ug l Enable Edit xX Show Grid Depth Averaged Toxic Class 1 tPCBs Use C Velocities Cell Map ID Dry Cells Horizontal Scale Wet Cells mae Bar VA re Figure 7 2 ViewPlan main form Metric 57 643 6 Y 909 127 0 4 The Viewing Opt s frame contains a dropdown list of all the available viewing editing and or post processing major topics The list of items in this list may change each time the user changes parameters in the pre processor function or loads a different model results file see Section 7 1 Figure 7 3 shows the ViewPlan
130. ed to match the groundwater classes to the EFDC cells using the Apply Overlays button The same process as discussed for the vegetation classes is applied here The Apply Polygon button is similar in function to the Apply Overlays button but does not require a matching ID in the polygon file Open the polygon file and then specify the groundwater class and then click the Apply button to assign all the cells that are inside the polygon to that groundwater class DS International LLC 4 57 EFDC_ Explorer 5 Main Form Post Processing Operations Most of the post processing visualization features of EFDC Explorer are located in the ViewPlan and ViewProfile functions which are discussed later However there a several other features for post processing model runs that are available from the main form see Figure 2 1 The post processing functions are located in the lower half of the main form Four tabs provide access to the features Figure 5 1 and each tab is discussed below On the right of the tab is the Output File Loading frame This is used to show whether the model results have been loaded for analysis or not The Reload checkbox forces the EFDC Explorer to reload the output files even if the files have already been loaded This is necessary at times when an error occurs or the user is reviewing the progress of a run The user can review a run in process by e Pausing the EFDC execution pressin
131. eeaeeeees 4 11 Figure 4 12 Wave generated turbulence import data fOrmM c ccc cccceecceeeeeeeeeeeeceeeaeeeees 4 11 Figure 4 13 Wave parameters Radiation shear stress XX component c sceeeeeeeees 4 12 Figure 4 14 Vegetation class parameters ccc ceccecc eee eeeeeeseeseeceeceeeeeeeeaeeaeeeeeseeseeseeeeeeaes 4 13 Figure 4 15 Cell property assignments Vegetation map with IDS ccccccecceeeeeeeeeeeees 4 14 Figure 4 16 Example vegetation Map ASSIQNMENL ccccc eee secceeceeceece eee eeaeeseeaeeseeseeeaeees 4 14 Figure 4 17 Tab Sed TOx Othe rs ccccccccccscceeeceeceeeceeceeeceeceeecueseeeceesaeecseseueseeeaeeseeeaeenaes 4 15 Figure 4 18 Sediment Transport General cccccccccecceecceeceeeceeeeeecaecaeeceeeaeeceeeaeeseeeaeenes 4 16 Figure 4 19 Sediment Transport CONESIVES ccccc cece eecc eee eeceeeeeecueeeeeceeeseeseeeseeseeeaeeees 4 16 Figure 4 20 Sediment Transport Non Cohesives Suspended ccsccsecseeeeeceeeeeeeeeees 4 17 Figure 4 21 Sediment Transport Non Cohesives Bedload cccccceecceecseeeeeeaeeeeeeaeeees 4 18 Figure 4 22 Sediment Transport Bed and Consolidation ccccccceecceeceeeceeeeeeeeeeaeeees 4 19 Figure 4 23 Sediment Transport Initial Conditions ccc cecc cece sees eeceeeeeeceeeeeeeeeeeeeeees 4 20 Figure 4 24 Uniform sediment bed generation tool cccccccccsecc
132. eeeseeeeeeceeeaeeseeeaeeseeeaeeees 4 21 Figure 4 25 Sediment Bed Model Cohesives Tab cccccscccecceeeceeeeeeceeeeeeceesaeecseeaeeeaes 4 21 Figure 4 26 Tab Sediment Bed Model Initial Conditions Tab cc ceccccceecceeeeeeceeeeeeeees 4 22 Figure 4 27 Example digital sediment model generated from sediment cores with grainsize 4 23 Figure 4 28 Toxic Transport ODUONS cisiiscidsedssndesevirinndscivinsisessneisepvinsddersinadieoninteseenimaiivandvas 4 24 Figure 4 29 Atmospheric F AlN occ ascii cacsatnsdusemscnceadavandeasas seceaiwiiedeasaddsduddadasdwasaudacussmiess 4 26 Figure 4 30 Tracer generation tool cccccceccecceeceeceeceeeeeeceeceeceeseecuesaecaeseeeceeseesensensaneas 4 27 Figure 4 31 Tab Water Quality General ccccccccccecceeeceeceeceeeeeeceeeeeeceeeeeeceeeeeeseesaeeeaes 4 28 Figure 4 32 Tab Benth Nutrients ccccccecceecseeceeeceeeeeeceeceeeceeseeesaeseeeceeseeeseeseeeseeeaeeeaes 4 28 Figure 4 33 Sediment nutrient flux Sediment Diagenesis Options and Parameters 4 29 DS International LLC IX EFDC_Explorer Figure 4 34 Figure 4 35 Figure 4 36 Figure 4 37 Figure 4 38 Figure 4 39 Figure 4 40 Figure 4 41 Figure 4 42 Figure 4 43 Figure 4 44 Figure 4 45 Figure 4 46 Figure 4 47 Figure 4 48 Figure 4 49 Figure 4 50 Figure 4 51 Figure 4 52 Figure 4 53 Figure 4 54 Figure 4 55 Figure 4 56 Figure 5 1 Figure 5 2 Figure 5 3 Figure 5 4 Figure 5 5 Figure
133. eja de fe larel Hee r ej elll Caloosahatchee TMDL HydrodynamicValidation 2004 Calibration Results Observation Summary Legend MarkerH 1 1 Correlation F e e TA si E Ki E 3 LLJ T x E 5 z Number of Data Model Pairs 8653 statistic R Squared 0 7962 1 00 0 75 0 50 0 25 0 00 0 25 Water Surface m Observed Figure 5 19 Example model data Correlation Plots comparison for water surface elevation An additional feature of the Calibration plot function is that the box size for each plot may be saved This means that even though screen aspect ratios may vary between different computers they will still produce the same final plots CTRL W sets the size of the plot box size and when the user saves the project the size of the plot will also be saved DS International LLC 5 17 EFDC_Explorer 5 4 4 Vertical Profile Comparisons The Vertical Profile Comparisons frame contains the buttons that configure Define Edit and plot Plot vertical profiles of EFDC cells and measured profile data Once configured the linkages between the EFDC cells and the data is automatically available and the user simply needs to press the Plot button to compare model to data for each run Figure 5 20 displays the form used to link cells to data and other parameters RMC on the cells to obtain additional input options or guides Calibration Tools Vertical Profile Compa
134. elete the currently selected group or View plot the time series of the primary forcing When using the time series plotting function from this tool the model simulation start and end times define the minimum and maximum date range If the time series is longer the entire time series can be viewed from the Time Series editor ig Boundary Condition Definitions Groups x Number of Boundary Groups Horth g Flow RE Structure in Wee wih Per i Jet Ez ar Batch Define Curent BE Information Boundary Type Head Table Salinity is Cels M Temperature 12 0pensea Dye ME Cohesives NotUsed OO o O Nor Cohes MEN Bein EA a i O En O Wae Quais ME 1st Cell s Head Table PX Sort Boundary Condition by ID Figure 4 49 Boundary Condition Definitions Groups DS International LLC 4 44 EFDC_Explorer 4 12 3 Import HSPF Data The Import HSPF button provides access to the import function for the Hydrologic Simulation Program in Fortran HSPF Bicknell et al 2001 This is a hydrologic watershed modeling tool that is commonly used to predict flows and some water quality parameters If this tool is used to predict the flows in a basin watershed in which the EFDC model is being applied then these results can be imported as boundary conditions for EFDC In addition to HSPF results the Import HSPF tool can import any time series data whose flow and or water quality parameters
135. en the Vegetation Map Viewing Opt is available There are no sub options available When LMC ing on a cell the vegetation class information for that cell is displayed The cell property copy feature is available to quickly edit vegetation class assignments 7 6 14 Internal Variables EFDC DS Only After the model has been run and the EFDC_DS source code has been properly configured the EFDC_Explorer linkage file EE ARRAYS OUT will have been generated When post processing a model run if this file exists EFDC_ Explorer builds a parameter list from the data contained in the linkage file Any of these variables contained in the linkage file can then be displayed time series d etc DS International LLC 1 37 EFDC_Explorer 7 6 15 ModChannel If the channel modifier feature of EFDC has been activated then the ModChannel Viewing Opt is available The Channel Modifier Flag must be set in the Hydrodynamics tab in the pre processing frame on the main form see Section 4 5 When selected the model grid will be displayed with gray lines representing the pipes or channel modifiers shown This function enables the user to create and edit channel modifiers i e pipes The user should then enable edit and use the right mouse click to choose the start point for the channel modifier The user will then be prompted for the end point and edit form shown in Figure 7 21 In this way the user can add delete or modify ch
136. ent Bed Model 1 Enter the Sed Tox Others Tab and click on the Sediment and Sediment Bed Settings button 2 Define the number of sediment bed layers cohesive and non cohesive sediments as shown in Major Settings of Figure 4 18 it is important do this first to avoid losing data 3 Set the options in the General tab for the Primary Computational Options and the Bed Shear Computation Options 4 In Cohesive Tab the user should enter the appropriate values for the relative parameters as well as defining the minimum and maximum values of Cohesive Fluids Concentration as shown in Figure 4 25 General Cohesives __ NonCoh Susp NonCoh Bedload Bed amp Consol Initial Conditions Erosion amp Deposition Pararnieters Parameter IC WC Cone mal Cheke me IC Bed Mass g me per layer Specific Yol marg Cohesive Setting Flag lo Specific Gravit Settling Vel ms Tau Crtical Deposition mes Tau Critical Erosion m2 s2 Ref Surf Erosion Rate grms Erosion Exponen Surface Erosion Opt MASP 0 3 Reference Void Ratio IWASP 2 3 Cohesive Hiding Factor Exponen Corect Bottom Layer Cone 0 1 Diameter um Miewing Only Cohesive Fluids Concentration blin f OO00 rg bla 50000 mal Figure 4 25 Sediment Bed Model Cohesives Tab 5 Inthe Non cohesive Suspended Load Tab the user should define the Equilibrium Concentration Option and enter the appro
137. ent input field The Sediment Info button provides a sediment properties calculator Pressing the Set Parameters button will initialize the sediment properties using the Van Rijn equations if the sediment diameter is specified prior to pressing the button Sediment and Sediment Bed Properties Major Settings of Sediment Bed Layers f 0 Cohesives ft Non Cohesives 3 Warning Changing these may cause loss of current initial and boundary conditions X Non Cohesive Armoring Parameter i IC WC Conc mgl Settling Flag fo IC Bed Mass g m2 per layer Specific Yol m39 Specific Gravity Settling Vel m s lt 0 VanFijn Median Diameter micron rit Shear Stress m2 s2 lt O VanFijn Critical Shields Stress G amp P Initiate Resusp Opt 1 3 EH Initiate Bedload Opt 1 3 Incipient Motion Data Rouse Number Calc Opt 0 1 Sediment Inf Transport Frac Main Opt 0 4 __Secinent iro Transport Frac Shear Opt 0 1 Transport Frac RSNDM Switch Set Parameters Cancel OK Equilibrium Cone Direct Input Garcia amp Parker C Van Rijn C Smith amp McLean Sedflume w o CS Sedflume with CS Figure 4 20 Sediment Transport Non Cohesives Suspended DS International LLC 4 17 EFDC_ Explorer Figure 4 21 shows the tab for the Non Cohesives Bedload The use of the Gamma parameters is slightly different between the different EFDC codes The user should k
138. ents changes based on the partitioning model selected The partitioning factors and the concentration factors units must be consistent Typical units for the toxic concentrations are mg kg or g kg DS International LLC 4 24 EFDC_Explorer 4 6 5 Dye If the Dye computational option is selected then the user may assign a decay rate to the otherwise conservative tracer The decay rate options are shown in Table 4 1 Table 4 1 Dye decay rate options Decay EFDC_DS Operation Rate 0 Conservative tracer _ S O Dye lt Q First order growth rate EFDC_DS Only The dye constituent is used as an Age of Water function to 1000 compute residence times and visualize domain boundary water mixing EFDC_ DS Only Depending on the decay rate option the user can view and animate the dye concentrations or Age of Water in ViewPlan If using the restart option the user can initialize a dye field using the DYE INP file by selecting the Dye Overwrite check box on the Initial tab located in the EFDC Restart Option frame 4 6 6 Heat Temperature To activate the heat sub model in EFDC the Temperature constituent must be activated Computational Options frame on Comp Opts tab The ASER INP file must be used for all of the thermal sub models to compute the surface and bottom heat exchange processes Depending on whether the current model is EFDC_EPA or EFDC
139. entuotieendaaie 6 1 6 1 Model Generation Process ccccccsececseeceeceeteceeeeeeseeseecseceeteeeeeeeeesecseeseenseseeeaees 6 2 6 2 Topographie ATION FS sessirnir 6 3 DS International LLC V EFDC_ Explorer 6 3 ee Bee Pl ete File iscissi eienn ai 6 3 6 4 Be at EE 6 4 6 5 ESME cies sr EN AEN EAA E EEA E EEEE E EEE EESE VEE EAEE EENET 6 4 6 5 1 Wo ia E e PEE AIE A I E A E E A E E EE ET 6 4 T E A EAA AEEA AE EES AAEE AE EEA ANE EAA 6 5 ae a arae N TEAREN ENERE 6 5 6 5 2 Riverine Curvilinear Grid ccccccseesseceeceecceeceeceeceeteeteesaeseecoeeceeceetaetantaetaesans 6 7 6 5 3 PT E a E A O A A OE EE OE A sabrina iain EE 6 9 FAL cal 21 r ET ANATA EEEE ATANT AOA TAAA 1 1 7 1 Simulation Results Loading cccc ccc cecceecceeeeeeceeeeeeceeeseeceeeseeeeeeseeceeeseeseeeseeseeegeess 7 3 7 2 DO a AAAA AE A AN Is 1 4 Tal la Tz za aiaa e AAEE A E AA EEA N ENE EN AAA A 7 5 7 2 1 1 Repositioning Legend amp Other Objects ccc ccccecceeeceeeeeeseeeeeeeeeeeeeeees 1 5 Teke SE TE eiar EATEN AEAEE AAAA AEEA 7 5 tet REI te E AE OAE E NEE A 7 6 7 2 2 Ke ee Re FU eene NE EA A 1 1 Tda TORA NOE arn Ra R E R ROR 7 9 FE arcane orcas erecta raniarerronanecieeaeseeeeernacneodenions 7 10 Teod EKOO Oe IIOS cigs nested tetas nra wasn taal AEE ERSA 7 10 Taaa Uraa New EFD Modal ernn a aE 7 11 7 2 3 4 Polyline Polygon Creation Tool scdasssiciiavivatecasveasiosesadsannenenenaeainawiins 7 11 Tia View GOTO Oy scant ea snintencs
140. ep Options Safety Factor fo Use High Frequency Dates Dates ME Ramp Up Loops i O00 Set Mates Model Simulation Start Time For Synchronization to Uther Data Begining Date Time MRENE Linkage to Water Quality Models Mone O WASP C CE QUAL_ICM O ACA Model W CAZA Production Version EFOC Generated Time Seres Use Currently Defined Cells Cancel Figure 4 2 Runtime Output and Title The Dynamic Timestep Options subframe allows the user to enage autostepping by setting the Safety Factor to a positive number gt 0 and lt 1 Generally the safety factor ought to be less than 0 8 but some runs work with the safety factor gt 1 and some require a value lt 0 3 The number of Ramp Up Loops can also be set by the user Linkage to Water Quality Models frame allows the user to bring in data from various water quality modelling models as illustrated The WASP models allows the user to select from EPA DOS Ver 4 EPA DOS Ver 5 1 Tt DOS Ver 5 Old Tt DOS Ver 5 and EPA Ver 6 1 Windows 4 1 1 EFDC Explorer Output Options In order for EFDC_Explorer to post process model results the EFDC_ Explorer Output option must be turned on i e check the Use check box Which data to output is selected by the use of the sub item check boxes such as Velocities Water Surface must be turned on for EFDC_Explorer to post process any of the model results
141. er of Input Tables and Series Flow Mi E Temperature EE E Cohesives Bi E wO rA etur g fel Hodiy Seres Struct i E Salinity E E Hon Cohesives ii E Jet ii EJ Apply Overlays Dye mi Pressure il E Toxics d El Apply Polygon winds E Harmonics g E water Quality EE E Atmospheric l E Figure 4 47 Tab Boundary Conditions EFDC applies the boundary conditions in a cell by cell manner However EFDC_Explorer takes a more physically based approach to handle boundary conditions It groups boundary cells into logical groupings e g a river inflow a tributary or an open boundary along one face Ideally the user will create the group name it something meaningful to the project assign all the cells included in that group to the group this can be done manually or via polylines polygons and then set the boundary condition The boundary group information is stored in the EFDC DS project file located in the project directory However if there are no current groupings when EFDC_Explorer loads a project which is the case for existing EFDC models not managed with EFDC Explorer it groups the existing boundary cells into groups based on the type of boundary condition and their locations Within a group the flow head and pressure settings can vary from cell to cell but the water quality parameters must be the same This limits the complete specification of each cell that EFDC provides but gives a much more logical way to
142. er to select from various options for Water Quality Point Source Loading and LPT is shown in Figure 4 39 Timing amp Labels ce Grid amp General Sed Tox O thers WO General Benth Nutrients Algae O IC s WO BC LPT Water Quality Font Source Loading O ption Langrangian Particle Tracks Dritters Use Constant Point Source Loads Use Drifters Runge Kutta x Number of Drifters zz Release Drifters zz id Import amp Convert WSPSLE INP Stop Drifters Hz id Initial Condition Offset ta w5 Elevation Global Adjustment m fo Figure 4 39 Tab Water Quality Boundary Conditions and Lagrangian Particle Tracking 4 10 1 Water Quality Point Source Loading The Water Quality Point Source Loading Option provides a drop down table with the following three options Use Constant Point Source Loads Use Time Variable Point Source MASS Loadings and Use Time Variable Point Source Concentrations EFDC Explorer previously only used the larger Mass loading files The new Load Concentrations option provides the user with smaller files and greater control When the user selects an option different to that previously selected EFDC_Explorer informs the user of the current BC and asks whether they want to switch to the new option If the user responds affirmatively then EFDC_ Explorer will convert and save out the option selected With the aid of the Import amp Convert WSPSLC INP button the user can either overw
143. eries e g 1 in Figure 4 54 and a group e g 4 for Refractory Organic Carbon The user can then edit plot compare copy etc the currently selected series group If the type of series does not use groups e g flows then the group frame will not be displayed The View Series frame provides the user with the ability to plot the time series The More button provides access to additional plotting functions like comparing other defined series to each other or showing the series after applying selected filters The option buttons of Editing Tools and File Tools change the function of the frame below these buttons The Editing Tools is the default frame This option allows the user to apply Operator s to the date column or any all of the data columns or a range of columns The user may enter the column number or if they want the operator to apply to layers from 1 to 3 then they should enter 1 3 in the Apply to Y s input interface This will apply the operator to these layers for the whole time series Entering 1 will apply the operator to all columns and a P in front of this will apply to parameters instead of layers The following is a description of the various Editing Tools functions e Copy To copy the current series to a new series at the end of the current list of series e Add Adds a specified series to the current series This process overwrites th
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145. etnam Paul H Craig F E Single User License Specialists in Fluid Flow Modeling amp Visualization Environmental Data Management Hydraulic amp Environmental Engineering Ok Figure 1 1 EFDC_ Explorer Splash Screen EFDC is a general purpose model for simulating three dimensional 3 D flow transport and biogeochemical processes in surface water systems including rivers lakes estuaries reservoirs wetlands and near shore to shelf scale coastal regions EFDC is capable of simulating cohesive and non cohesive sediment transport near field and far field plume discharge from multiple sources and the transport and fate of toxic contaminants in the water and sediment phases A dissolved oxygen nutrient process i e eutrophication sub model HEM 3D was added later Park et al 2000 Special enhancements to the hydrodynamics of the code now include vegetation resistance drying and wetting hydraulic structure representation wave current boundary layer interaction and wave induced currents The EFDC code has been extensively tested and the code is currently used by university government and engineering and environmental consulting organizations The EFDC model has been released in the past in various forms and versions This user s manual focuses on only two versions the EPA Version 1 01 EFDC_EPA September 2007 Tetra Tech 2007a 2007b and the EFDC_DS Version 2009 11 01 The EFDC EPA version has an implementatio
146. ey are used for i e horizontal or vertical DS International LLC 4 8 EFDC_Explorer EFDC Hydrodynamic Options amp Parameters Turbulent Diffusion Turbulent Intensity Wave Turbulence Horizontal Kinematic Eddy Viscosity amp Diffusvities Options O Disable HMD Background Constant Horizontal Eddy Viscosity 3 m Ars Activate HMD with Smagorinsky Dimensionless Hor Womentum Diff 0 25 Activate HMD with Smagorinsky and Wall Drag Effects Wall Roughness d Vertical Eddy Viscosities amp Diffusivities Time Advance Filter Background or Constant Eddy Viscosity amp Diffusnvity C No Filter Vertical Eddy Viscosity o 0000001 rr es Average T t 1 t 2 z ma Use Constant 7 C SORT T SQRTI t 1 4 Vertical Molecular Diftusrvity E 053 m 2s Minimum Magnitudes for Diffusnvity Terms Minimum Kinematic Eddy Viscosity 0 000001 m 2s Minimum Eddy Diffusivity f E 09 m 2 3 coe Figure 4 8 Eddy Viscosities amp Diffusivities Use Minimums The resulting horizontal diffusivity from these options can be viewed from within ViewPlan if velocities are also available The vertical eddy viscosities and diffusivities AV amp AD arrays in EFDC respectively can also be viewed if the user configures the Internal Array Viewer See Appendix A to include these arrays 4 5 1 2 Turbulent Intensity Figure 4 9 shows the Turbulent Intensity tab Generally only the Vertical Turbulence options will be changed At t
147. first requests a file to import It then loads all the lines in the file and displays them with the legend and asks the user which series to import Once the series to be imported is selected the user is then asked which series to insert the imported series into The TSP makes an initial series assignment but the user can select any series from 1 to 10 Existing series can be overwritten during the import process if desired The left primary and right Secondary Y axes can be edited by using the toolbar buttons shown in Table 9 1 or they can be edited by RMC ing on the areas of the axis labels The same method applies to access to the X axis editor Table 9 1 Summary of Time Series Plotting Utility toolbar General Functions So Toggles amp Options Toggle the grid Show Edit comment boxes Show Hide markers Plot Format and Labels E MCO Navigation Functions Zoom in at fixed increments Zoom out at fixed increments DS International LLC 9 2 EFDC_ Explorer Utility Functions Toggle the display of the coordinates Import Series from a file HGH E gt Export Data to a file Animation tool Output animations to the screen and or AVI files 9 1 Analysis and Statistics For any defined time series the user can use the keystroke functions F1 to toggle the display for box amp whisker plots Alt 1 or show the lines as Cumulative Distribution Functions CDF s Ctrl C The user can also compute average va
148. for those cells Bottom Irradiance Tool l x Enter ck Wasiman Bottom Depth m ok Depth Criteria Approach Min Avg Max and mance radiance Target 7 Figure 7 17 Viewing Options Water Column Irradiance Tool DS International LLC 1 32 EFDC_Explorer 6 11 4 Habitat Analysis The user may undertake a habitat analysis of the Water Column as shown in Figure 7 18 This tool is access by ALT H The user may analyze any of the parameters displayed in the Options in frame in the right hand column The user should set critical levels in this case temperature C critical depths and critical duration in hours and press Display EFDC will then calculate the number of cells for which these criteria apply displaying the area and volume in the yellow Habitat Criteria box as well displaying the critical cells A second critical duration may also be displayed concurrently JESeFDC Explorer amp working Form OOS O O E ls aa te AL ale Ct 18 llt NIL Caloosahatchee TMDL Hydrodynamic Calibration 2003 Critical Habitat Analysis Critical Levels Critical Depths Min 18 Min 1 16 Tide Line c Critical Duration L1 3 re Display Critical Duration L2 Hrs Finished Water Column 1 Jan O3 19 a gt 0 125 Number of Days 18 lt Cell lt 20 Temperature fC Depth Averaged DS INTL DS INTL 15 x1 Ale Po S Viewing Opt s Water Column M 4
149. format Export the model cells as a XY file P2D format Transpose and or flip the and J indexes Clean and repair any DX DY and cell angle problems using a repair utility Pre Processor Initial Conditions Easy and fast plan views of the model domain with model option specific viewing options Develop Edit bathymetry from Digital Terrain Models DTM s or irregularly spaced elevation data Build Edit sediment beds with toxics Set and edit cell properties by point amp click on the model grid User defined polygon cell selections for editing Use simple operators to edit one or any number of cells View Set Vegetation mapping if used View Set Groundwater mapping if used Refine grid manually by activating deactivating cells from the cell map Rapid setting of the initial conditions water surface or depths Use of 3D polylines to assist in setting initial conditions Create Read a compact binary archive file for a model run Assign initial conditions using spatially varying vertical measured estimated profiles View Assign Edit roughness field View Courant CFL map View Assign Edit Channel Modifier information configuration if used Set particle seeding and Lagrangian Particle Tracking control options Pre Processor Boundary Conditions Define Edit Plot flow hydraulic structure open and withdrawal return type boundary condition groups Define harmonic tides Set and edit boundary conditions by
150. g EFDC cells If the Tecplot formatted data includes multiple depths for a single location these data can be displayed using the ViewPlan layering options or the user can select the Depth Average the Imported Data option to collapse all the data into a single X and Y component for each time Multiple stations can be included in the same file EFDC Explorer reports on the data loaded Please review this summary to ensure that it corresponds to the expected i e the users understanding of the data in the Tecplot file data The Data Timing Options frame provides some options of how EFDC_Explorer will interpret the data loaded and convert to the EFDC time reference If varying time data is to be entered the Tecplot Zone ID should be used to contain the data time e g Zone 15 Mar 2008 14 45 If there is more than one zone in the Tecplot data file during the viewing in ViewPlan the data will only be displayed if the EFDC model time is within the Time Tolerance minutes of the measured data Once imported these data are available for plotting and statistical analysis via the ViewPlan Velocities option To view and calculate statistics for both the model and the data make sure the Show Comparison check box is checked Figure 5 11 shows an example of two ADCP stations data shown in red located in a coastal region being compare to the EFDC model results model vectors in blue These model data comparisons can be ani
151. g any key with EFDC_DS will pause the execution e Checking the Reload checkbox e Using the ViewPlan or ViewProfile review the model progress e Restart the model if desired or stop the model run and make adjustments save and re run e Repeat as needed DS International LLC 5 1 EFDC_Explorer 5 1 Profile Series Access to some of the profiling and time series options are available on the Profile Series tab Figure 5 1 Each major option or feature will be discussed below Post Processing Options Profile Series Calibration Plats Output File Loading E Load Results Reloadif Yiew Vertical Slice of Grid Water Surtace Profile Profile Location Options Use Drape Line f fy The Profile Location Option frame needs to be set first before a profile can be extracted from EFDC ViewProfile or any of the profiles shown in Figure 5 1 There are three profile extraction options The user may either select a value of to extract the active J cells along that or select a value of J to extract the active cells along that J The third option is to use a Drape Line which is a polyline in the same coordinate system as the LXLY data The amp J s from along the line will be assembled and the profile will be output along that slice Time Step History Figure 5 1 Tab Hydrodynamics The View Vertical Slice of Grid button simply extracts a profile using the settings in the Profile L
152. ge will be displayed in the status bar indicating that there was no match Ctrl lt keystroke performs the same function Show Next Data This function jumps the current view up to the next model data match for the current parameter If a match is not found or the current model time is greater than the last data record a message will be displayed in the status bar indicating that there was no match Ctrl gt keystroke performs the same function DS International LLC 7 12 EFDC_ Explorer 7 2 4 Navigating the View The ViewPlan toolbar has a range of different viewing navigation functions However the mouse and mouse keyboard combination also have some very useful navigation capabilities The following summarize the two main navigation features not on the toolbar Zooming The user may zoom to any region of the view simply by RMC holding down and dragging the mouse When the user releases the mouse button the screen will be zoomed centered on the area selected Panning The user may pan in any direction by holding the Shift key down and RMC holding down and dragging the mouse in the direction and distance desired The other zooming and panning functions provided on the toolbar are also available At times the zoom extents button is grayed out due to the view already being zoomed to full 7 2 5 Reporting Units EFDC_ Explorer can generate the plots and tables in either metric the default or English Imperial units This featu
153. he Toolbag The following list provides a summary of these functions S Bitmap Georeferencing Unix gt Windows CRLF Conversion Delete EFDC Generated Files Merge Continuation Runs Re Sample Output Modify ModChan File Categorize Bottom Shears Compute HSPF FTabes Figure 3 8 Toolbar functions Bitmap Georeferencing This utility can be used to create or edit the configuration file that EFDC_ Explorer uses to provide bitmap images and maps as a background for the display of models in ViewPlan To use bitmaps you must first create a geo file This is an ASCII file with the extension geo that contains the pixel and project coordinate information It is very similar to MapInfo s TAB format One geo file can reference multiple bitmaps to build mosaics if needed When this function is selected a form is displayed with the bitmap filenames and coordinate information Any changes must be saved into the same or new geo file for later use in ViewPlan Unix gt Windows CRLF Conversion This utility scans a specified directory and determines if any of the files contained in the directory do not use the Windows CRLF standard The user then has the option of automatically converting all non Windows CRLF files to the Windows standard EFDC Explorer uses the Windows CRLF convention so files created or edited on a Unix platform need to be converted to Windows before use by EFDC_Explorer Delete EFDC Generated Files This
154. he bottom frame contains information and settings that are fixed for all the cells in the current group As mentioned before the water column concentration settings for both time series and constant are fixed for all cells for the same group DS International LLC 4 49 EFDC_Explorer w Modify Edit BC Properties i x Boundary Condition Group Information BC Groups je H of Time Series Em Current Group Type Ee Cur Group Ey Cur Group ID CDM14 Boundary Condition Group Cell by Cell Polygon Cell by Cell Cells in Current Group Bo Add je whe Remove 4 O o Remove All L 245 Bot Elev BE Initial Depth ME Flow Parameters for Entire Boundary Group Apoly Flow Files Constant Concentrations Flow Definition Cell by Cell Flow Table COM14 Edit All Factor 0 3187 Dist Factors All Constant Flow o Distr G Flow Multiplier Swatch Type Normal Intom O utto L L L T Constituent Salinity ppt Temperature C Concentration Tables Time Yariable Salinity fio E Tosic o E Temperature ho E Cohesives ii E Dye fo E Non Cohesives m E ShelFish 0 El wWeaterQualty 11 El Aln D imar Bottom Cancel Surface Figure 4 53 Modify Edit Boundary Condition Properties The Edit button allows the user to edit the associated time series The All but
155. he current time production runs should set the Advection Scheme to 1 and the Sub Option to either O or 1 The Turbulence Closure Constants should not be changed without good justification EFC Hydrodynamic Options amp Parameters Turbulent Diffusion Wave Turbulence Vertical Turbulence Options Turbulent Intensity Advection Scheme fi Sub Option Only for ISQ0 1 0 Turbulence Closure Constants Yon Karman s Constant jos Min Turbulent Intensity Squared E08 ms 2 Minimum Turbulent Intensity Squared Length Scale E12 ms 2 Minimum Dimensionless Length Scale Joon Cancel OF Figure 4 9 Turbulent Intensities DS International LLC 4 9 EFDC_Explorer 4 5 1 3 Wave Generated Turbulence EFDC_Explorer has several options for generating wave effects as shown in Figure 4 10 and Figure 4 11 Most recently EE has been enhanced to include the ability to internally generate wind wave bed shears ISWAVE 3 This option allows simulation of wave effects and re suspension of sediments inside EE Using this option a wind time series is used to provide the instantaneous values of wave parameters with fetch calculated for each cell in eight directions This is used to calculate total bed shear stress with bed shear stress linked to the current via the Grant Madsen approach This option means that it is no longer necessary to use imported external wave turbulence to simulate wave propagation Dang Huu Chung and P M
156. he form with the General tab shown On this tab the user can tell EFDC whether or not to simulate cohesives and non cohesives and the approach to compute bed shear stresses for sediment transport Un checking the Simulate Cohesives and or Simulate Non Cohesives check box does not delete previously defined sediment transport parameters The Sediment Timestep is a multiple of the number of hydrodynamic time steps to calculate between each sediment bed process computation i e deposition erosion consolidation etc Because the bed processes are slow relative to the hydrodynamics this number can often be 10 or greater The user should conduct testing by starting with a low number and increase the Sediment Timestep until the user detects a noticeable difference in the model results Then the number should be reduced by some amount in order to provide a safety factor This can then be used for the subsequent calibration and production runs The Bed Shear Calculation Options allows the user to choose from a number of different calculation options for bed shear stress computations DS International LLC 4 15 EFDC_Explorer Sediment and Sediment Bed Properties Major Settings of Sediment Bed Layers f 0 Cohesives f Non Cohesives 3 Warning Changing these may cause loss of current initial and boundary conditions NonCoh Susp NonCoh Bedload Bed amp Consol Initial Conditions Bed Shear Calculation Opti
157. he masks boundaries and initial particle locations The model represents the vertical component as a depth averaged system with 1 sigma layer The depths of the 5 drifters are initialized at specified depths The results of the simulations are presented in Figure 4 43 showing the trajectories of the 5 drifters over one day Figure 4 44 shows the particle tracks colored by elevation and with random walk applied Even though there was no vertical component the tidal range is seen to result in changing particle elevations DS International LLC 4 37 EFDC_ Explorer Flow BC Particle Tracks a _L __ O 75 Meters Track Length To Current Time Figure 4 43 Harbor _U Trajectories of 5 drifters over 1 day no random walk BC Particle Tracks 1 914 Time 0 9986 06738 Tracks Colored by Elevation n o r Meters Track Length To Current Time Figure 4 44 Harbor U Trajectories of 5 drifters over 1 day random walk DS International LLC 4 38 EFDC_ Explorer 4 11 Initial Conditions Figure 4 45 shows one of the Initial conditions tabs that contain access to the functions that assign initial conditions IC s for bottom elevations water depths water column parameters except water quality parameters which are set on the Algae WQ IC s tab sediment transport bed and bed thermal sub model Many of these functions use a common approach to interpolate data onto the model grid This app
158. he user should also select whether to calculate a subset of the model with a polygon or the whole model area Figure 7 20 displays the output of the Volumetric Analysis for salinity with the breakpoints as shown in Figure 7 19 Time Series Data Grapher Al Sell Lalo lae or lea Heels ele DS INTL ee C TMDL Water Quality Calibration 2003 320 Legend 20000 From OTo 2 Volurne From OTo 2 Area 270 From OTo 2 Shoreline Length 47500 From OTo 5 Yolume From OTo 5 Area From O To 5 Shoreline Length From OTo 7 Yolurne 220 From 0 To 7 Area From OTo 7 Shoreline Length 15000 1250 Area hectares or Length meters 10000 7500 Volume millions of m3 W My Ua jt ii ETT om ofl i Naaa EK TAAA Ki a i afew wi AA ww PAM vw 2500 80 i l L JI I I I I I dd I I 1I I II J I I I I I I I I I I I I I I I I 1 I I I I I I I I 1 1I I I I I I I I I I JI 1I I I I I I 1I I I I I I o 14 Mar 03 18 Mar 03 22 Mar 03 26 Mar 03 30 Mar 03 3 Apr 03 7 Apr 03 11 Apr 03 15 Apr 03 19 Apr 03 23 Apr 03 27 Apr 03 1 May 03 5 May 03 9 May 03 13 May 03 17 May 03 21 May 03 25 May 03 29 May 03 Date S INTL DS INTL Figure 7 20 Viewing Options Volumetric Analysis Time Series DS International LLC 7 34 EFDC_ Explorer Table 7 4 Water quality parameter list available for display EFDC HEM3D Parameters EFDC_ Explorer Derived Parameters cont Amroy Name Abbrev ame Cyanobacteria POrg C Particulate
159. ientAdensnerdidosmadehdatas A te nrthn ahnost wn cin i 1 Cancel OF Figure 5 14 Time series calibration EFDC cell and data linkage definitions When first starting with the model data linkage process the Number of Time Series field will be 0 To initially define or add remove linkages enter the number of desired linkages When the user presses Enter the data grid will be displayed with the number of lines required The number of model data linkages can be changed at any time However the definitions above the maximum number of linkages will be deleted The Get amp J button allows the user to input X and Y values in the LXLY units to determine the corresponding values of amp J The Line Styles frame provides a way to define i e the Define MMA and Define Layer and then apply via the Apply Defaults common formatting for all currently defined model data linkages For each model data pair the user must specify the information listed in each column X amp Y Enter the X and Y in meters of the location of the data station The coordinate system must be the same as that used for the model Using these coordinates the matching model cell is determined DS International LLC 5 13 EFDC_Explorer ID Pathname Param Group Use This is the layer specification option There are three options as shown below The Min Avg Max MMA option generates three model time serie
160. ions one after the other by changing the options and pressing Apply For example you can set the water surface elevation from a data file with units in centimeters then change the Constant options and change the Operator to 100 to convert the elevations to meters When finished assigning editing the current parameter press the Done button to return to the main EFDC_ Explorer form The Done button does not do anything but return the user to the main EFDC_ Explorer form 4 11 2 Set Initial Conditions Water Column This section contains methods to assist the user to assign the initial conditions for the water column parameters The check boxes next to each parameter set the flags for EFDC to read and use these initial condition fields When a parameter button is pressed e g Salinity the Apply Cell Properties via Polygons form is displayed with appropriate options for that parameter e g Figure 4 46 Depending on the options selected on the spatial assignment form the IC s can be initialized or modified in one or more operations Each water layer must be specified or the user can select the Set for All Layers to assign vertically uniform ICs DS International LLC 4 40 EFDC_Explorer The Assign Value Using Vertical Profiles option on the Apply Cell Properties via Polygons form allows the user to specify a data file with vertical profiles data format in Appendix B of the
161. is to produce a representative and computationally efficient grid of the model domain with as low as practical deviation angles e g lt 3 degrees The user can view a map of the deviation angles using the ViewPlan function Export Outline of Model Domain Use this function to output a bounding polygon in the coordinate system used by the model The output file format is P2D This file can be used as an overlay in ViewPlan or imported into GIS systems Export Grid Cells Use this function to export the cells by cell polygons in the coordinate system used by the model The output file format is P2D This file can be used as an overlay in ViewPlan or imported into GIS systems Export Model Grid for Delft s RGFGrid Use this function to export the currently loaded EFDC model grid out to a Delft RGFGrid formatted GRD file This file can then be directly loaded into RGFGrid for editing RGFGrid edited grids can be imported into EFDC_Explorer by selecting Generate New Model gt Import Grid gt Delft RGFGrid Export Bottom Elevations Use this function to export an XYZ data file at the cell center coordinates of the bottom elevations l J Map Transpose I J s These l J Map functions are used during the grid generation importing process to correct any model l J orientation issues This function switches to J and J to I If boundary conditions are already assigned the IJ mapping is remapped to the new IJ space l J Map Reverse Order
162. l showing the water column and the sediment bed Figure 5 6 provides an example for the Pa Vinh Son La Province Vietnam dam s tailwater sediment transport analysis Each bar represents a model cell The thicker top bar represents the water column concentrations of total suspended solids TSS and the bottom horizontally grouped bars represent the sediment bed The height of the water column bar represents the water depth The color of the water column bar represents the TSS concentration of the cell at the time shown in the legend The color range corresponds to the TSS values shown on the key above the color bar The height of the sediment bars represent the thickness of the upper most sediment layer that is interacting with the water column There is a separate sediment bar for each grain size class being simulated The color range corresponds to the mass fraction shown on the key below the color bar If the cell contains no sediments in a given class that class bar is not filled The sediment class grain size is labeled in the key for each sediment bar RMC ing on the legend or pressing the toolbar legend button will provide access to adjustments to the plot settings Son La Project Pa Vinh Hydroelectric Dam Sedimentation Erosion Study 120 Legend Specified lJ Time 60 00 Total Suspended Solids 118 116 Elevation m 0 1000
163. l the user can select the Create Uniform Bed option This brings up a dialog form that asks the user to input the number of layers the number and types of sediments and allows the user to specify the sediment fractions thickness and bulk densities for each layer The user must still set the cohesive and non cohesive erosion amp deposition parameters but once the user finishes this option the sediment bed configuration is ready for EFDC Figure 4 24 shows the uniform sediment bed generator This utility allows the user to specify the thickness porosity thus void ratio and mass distribution by layer Once the sediment bed is generated the user can modify the sediment bed properties in ViewPlan as needed The layer configuration settings can be saved and later retrieved using the Save and the Load buttons in the Bed Properties Definitions frame DS International LLC 4 20 EFDC_Explorer ig EFC Bed Constructor E xX Director JESProjects 2004_05_1 4 Pa Vinh ScoursModel Yers Aung Browse Sediment Information Bed Laver Settings Project Name Sediments Number of Bed Layers Son La Project Sediment ID i 4 B Layer Thickness o s B Bed Properties Definitions Grain 55G 265 Porosity jos Save Load Mass Fraction jaz B l Create Sediment Bed Cok 0 Layer Wet Bulk Density EE a ae Cancel Figure 4 24 Uniform sediment bed generation tool 4 6 2 Steps To Set up a Sedim
164. le of San Francisco Bay DS International LLC 6 6 EFDC_Explorer 6 5 2 Riverine Curvilinear Grid Figure 6 5 is the grid generation form with curvilinear grid option selected showing the required input files Three grid definition files are required along with the topographic data file and the EFDC INP file to generate a model The three files are a section transect file that contains a series of transect locations This defines the longitudinal sectioning The centerline thalweg file defines the grid centerline curvature and flow path between sections Lastly the user specifies a model domain boundary polygon file that limits the lateral growth of the cells out from the centerline The user then must specify some additional options for the grid generation process The radial option buttons near the bottom of the form specify how the curvilinear cells will be inserted into the boundary file e g shoreline The options are Centerline Dominant This option attempts to center either the middle of the center lateral cell odd number of cell across or the edge between the middle two cells even number of cells across with the cells on either side fitted into the remaining space on each side Equi Distance Widths This option calculates the width across the section and then divides it by the number of cells across specified The cells are then fitted into the channel Maximum Width For this approach the user must specify the minimum
165. le to generate a new model DS International LLC 6 3 EFDC_Explorer 6 4 Elevation Options EFDC_Explorer provides the user with several methods of generating the cell bottom elevations from the input topographic data The following discussion addresses each option The following three options require a topographic data file to be specified Average all Z s in Cell Use this option if the topographic data is very dense relative to the grid Use Minimum Z This option scans the data and applies the lowest elevation for any point located inside the model cell Use Z at Cell Centroid Use this option if the topographic data is relatively sparse as compared to the grid This approach uses the inverse distance interpolation scheme to compute the elevation at the X and Y of the cell centroids The following three options do not require a topographic data file They can be used for quicker model generation or building test or evaluation models Flat Bottom Applies the specified constant bottom elevation to all cells Bottom Slope I Direction Applies a constant bed slope to the cells in the direction starting with a specified initial bottom elevation If the entered slope is positive the bottom elevations will decrease with higher I s The inverse is true if the entered slope is negative Bottom Slope J Direction Applies a constant bed slope to the cells in the J direction starting with a specified initial bottom elevation If
166. lso manually edit the header and EFDC_Explorer will maintain those edits However only one header is available for all the different series Data Seres WQO_PomtSrc S gt WO Parameters Title Block _ Reset_ Number of Header Lines EEE Number of Params SRR C Stevenson Creek TMDL wQPSLC Concentration Time a Curent Param 4 C This file is only used by EE to generate mass loadings PD Refactor POC C INPUT UNITS mg EXCEPT TAM mol l FCB MF Ei z JC MWOPSRINS TCPSERINS TAFSERINS RMULAI peis O C TWOPRSERIM NS WOPRSSERIM Nwi 1 7 NS Number of Series 6 F C WOPSSERIM NWwV 814 NS a WOPSSER M MwW 15 22 NS z Curent Series fi a Title Reach 1 Precision Time 2 vj Sof Ponte REE gt View Seme Curent More Cofi G Editing Tools File Tools Jn in mh tw Ab H Di Di a a 1 2 2 8 mye 3 32 f Editerg Tools 5 00 4 7796 i 9 00 123 3566 __Apply to Time 10 00 8 8077 11 006 5 7668 Operator 0 127 00 4 0502 j 13 00 3 3677 Copy Co 15 00 3 0675 16 00 3 0271 7 00 2 0020 a pe BE hi AD R Figure 4 54 Boundary conditions time series editor DS International LLC 4 53 EFDC_Explorer Sometimes the type of time series has fixed groups for a given series This is the case for sediments toxics and water quality To view and or edit a series the user must specify the s
167. lues for each series for the data within the x axis minimum and maximum Ctrl A These values are also copied to the clipboard to be easily copied into Excel integrate the series X Y User specified conversion factor Ctrl l etc Ctrl I allows the user to integrate curves using a simple multiplication where x is time and y is Q in m s However as the time is in days the user must adjust the units between days and seconds when prompted Line statistics by time block may also be displayed with the keystroke Alt S This is similar to a box and whisker plot data but it generates a set of statistics When the user wants to analyze each line by month the they should select 1 M All the data is tab delimited and copied to the clipboard The statistics generated are the average standard deviation minimum maximum lower quartile median upper quartile standard error 95 and confidence interval 9 2 Series Options The user may select which parameters are to be displayed by accessing the Series Options form by RMC ing on the legend or using the toolbar An example of the form is shown in Figure 9 2 This form provides access to adjust the data for plotting purposes The edited data does not update the EFDC data directly If desired an edited series can be exported from the TSP and used to update the model input data Formerly only 10 lines were allowed on a plot at any one time but this limitation has now been removed LMC on o
168. m one model type to the other the user should check the model layering and boundary conditions to ensure the inputs are correct WO General Berth Nutients Algae IC s Timing amp Labels Model Selection Use EPA GWC Model C Use EFOC_DS Model When changing an existing model of one type to the other type please carefully review the model WOBC Misc Initial Boundary Grid amp General CompOpts Hydrodynamics Sed Tox Others GYC Options C Standard Sigma Vertical Grid Generalized Vertical Grid GWC Utility Functions Initialize Layering Distribute BC Flows Use GYCLayer File 7 H Vertical Layers in Sigma Region 4 Reference Elevations Surface m fo Eottom m BE When using the EPA GVC Model the GVC options are enabled The user must specify which layering option to use with the GVC model either a Standard Sigma Vertical Grid pre GVC layering option or a Generalized Vertical Grid GVC option that allows the number of layers to vary in the model layering options and boundary conditions Debug Sigma Figure 4 3 Tab GVC If the GVC layering option is selected the following sub options must be specified e Use GVC Layer File Check to manually set the cell by cell layers When checked the GVCLayer INP file is written by EFDC_Explorer and then used by EFDC_EPA during the model run If not checked EFDC_EPA automatically assigns the GVC layers using the Surface and Bottom
169. mated if desired DS International LLC 5 8 EFDC_Explorer Velocities 9 Octo7 1530 o m s Base Model OCS im 8 Daa Depth Averaged Figure 5 11 Example 2D velocity data comparison DS International LLC 5 9 EFDC_Explorer 5 4 Calibration Plots Figure 5 12 displays the Calibration Plots tab that provides access to some of the calibration features available in EFDC_ Explorer The Time Series Comparisons Correlation Plots and Vertical Profile Comps provide a linkage of water column model results to measured data Once the model data linkage has been defined once calibration plots and statistics can be quickly generated after each model run Post Processing Options Profile Series CAPUT EU ang M Load Results Reload Time Seres Comparisons Correlation Plots Vertical Profile Comps Model Results Loaded of Comps M of Comps M of Comps M Define E dit Define Edit Define Edit Profile Location Options Use Drape Line Plots Report Plots Report Plots Report f tJ Figure 5 12 Tab Calibration Plots Pressing Plots allows the user review the plots on screen and set each plot s style The plot styles are saved in the EFDC_Explorer configuration file CalForm_TS ds CalForm_CP ds and CalForm_VP ds for the time series correlation and vertical profile plots respectively In addition the file CalForm_MMA ds contains plot styles for the
170. matically available and the user only needs to press the Plot button to compare model to data for each run Figure 5 14 displays the form used to link cells to data and other parameters Right mouse click on the cells to obtain additional input options or guides Calibration Tools Time Series Comparisons Line Styles Load Existing Definitions Get amp J Define MMA Define Layer Apply Defaults Humber of Time Series en ka T ID K Pathniame Param Grp Use al 465215 0 3366152 0 1 L26 EAprojects dep perdido model data26 ts do lab wg a13 1 E 462679 0 3365791 0 1 L29 EAprojects dep perdidoa model data29 ts do lab wg 89193 2 1 4577020 3361930 0 1 L3 EAprojects dep perdidoa model datay31_ts_do lab wag 8193 457028 0 3360117 0 1 L33 EAprojects dep perdidoa model datay33_ ts do lab wag 83 4 454103 0 S356404 0 1 La EAprojects dep perdido model datay3 _ts_do lab wag 8193 5 1 451051 0 33545390 1 L40 EXproects idep perdido model data 40 ts dolab Wg mmmn 219 6 1 443da 0 335423 0 1 L424 EAprojects dep perndido modelydatay42a ts_do lab wg ag FY 443696 0 35524820 1 L4e Eprojects dep perdido model data42 ts do lab wag 813 454996 0 S3552706 0 1 L43 Eprojects dep perdidoa model datas43 _ts_do lab wq 813 5 446015 0 3349831 0 1 L46 EAprojects dep perdido model data46_ts_do lab wq 813 10 oT 465215 0 3366152 0 1 L26 EAprojects dep perdida modeldata26 ts_ortho phost wg l 1i 1 ARARA NOO ARRAIA 1 179 Fnom
171. me 3 58 a aaa Areal Ext H Base Model 0220 Areal Ext D Delta i Compare Model Q110 M Use Wet C Transparent Min Depth 0 07 Inundation Time 0 x Show Grid a ee 6 463 Kilometers o gt f GE x rr DS INTL Metric X 445 915 1 Y 1 987 795 1 Figure 7 12 Water Level example showing Areal Extents based on depth durations 7 23 EFDC_ Explorer 7 6 5 Boundary C s The Boundary Conditions Viewing Opt allows the user to display the location and type of boundary conditions currently defined The user may also view the associated time series forcings Viewing Upt s Boundary C s ete in 4 F If editing is enabled when the user RMC s on a cell the menu shown adjacent is displayed The user can choose Edit To edit the boundary group Label BC s New To add a new boundary condition group The new group is not ceam required use the cell RMC d Options Area Delete To delete the boundary group Add to Adjacent Adds the cell RMC d to an existing boundary group that Ee has as one of its current cell as an adjacent cell PAR Edit LMC ing on a cell that has one or more boundary conditions currently assigned i ea to that cell lists the boundary group s and reports on the boundary forcing at Same the time shown in the Options Area The user can enter new times between the Min and Max shown and the forcings will be displayed
172. me Series Plots now include box and whisker plots as well as great control over display of individual lines Ability to created Correlation Plots for data versus model comparisons Ability to internally compute bed shear stress due to Wind Waves Addition of Lagrangian Particle Transport LPT sub model gt gt gt gt 1 3 Conventions 1 3 1 Windows Interface While the general use of EFDC_ Explorer is fairly standard with respect to a user interface for the Windows operating system some basic conventions will be explained here that should help the user Table 1 1 EFDC Explorer user interface conventions TR E A black box with green text provide information only it cannot be edited from that eu location The information data may be modified elsewhere J 75 A while box with black text is the primary data text input interface C4 A radial button indicates a range of options Only one can be selected for each operation requested aes The Browse button is used extensively in the program to allow the user the ability to navigate to the requested desired file s rather than typing in the adjacent text box The user will notice several grayed out or disabled features in EFDC Explorer This indicates that a particular feature is not available for the currently applied version of EFDC or unavailable based on the user selected options The grayed out options are not available to the user DS I
173. me during a tidal cycle 8 1 Figure 8 2 Profile display options as syssa2is oie crcavsaacsanavesexsusaaecunssaasadsepsenstapessssnseeanseuarssaasiausvanes 8 2 Figure 8 3 ViewProfile keystroke fUNCTIONS ccccccececeeeceeeceeeceeeseeesaeeseeseeeseeeseeeseeesaeees 8 4 Figure 9 1 Time Series Plotting TSP utility ccc ccceecceeeeeeceeeeeeseeeseeeeeeseeseeeseeseeseees 9 1 Figure 9 2 TSP Line Options and Controls fOr c ccccsecceeeceeeceeeceeeseeeseeesueeseeeseeeseeeees 9 4 Figure 9 3 TSP Utility standard value axis options form ccccccececeeeeeeeeeeeeeeeseeeeeeeseeeseeees 9 5 Figure 9 4 TSP Utility date axis options fOrM ccccccccsceceeeceeecseecseeceeecseeceeeceeecseeseeenenenes 9 5 DS International LLC xi EFDC_ Explorer 1 Introduction EFDC_Explorer Figure 1 1 is a Microsoft Windows based pre processor and post processor for the three dimensional 3D hydrodynamic model Environmental Fluid Dynamics Code EFDC initially developed at the Virginia Institute of Marine Science Hamrick 1992 amp 1996 The US Environmental Protection Agency EPA has continued to support its development The EFDC code is public domain and part of a family of models recommended by EPA for environmental and regulatory applications www epa gov ceampubl swater efdc EFDC_Explorer5 EFDC Explorer Ver 091102 Copyright 2000 2009 Dynamic Solutions LLC Knoxville Tennessee USA amp Hanoi i
174. mension and shifts the model to reflect the new IJ s 7 6 3 Bottom Elev The Bottom Elev Viewing Opt displays a plan view of the model bathymetry The scales can be changed in the Display Option form to show resolution if desired An option to shift the cell centroids is available by pressing the Move ee Centroids The Volume evaluation button displays a XY plot of the volume Move area relationship and the area elevation relationship Elevation Use the Transparent function to view an underlying georeferenced bitmap If T Transparent the Show Grid option is not checked the grid outlines will be colored but the cells will not be filled 6 3 1 Bathymetry Comparison lf a Comparison model has been loaded see Sect 5 3 alt M allows the user to compare the bathymetry between two models the current model and the Comparison model Alt M toggles the display of Model Comparison allowing the bathymetry differences Base Compare to be displayed instead of elevations This feature is also available for other Viewing Options see section 7 2 6 The volume differences can be computed with the Alt V keystroke The total cut fill net volumes will be displayed and then placed onto the clipboard 7 6 4 Water Levels Water Levels option provides for a range of water depth derived parameters The two main uses of this option are to plot water depths and water surface water Levels elevations
175. meter to the data parameter If there is no data currently configured data for the current viewing parameter a message will be displayed The View Calibration Data toolbar function toggles on and off the display of the following Show Data Stations Label the current plot with Station IDs This information will be displayed on most views even if there is no matching parameter in the calibration data Show Data Values Labels the current plot with calibration data if there is a parameter match to the data and the data is within the tolerance time of the current view Show Data Residuals Labels the current plot with residual Model Data if there is a parameter match to the data and the data is within the tolerance time of the current view Use Layer Options Show All Layers This option enforces the calibration data layer options to the current view If not checked the data and residuals displayed will be based on depth averages Set Model Data Time Tolerance Allows the user to set the number of minutes allowed between the model snapshot time and the data time If the absolute time differences are less than or equal then EFDC_Explorer will consider the two time the same and display the appropriate data or residuals Show Previous Data This function jumps the current view backwards in time to the previous model data match for the current parameter If a match is not found or the current model time is less than the first data record a messa
176. modeldata outlines calib 2008031 9 MarkerH Bottom MarkerH Top CESO2 CESOS CESO4 24 Line Styles merli Define MMA Define Layer Apply Defaults Wdelle nas public projects dep caloosahatcheemodeldata outlines calib 2008031 9 Wdelle nas1 publicsprojects dep caloosahatcheemodeldata outlines calib 2008031 9 Wdellc nas public projects dep caloosahatchee model data outlines calib 2008031 9 Wdelle nag Spublic projects idep caloosahatchee model data outlines calib 2008031 9 Wdelle nag Spublic projects idep caloosahatchee model data outlines calib 2008031 3 Wdelle nag Spublic projects idep caloosahatchee model data outlines calib 2008031 9 OUI DDE uUl _____ Timing Parameter for Matching Model Times to Measured Data Time Tolerance minutes 240 AMS Error Statistics to Display X Number of Data Pairs X A Squared Average Absolute Relative Nash Sutcliffe Rel RMS Figure 5 18 Calibration tool Model vs Data Correlation Plots DS International LLC 5 16 EFDC_Explorer Error statistics which may be displayed are explained in Section 5 4 1 and include e R Squared e Average e Absolute e RMS e Relative e Nash Sutcliffe e Relative RMS An example of a Correlation plot is shown in Figure 5 19 Note that observed data is shown on the x axis and the model data is shown on the y axis Hl Time Series Data Grapher ioj xi Al el
177. n a rectangular box All the cells whose centroids are within the box will be included in the group edit The second method is to use the polygon based selection tool from the toolbar Click on the toolbar button and you will be asked for a polygon file This option allows you to have more control over which cells will be selected than a simple rectangle Select your file and the selection method and then press Apply A list of cells that match the criteria will be included in the cell group to edit The Edit Modify form will come up allowing the user to make group changes to the parameters Some properties do not have a value in the input box because that property varies between the selected cells If a fixed value is shown then that value is constant for the selected cells To replace a property with a new value enter the new value into the appropriate input box To use the Operator function to offset or otherwise adjust all the properties in the selected region put a ora as the first character followed by a space and then the value to apply For example say the user wants to lower a region s bottom elevations by 0 5 meters Select the region desired then type in the Bottom Elev input box 0 5 EFDC_Explorer will then lower all the bottom elevations of the cells in the group by the amount specified The method can be used for any of the cell properties 7 4 3 Cell to Cell Copy Assign This feature allows the user
178. n in Figure 4 35 is displayed For each of the required parameters the user can interpolate the data onto the model Each nutrient reaction class i e G1 most reactive G2 and G3 least reactive or inert must be separately specified The Operator can be used to factor or otherwise modify the interpolated field or a previously defined IC field The data can be interpolated for the entire model in a single operation or using only selected cells by specifying a Poly File The user can initialize the spatial field to a set of constants using the Initialize to Constants button It should be noted that the sediment diagenesis bed is not linked in any way to the sediment transport sub model bed definition scour or deposition processes Apply Cell Properties via Polygons Poly File Browse etA File EProjecte FDE P Perdidos Modet 0 utlines amp DataOrganic carbon dat Browse Modify Options Sediment Diagensis Initial Conditions Parameter POC G1 O Use Constant aed or Value lo Initialize to Constants to Constants Options Inside Cell Test ie Centroid ot Comers H 2 Include Centroids Figure 4 35 Sediment Diagenesis setting the initial conditions The diagenesis kinetic parameters can be divided into zones Figure 4 36 provides access to setting the zones and assigning the zone specific parameters The maximum number of zones needed is set by entering the appropriate number in the
179. n of the Generalized Vertical Coordinate GVC system Stacey et al 1995 Adcroft and Campin 2004 TetraTech 2006 that is supported in the current version of EFDC_ Explorer This users manual provides guidance in the use EFDC Explorer This manual is NOT a users manual for EFDC It is assumed that the user is familiar with the types of data and information required by EFDC EFDC_Explorer is a tool to assist qualified engineers and scientists in the development testing calibration and interpretation analysis of the model DS International LLC 1 1 EFDC_Explorer 1 1 EFDC Explorer Capabilities The following lists provide a summary of the major features of EFDC_Explorer The lists are grouped into three primary categories based on the general use of each feature The first group contains general purpose features while the other two groups summarize the major pre and post processing features It is recognized that many more options and features could be added to EFDC_ Explorer It is anticipated that many new features will be added as resources are available General gt ete o o o Graphical interface to most of the commonly used EFDC features Graphical interface for EFDC Sigma amp GVC versions sub models o Hydrodynamics Density dependent flow state variables Salinity Temperature Tracer Sediment Transport Toxics o Water Quality with Sediment Diagenesis Extensive visualization and point and click inquiries
180. nd one stations data were from manually collected data CESO9 The report provides station and layer information time span of the measured data within the model run time the number of model data pairs the selected statistic and the averages for the paired data only The model bias can be computed if desired by subtracting the Model Average from the Data Average DS International LLC 5 11 EFDC_Explorer EFDC_Explorer Calibration Statistics Time Series Data EFDC Model Run Time Series Statistics Caloosahatchee TMDL Hydrodynamic Calibration 2003 e Projects FDEP Caloosahatchee Model ST Cald3 Current Date 14 Apr 2008 17 23 Layer Starting Ending Data Model Station ID Parameter Type Date Time Date Time Pairs RMS verage Averege CESOS Salinity ppt Minimum 10 Jun 2003 16 07 17 Nov 2003 09 39 19 4 730 17 429 16 396 CES09 Salinity ppt Maximum 10 Jun 2003 16 07 17 Nov 2003 09 39 19 7 146 20 816 24 800 BR31 Bot Salinity ppt Layer 1 01 Jan 2003 01 00 31 Dec 2003 23 00 8759 1 005 0 476 0 754 BR31 Top Salinity ppt Layer 4 01 Jan 2003 01 00 31 Dec 2003 23 00 8759 0 488 0 383 0 485 CCORAL Top Salinity ppt Layer 4 01 Jan 2003 01 00 16 Dec 2003 23 00 4530 1 767 3 429 4 130 CCORAL Bot Salinity ppt Layer 1 01 Jan 2003 01 00 16 Dec 2003 23 00 5290 2 769 3 525 4 657 CESOS Temperature C Minimum 10 Mar 2003 13 01 17 Nov 2003 09 39 24 0 954 27 733 27 256 CESOS Temperature C Maximum 10 Mar 2003 13 01
181. ne of the series in the right hand box will highlight that series Holding down the control key allows the user to select multiple series The user can then change line point styles in the Line Formatting Frame The Legend frame modifies what title will appear on the legend for the last series selected DS International LLC 9 3 EFDC_Explorer In the General Options frame the user can toggle the appearance of each line by checking Show for the series selected An extra Y axes can be added to the right of the graph by setting the Right tab in the Y axis sub frame each line should use and the legend Other features include changing lines to bar graphs with the Show as Bars check box The series formatting and axes formatting can be saved for later retrieval using the save and load settings buttons on the toolbar A series can be adjusted by pressing the Transform button having selected the series This brings up a form with additive and multiplicative adjustment factors for both the X and Y components Clicking OK to this form immediately applies the adjustments The form also provides a means to add or subtract one series from another and place the resultant series into a specified series with the Add Subtract Series button Line Options and Controls l Load Save Cancel OF Line Information Index 1 tt of Points RE cer lt Ma TET Ya SIE lt Min SEERE Min TIT
182. ning resetting boundary condition groups apply to existing projects that have been managed by EFDC_Explorer During the initial loading of a project or if the Reset DS International LLC 3 3 EFDC_Explorer check box is selected EFDC_Explorer tries to logically group boundary condition cells into groups by type and location EFDC_Explorer then manages the boundary conditions using this group approach If the user has modified the boundary conditions somehow and wants a different logical grouping they should select one of these options 3 1 2 Write Operation To save a currently opened project i e Write Operation click on the disk button highlighted on the toolbar shown in Figure 3 2 Ig EFDC Information and Pre Processing Directory EFDC_Explorer_GVC Demo FlondaBay PMCD S m The Select Directory Write Operation form will be displayed Figure 3 4 The user has the option to select which files are written by selecting the appropriate Save Option button Fora complete save of all the input files select the Full Write option If you have only made changes to the formatting options in EFDC Explorer and want those saved select the Save Profile option The profile is always saved for the other save options also w Select Directory Write Operation l x E3 Projects 4 EFOC_Explorer E3 Examples J Mobile 2006 gyclaper inp Lely inp write as Archive Sav
183. now how the Gamma s are used by reviewing the code prior to finalizing the desired inputs Pressing the Initialize Constants button will bring up a dialog box asking the user to select the bedload approach to use EFDC_ Explorer sets the bed load transport constants to standard literature values for the computational approach selected The user should know how the Gamma s are used by reviewing the code prior to finalizing the desired inputs Sediment and Sediment Bed Properties Major Settings of Sediment Bed Layers ft 0 H Cohesives I H Non Cohesives 3 Warming Changing these may cause loss of current intial and boundary conditions NonCoh Susp NonCoh Bedloac Bed amp Consol Initial Conditions Bed Equation Constants Bedload Phi Options Phi Computation Option a JEngelund H ansen Alpha Exp 25 Gamma 1 j Gamma 2 0 Initialize Constant Phi 1 a Constants ee Beta Exp O Gamma aft Gamma 4 jo Cell Face Transport Aate Option Calculate by Downwind Projection with Comer Correction Maximum Allowable Adverse Slope for Bedload 0 05 Cancel OF Figure 4 21 Sediment Transport Non Cohesives Bedload DS International LLC 4 18 EFDC_Explorer Figure 4 22 shows the tab for the Bed amp Consolidation of the sediment properties option In this tab the user may specify various bed consolidation and bed morphology settings The Bed Morphology Options form allows the user to
184. ns Profile S eres Calibration Plots E Load Results Load Comparison Model Load 2D Measured Data Figure 5 8 Tab Comparison Data DS International LLC 5 6 Output File Loading Profile Location Options Use Drape Line ey cd Reload EFDC_Explorer 5 3 1 Load Comparison Model The Load Comparison Model button allows the user to load a comparison model into EFDC Explorer for plotting a range of comparisons between the two models Figure 5 9 displays the model comparison options form Currently this option is functional for comparing bottom elevations water levels fixed parameters velocities sediment bed water column and inundation extents The results of any model comparisons are available in the appropriate viewing option of ViewPlan by pressing alt M Use the browse to the project directory and then select the Compare model desired To only compare model bathymetry between models the current project s output does not need to be loaded However to compare the water depths and or velocity fields between two models the output data for the current project must be loaded If the current project s data are loaded EFDC_ Explorer allows the user to load the water depths and velocities from the Compare model The Time Tolerance input box allows for some slight differences in model output times when comparing time snapshots during the simulation Once all the options are set
185. ns selected For example if the ISVEG flag C5 is gt 0 then the VEGE INP file which contains vegetation information to compute vegetation based flow resistance must be supplied EFDC Explorer reads and writes these same files and reduces the need for the user to remember exactly which file and or which card group has what flag or setting EFDC_ Explorer requires additional information and data to perform its pre processing and visualizations When saving an existing or new project EFDC Explorer automatically generates these files based on the project s settings The following provides a list of EFDC_ Explorer specific files and their functions EFDC DS This is the main EFDC_ Explorer project file This file contains much of the labeling formatting boundary condition and model data linkage information This file is REQUIRED for EFDC_ Explorer to correctly manage boundary groups CORNERS INP This file contains the corner coordinates for each cell EFDC_Explorer computes these using the cell center coordinates DX DY and cell rotation It then matches the cell corners and builds the nodal list By default EFDC Explorer displays the 2D plan view cells using these corner coordinates However the user can choose to view the rectangular cells if desired EFDC LOG DS This file contains the run log that is displayed in the main EFDC_ Explorer form This file is ASCII and can be viewed with any ASCII editor CalForm_TS DS This file contains
186. nt DS International LLC 4 26 EFDC_Explorer Dye Tracer Toolbox Number of Tracer Cells 2o Dye Injection Point i 14 110 H2 J Layer Pulses A Flow 0 1 Start 371 04165649414 Cone 10000 End ais Cell 5 110 Cell 6 110 Cell 7 110 Cell 8 110 Cell 9 110 Cell 10 110 Cell 11 110 Cell 12 110 Cel 12 110 Cell 15 110 Cell 16 110 Cell 17 110 Figure 4 30 Tracer generation tool To define an existing boundary cell as a tracer select the cell from the list on the right and press INS to add it to the tracer list You must then define the flow and dye injection characteristics for each tracer cell You can delete tracers by selecting the cell on the left and pressing DEL 47 WQ General The water quality tabs of WQ General Benth Nutrients and Algae WQ ICs provide the user with a graphical user interface to the water quality sub model of EFDC sometimes called HEM3D Park et al 2000 The implementation of the water quality varies between versions of EFDC so the user should be aware of what is contained in the source code for their particular version of EFDC The WQ General tab is shown in Figure 4 31 Some of the user options include setting the Global Kinetic Options from one of several modules For the EFDC_EPA version the standard kinetic model is contained in Module 3 ISWQLVL 3 While the other kinetic modules may be used with care
187. nt Fredrich Levy CFL time step computed for each cell and displayed This is a good guide to the appropriate time step especially if using the two time level solution The Courant numbers are displayed for the model based on the time step settings of the model If adaptive time stepping is specified the time step used for the initial display of the Courant numbers will be O seconds A Courant Calculator is available by setting the focus to the plot and then pressing T This allows the user to specify a new time step to be used for the Courant numbers This displays the orthogonal deviation for the model grid The computations require four cells therefore the top and right edge cells are skipped The average of the absolute deviation is reported in the legend Displays the computed celerity for each cell Velocities must be loaded for the following options to be available Froude Richardson Densimetric Froude DS International LLC Displays the computed Froude Number for each cell Displays the computed Richardson Number for each cell Displays the computed Densimetric Froude Number for each cell 7 25 EFDC_Explorer 7 6 8 Velocities The Velocities Viewing Opt displays the velocity vectors and magnitudes for the Viewing Opt s model The velocities from a run are stored in the EFDC_Explorer linkage file veicies EE VEL OUT file The first option the user needs to select is the layering op
188. nt project Various tools and utilities for analyzing and adjusting the grid Run EFDC using the current project Does not save the project first Get runtime and other timing information for a completed model run ViewPlan Display the model in plan view This is used for some pre processing Al tasks e g setting boundary conditions and modifying cell properties and post processing results E ViewProfile Display the model profile view along an I or J or a user defined section This is used for post processing results DS International LLC 3 2 EFDC_ Explorer 3 1 1 Open Operation To open an existing project click on either on the toolbar folder button or the browse button highlighted They accomplish identical tasks The Select Directory Open Operation form is then displayed An example is shown in Figure 3 3 The directory displayed will be the last project directory opened The last 20 projects are available in the dropdown list located near the bottom of the form The panel on the right shows the files contained in the selected directory For Open operations the EFDC INP file must exist in the directory w Select Directory Open Operation x E3 Projects 4 EFOC_ Explorer J Examples 4 Mobile 2006 ovclayer inp Lely inp mapogns inp mask inp per inp Qser inp salt inp Open Archive Load Options Scale f Reset EC Groups During Load Force Distinct BC During Load f no W
189. nternational LLC 1 7 EFDC_Explorer 1 3 2 Message Boxes and the Clipboard During the use of EFDC_Explorer various informational message boxes will be displayed presenting the results of some calculation or other message Most of these messages are also placed into the Windows clipboard for ease of transferring the information to some other applications The data placed onto the clipboard are generally tab delimited 1 3 3 Tooltips When the cursor is passed over a button or field EFDC_Explorer will often show a tooltip that will help to explain the function of that button 1 3 4 Operators At several places in EFDC_ Explorer the user has the option of entering a value to replace the current value of some input parameter e g bottom elevation or to use an operator The latter is a simple mathematical function that will be applied to the current value of the parameter A field that allows operators recognizes the inputs described in Table 1 2 Operators must be followed by a space then the value unless it is a simple replacement value Table 1 2 Operator descriptions Example Current Input Description Value Operator Replacement value 310 310 1 3 5 Units EFDC uses the metric system to define the space and concentration variables Meters are used for all of the length related parameters and g m are used for concentrations with the exception of salinity kg m and toxics For toxics the units must
190. number of cells across the channel and then a maximum width allowed for any single cell The centerline dominant approach is then used until the computed widths exceed the maximum width At that time the width is set to the maximum and additional cells are added on either side to fill the channel Uniform Fixed Width This approach uses a fixed cell width and attempts to fill the channel with as many cells as needed yet to generally stay in the channel Once the files are specified and options selected the user clicks the Generate button and a new model is constructed Figure 6 6 shows an example of a curvilinear model developed for the Cedar River DS International LLC 6 7 EFDC_ Explorer im Generate EFDC Model xj Upper Right Easting 1430431 281 Northing 13354452 000 Lower Left Easting 427247 781 Northing 2348189 000 Grid Type Topographic Information File JE Code VB Modeling_Tools EFDC_Explorer T est Cases EE_Curv_South Bottom Eley dat Browse Use Centerline Elevations _ EFDC INP Template File JE Code VB Modeling_Tools EFDC_Explorer Test Cases EE_Curyv_South Model efde inp Browse Curvilinear Files Riverine Only Number of Branches 1 Current Branch E f Cartesian Section Location Transect File Curvilinear EE E Test Cases EE_Curv_South CR Transects dx Browse Ea Impor Grid Channel Outline Boundary File E Test Cases EE_Curv_So
191. obal Settings i il day il day ilr day ilr day ilr day ilr day L day ilr day ilr day ilr day ilr day L day In the Initial Conditions frame the user is able to select spatially constant or spatially varying initial conditions for each of the water quality parameters conditions for the water quality parameters the user must interpolate data onto the model cells using the Apply Cell Properties via Polygons utility If the EFDC model uses spatially varying IC s then the user must specify which input data format to use i e WQWCRST INP or the WQICI format To set spatially varying initial EFDC_ Explorer will generate the IC s in the format specified Pressing the Initialize IC s button assigns the entire domain for all parameters to the values specified as the spatially constant IC s The user can later edit Enable Edit must be checked any of these IC fields using ViewPlan To access the data the user should select Water Column as the main Viewing Option then Water Quality as the sub option then select the parameter desired DS International LLC 4 32 EFDC_Explorer 410 WQBC LPT A new feature of EFDC Explorer is the ability to be able to define Water Quality Boundary Conditions with Load Concentrations rather than Mass Loading files As well as this a new Lagrangian Particle Transport LPT sub model has been added The tab that allows the us
192. ocation Option frame and displays the water column and sediment bed layering if KB gt 0 Figure 5 2 shows an example slice If the drape line or the I J extraction falls across inactive cells a gap will be displayed The water surface displayed are based on the initial condition depths Cedar Ortega St Johns River Curvilinear Grid Model Grid Profile 1 75
193. of Zones field To edit a specific zone the user should scroll to the desired zone using the up down arrow control The zones and the zone specific parameters can be viewed and editing using the ViewPlan by selecting the View Option Diagenesis then checking the Show Zone option If the Enable Edit is checked then RMC ing on a cell allows the user to edit the cells corresponding diagenesis zone s kinetic parameters The cells diagenesis zone assignments can be edited using the Property Copy function DS International LLC 4 30 EFDC_Explorer Sediment Diagenesis Options amp Parameters Constants amp General Diagensis Options Diagensis A ates Diagenesit ones Current Zone EE g of Zones 2 Set ones Diagensis Sediment Thickness O 1 rn Sediment Burial Aate fon emyr Diffusion Coeff in Porewater 0 0005 mrd Particle Mixing Apparent Diffusion Coeff 0 00006 md Optimal Nitrification Velocity 20 degC 0 131 m day Denitrification Velocity Layer 1 20 deg C foi midan Denitrification Velocity Layer 2 20 deg C E m day PO4 Sorption Enhancement Factor jao SOD Scaling Factor i Spatially Yaning Nutrient Fractionation Figure 4 36 Sediment Diagenesis Diagenesis kinetic zones 49 Algae WQ IC s Figure 4 37 shows the tab for Algae WQ IC s Algae Water Quality Initial Conditions The Algae Options frame contains several buttons that if pressed allow the u
194. of input and output data Extensive use of popup tips to help the user select the proper inputs Extensive error and range checking for user inputs Many functions work with Calendar date and or Julian dates Binary file access method to allow the access to files gt 4 2GB Any number of snapshots that can be written by EFDC and managed used by EFDC_ Explorer Output Plots and Tables in either Metric or English units Continuing support and development of the utility O O OO Pre Processor General Pre Processor for the EFDC 2D 3D Version Import many previous versions of the main control file i e EFDC INP Courant and Courant Fredrick Levy calculator tools Run logging Pre Processor Model Generation Build Cartesian or simple Curvilinear models Cartesian models can use expanding grid spacing and grid rotations Easily increase or decrease vertical layering Import complex Curvilinear models generated by third party utilities o Delft RGFGrid formatted file i e GRD file o Grid95 o SEAGrid and o Any generic cell based nodal coordinate file Import grids from different hydrodynamic models o CH3D WES o CH3D IMS o ECOMSED and o Prior versions of EFDC Import grids with multiple sub domains DS International LLC 1 2 EFDC_Explorer Pre Processor General Grid Tools Grid Orthogonality statistics and plots Export any EFDC model grid as an RGFGrid formatted GRD file Export the model domain outline as a XY file P2D
195. ollowing the MOM momentum advection scheme There are other schemes ISCDMA gt 2 that are experimental DS International LLC 4 7 EFDC_Explorer 4 5 Hydrodynamics Figure 4 7 shows the Hydrodynamics tab and the various options available to the user Each of the sub items are discussed below WO General Benth Nutrents Algae IC s WORC Misc Initial Boundary Timing amp Labels Grid amp General Sed T ox O thers Turbulence Options Roughness Options Vegetation v Computed Horiz Viscosity Additive Factor lo Vegetation Flag i Constant Wert Viscosity Multiplicative Factar 1 Laminar Flag lo Wave Induced Turbulence Floodplain 2 s Humber of Classes HE Channel 20 s Modify Classes Modify Polygon Set Apple Overlays amp Up Options Bouyancy Factor i Coriolis Effect Channel Modifiers Corialis Factor Timing Not Used Modify Latitude C eg 20 55 EE Flag 2 R Figure 4 7 Tab Hydrodynamics The Ramp Up Options frame in the lower left hand corner allows the user to modify the timing to full transition physics Buoyancy can be adjusted with a Buoyancy factor that must be between 0 and 1 with O being no buoyancy influence and 1 being full buoyancy influence For some applications the ramp up time from the ICs to natural physics require the phasing in of the buoyancy and the non linear terms This is accomplished using the Modify button and applying some ramp up settings The Coriolis Effec
196. onal are labeled as such Figure 6 7 shows an example of the import form with the Delft RGFGrid option For an existing model grid import the topographic data does not need to be separately processed as the cell bottom data should already exist in the model grid files ig Generate EFDC Model xj Upper Right Easting Northing O O O ae EFOCINP Template File East L tovlinh data felMPROJECTS COE_Sacramento SacremJoag Models Bulld01 BaseOD etde 1 Browse asting a Third Party Curvilinear Grid Files Grid Type DelftsD AGForid Nodal Point File GAD Cartesian sL vlinhdata fe MPROJECTS SCOE Sacramento Grd Sacream_Joag grd Browse C Curvilinear EE f Import Grid Dett RGFGrid x Active Cell peente o Optional Roughness r Browse see Channel fn O2 Check for Disconnected Sub Domains hd asimum Recursions 500 jo FloadPlain 0 04 oo 04 Wi aber Surface 0 jo of Water Layers f Cancel Keep Titles _ Generate Figure 6 7 Grid generation Import Delfts RGFGrid EE has the ability to import grids with multiple sub domains When the user checks the box labeled Check for Disconnected Sub Domains the MAPGNS file will store the various sub domains The user is then able to post process the grid to allow non adjoining cells to connect This is useful when importing complex grid systems DS International LLC 6 9 EFDC_Explorer 7 ViewPlan 1Zewoe Se The ViewPlan
197. ons Aggregate Bed Shear Standard C Separate Bed Stress into Coh amp NonCo PE Simulate Non Cohesives C Reagoregate Bed Stress by Mass Weighting X Use Bedload C Independent Log Law Read SEDROUGH INP C Separate Bed Stress by Weighted Coh NonC and Log Law C Separate Bed Stress by Weighted Coh NonC and Power Law Primary Computational Options X Simulate Cohesives General Correct Grain Stress Partitioning For Non Uniform Flow Effects Dt Sediment Timestep ft 6 Hydrodynamic Smoothness Coefficient fo Kinematic Viscosity for Splitting Cohesive Stress f4 Write Debugging Diagnostics Cancel OK e Figure 4 18 Sediment Transport General Figure 4 19 shows an example of the Cohesives tab in the Sediment Transport form For many of the fields in the Erosion amp Deposition Parameters grid clicking on a cell and pressing F1 pops up helpful information for that field The number of columns shown in the input parameter grid varies with the number of classes to be modeled The Diameter setting located at the bottom of the parameter grid sets the grain size that will be used in calculating dsos for the sediment bed It is not used for any other calculations Sediment and Sediment Bed Properties f Major Settings of Sediment Bed Layers fi 0 Cohesives ft Non Cohesives 3 Warning Changing these may cause loss of current initial and boundary conditions Cohesives NonCoh Susp Non
198. options specified Even though a project directory is requested this process does not write the files only creates the model in memory When the model generation process is complete EFDC_Explorer pops up a message informing the user as to how many active cells were created and what the maximum and J were The last pop up displayed informs the user to review the model and make sure the and J orientations are reasonable For some convoluted grids the L 2 lower left cell may not be correctly assigned After reviewing the grid in ViewPlan and determining that the IJ mapping needs to be adjusted the user can use the IJ mapping tools from the main EFDC_ Explorer form to flip either or J and or transpose the and J mapping Review the generated grid in ViewPlan Load background images and or polyline overlays to visually check the grid View and check grid orthogonality If the grid is acceptable then apply the bathymetry to this new grid using the Bottom Elevations button on the Initial conditions tab on the main EFDC_ Explorer form Review the model grid with bathymetry added to make sure important bathymetric features are properly represented Check the reasonableness of the CFL timestep Repeat these steps as necessary to obtain the proper balance of grid resolution computational speed and other project specific factors DS International LLC 6 2 EFDC_Explorer 6 2 Topographic Information File Fundamental to any
199. or with the correct rotation will be shown and the magnitude will be labeled next to the vector The Primary vector controls the vector display format of the currently loaded EFDC model s velocities The Secondary vector controls either a second model s velocities see Sect 5 3 1 or data see Sect 5 3 2 To change the style of the vectors LMC on the displayed vector When plotting the velocity vectors EFDC_Explorer generally loops over the and J components with the steps shown e g i Step If more control is needed for a project the user may select the Velocity Labeling Locations file This file is an ASCII file DAT or P2D format containing a list of XY coordinates If selected EFDC Explorer loads the XY s and determines the corresponding cell list If points are outside the model domain they are ignored Then when plotting velocity vectors only those cells in the list will be plotted Display Options Yelocity Options Boundary Cond Display x Scale Vectors Show Vectors f Color Cells by Groups 5 cale 0 2 mzs in HeadE 01 Ri Units mis g Font va Primary i Step 2 I gt Properties Step E l a Cancel OF Figure 7 8 ViewPlan Display Options Velocity Boundary Conditions The main user labeling and overlays are controlled in the third tab of the Display Options form Figure 7 9 A labels file and a data posting file are essentially the same format X Y La
200. orer output files i e the EE WS out EE Vel out EE WC out EE WdQ out and EE Bed out At the end of the resampling process the original output files will have been saved in the project directory but with an org extension The newly resampled files will have the out extension and can be used by EFDC_Explorer To resample the output the user runs this utility and enters a snapshot skip interval Once the user verifies that the resampling produced the desired results the user may want to delete the ORG files to save disk space This function can also be used to delete all the model results after a specified time i e truncate Modify ModChan File This option provides access to a channel modifier global editor that recalculates channel lengths change orientation from U to V and vice a versa It also has a Q A function to ensure all the upstream and downstream amp J s point to valid cells The ViewPlan function allows the user a graphical point and click approach to create and edit these pipes Categorize Bottom Shears This utility scans the EE _WC out file for the entire simulation period and builds a list of categorized shears into predetermined bins The results are displayed in a message box and placed onto the clipboard for pasting into Excel or some other display plotting package Compute HSPF FTables This utility computes the data necessary for creating an FTable for the HSPF model It assumes that the curren
201. ork well Run Time Status frame contains the settings for EFDC s feedback to EFDC s runtime screen during the model run The user can simply type in the desired and J or the user can set them using the mouse To set using the mouse select ViewPlan Cell Map or ViewPlan Bottom Elev views then right mouse click on the desired cell and select Set as Show J The data displayed on the screen depends on the Type whose options are Salinity 1 special 2 N 3 time 4 Temperature 5 Cohesives 6 Non Cohesives 7 TSS 8 Dye Age The Wetting and Drying frame uses a flag to select various options These options can change depending on the model settings Generally setting the flag to ISDRY 0 turns off wetting and Note If any of the multiplicative factor settings for water depth or bottom elevation are O or blank EFDC will compute a zero for that parameter for the initial conditions drying ISDRY 1 turns wetting and drying on with constant HWET ISDRY 2 turns wetting and drying on with variable HWET ISDRY 11 is the same as ISDRY 1 but with no non linear iterations ISDRY 12 is the same as ISDRY 2 but with no non linear iterations and ISDRY 99 DS International LLC 4 5 EFDC_Explorer is the latest algorithm for multi face wetting and drying If ISDRY is a negative of the flag e g 99 then EFDC uses cell skipping to improve computational speed Most applications that need wetting and d
202. ort one or more particle tracks to ASCII files for linkage to 3 party applications Post Processor Vertical Profiles e View 2D vertical section plots along any or J index or user defined polyline e For any vertical section view animate o Velocities Salinity Temperature Dye or a computed Age of Water EFDC_DS Only Toxics Sediments and Water quality parameters O O O OOO Post Processor Miscellaneous e Water flux calculator by layer or totaled for all layers e Sediment mass balance sediment mass loadings Post Processor Calibration Comparisons e Time series comparisons for water column data of measured to modeled data for any layer depth averaged and or Min Avg Max model results e Vertical profile comparisons DS International LLC 1 6 EFDC_Explorer e Produce report ready graphics e Calibration statistics using RMS Error Average Error Absolute Error Relative Error and or Nash Sutcliffe Efficiency Coefficient e Automatic generation of the calibration plots and correlation plots with calibration Statistics e Comparison of model results between multiple model runs 1 2 Recent Enhancements to EFDC_ Explorer Capabilities Addition of dye modeling capability Water Quality Boundary Conditions can now be loaded as Concentrations rather than just Mass Loadings Addition of Withdrawal Return Boundary Condition Ability to compare Bathymetry between models Extracting Time Series is now simpler and easier Ti
203. ory and labile nitrogen components e Select which time series number to import the series into The first time the user imports an HSPF file the Import into Existing checkbox should not be checked EFDC_Explorer will import the series and add a new series ID and assign it to the appropriate boundary group However if the HSPF results are being re imported or updated based on new HSPF results then the user will want to import the data into an existing EFDC series EFDC_Explorer uses the current boundary information to assign the series number to import to but the user can change it if needed When the Import to Existing checkbox has focus pressing Ctrl A will cause the all of the boundary groups to use the same option as the current group Importing into an existing series does not overwrite the entire series rather it inserts into the specified series between the Begin and End dates DS International LLC 4 45 EFDC_Explorer iw Import HSPF Model Results into EFDC Boundary Time Series l x Boundary Groups Import Farameters Distributed Reach 4 C Water Quality Flow impor Temperature Number of Set Parameters ME Col Factor C Suspended Solids Dis Ora Phosphorus js J53 w ater Quality Convert Mass Loadings Column Uftset X Import Into an Existing Series a ot e of Cols jo Inzert Delete Folygon Folyline Based Cell Assignments LEM a Cens MM ool
204. plorer Perdido Bay Water Quality Validation 1999 Calibration Results Time Series Summary i ipi j e e iv le Legend l L31 Model Minimum L31 Model Maximum 2 131 Data iE 0 l Jan 99 Feb 99 Mar 99 Apr 99 May 99 Jun 99 Jul 99 Aug 99 Sep 99 Oct 99 Nov 99 Dec 99 Date Figure 5 17 Example model data time series comparison for dissolved oxygen Correlation Plots A recent feature of EFDC_ Explorer is the ability to plot correlations between the model and existing data to assist the user in calibration The method for setting up correlation plots is similar to that for Model Data Configuration in Section 5 4 2 1 The setting up of linkages is the same as that for Time Series Comparisons however with Correlation Plots the user is able to select which Error statistics will be displayed on the plot as shown in Figure 5 18 Calibration Tools Model s Data Correlation Plots Number of Plats le Load Ex isting Definitions ka Y 399563 0 413491 0 399563 0 399563 0 429584 0 424347 0 417041 0 412990 0 2934363 0 2948158 0 2934363 0 2934363 0 29562053 0 2g55202 0 2951 452 0 2947291 0 Pathname Wdallc nae1 public projects dep caloosahatcheemodel data outlines calib 2008031 9 Wdalle nas public projects dep caloosahatchee
205. plorer asks the user for a file to load in order to edit existing data The user can either select the file to edit or press cancel to start with no existing lines DS International LLC 7 11 EFDC_ Explorer To start a new line hold the shift key and LMC the first point Then to add points LMC on each point desired until finished Hold the shift key and LMC to end the polyline polygon The last LMC with the shift key pressed is not included in the defined line At the end of the line definition the user will be asked for a title for the line This title is used by some utilities for labeling When the toolbar button is pressed again to toggle off the polygon editing the user is requested for a file name to write the data to The default format is P2D DX files can also be written by explicitly specifying the file extension as DX When the polygon polyline editing tool is active many of the other standard mouse operations are disabled 7 2 3 5 View Calibration Data When calibration data in the Time Series Sect 5 4 2 or Vertical Profile Sect 5 4 4 has been configured the user can use the View Calibration Data function to display calibration information on selected plots The symbols fonts and time tolerance use the data posting options in the Display Options form Sect 7 3 The data components of this function only apply to the Water Column view When viewing the water column results EFDC_Explorer matches the viewing para
206. priate values for the relative parameters and non cohesive layers DS International LLC 4 21 EFDC_ Explorer 6 Inthe Non cohesive Bed Load Tab the user should click on Initialize Constants button and enter the number for the approach desired e g enter 1 for the Van Rijn approach 7 Inthe Bed amp Consol Tab the user should select the Bed Morphology Options 0 No Bed Change 1 Allow Bed Changes The user should also set the Max Layer Thickness and Constant Porosity to be the same values as in the input sediment file refer to Appendix B 9 for the DSM format of the file 8 Inthe Initial Conditions Tab select the Sediment Initial Condition Options There are 2 options to initialize bed layers Uniform bed and use initial data file 9 Initialize the sediment bed from file browse for the input sediment file 10 Check Use sediment cores with grain size 11 Define the maximum grain size for each size class relatively to cohesive and non cohesive layers as displayed in the in the red frame in Figure 4 26 12 If the required information has been entered then the Apply button is visible After clicking on Apply the sediment bed will be initialized f Cohesives NonCohSusp NonCohBedload Bed amp Consol Sediment Initial Condition Options C Constant Water Column and Bed C Spatially Varying Bed Conditions Bed Mass Specification Options C Specify Mass Area C Spatially Varying W
207. ptions Annotations ccccecceeceeceeeeeeeeeeeseeseeceeeeeeeeeees 7 16 Figure 7 10 ViewPlan Display Options Particle TrackS ccccccceccceeceeeceeeeeeeeeaeeseeeeeees 7 17 Figure 7 11 Example Cell Ma ceassustnatcaeavanasanrerescinitinssacraanespesnsasiadanecandeassaratsenpinasiadans 7 21 Figure 7 12 Water Level example showing Areal Extents based on depth durations 1 23 Figure 7 13 Water flux tool Control Options c cccccceccceecceecceecceecceeceueceueceueseueseueseaeeaaes 7 26 Figure 7 14 Water Flux tool example results using Dominant FIOW cccseceeeeeeeeeees 7 27 Figure 7 15 Viewing Options Sediment Bed with Cell Editing ec cecceeceeeeeeeeeeeees 7 28 Figure 7 16 Water Column longitudinal profile of dissolved OXYQEN ccceecceeeseeeeeeeeeees 7 31 Figure 7 17 Viewing Options Water Column Irradiance Tool cccccceeeeeseeeeeeeaeeenees 7 32 Figure 7 18 Viewing Options Water Column Habitat Analysis tool ccccssceeeeeneeeeees 7 33 Figure 7 19 Viewing Options Volumetric Analysis Tool cccccceecceeceeeceeeaeeseeeeeeeeeeaeeees 7 34 Figure 7 20 Viewing Options Volumetric Analysis Time Series ccccceeecceeeeeeeeeeeeeeees 1 34 Figure 7 21 Add Edit Channel Modifier Option fOrm ccccccceceseeeseeeeeeeeeeeaeeeaeeeaeeeaeeeaees 7 38 Figure 8 1 ViewProfile example showing salinity at one snapshot in ti
208. r 6 1 Model Generation Process The model generation process is 1 Gor oY oS So S 10 11 12 13 14 Locate a template EFDC INP file that EFDC Explorer will use to set many of the standard coefficients and parameters The user can change any of these later in the model generation process An EFDC INP template file is required A simple EFDC INP was supplied in the original EFDC_Explorer setup package Bathymetry is required for the model generation process but not required for the gridding process Because the grid generation process is often iterative it is recommended to skip specifying the Topographic Information File and instead use the flat bottom option in the Elevation Options frame Select the file containing polygons to trim the model cells optional The first polygon in the file should be the main model domain outline Subsequent polygons in the file are interpreted as cutouts islands Set the number of layers Set the initial water surface elevation Should be above the flat bottom elevation Set the default bottom roughness height Select the gridding approach and import or generate a grid At this point the Generate button should be enabled If it is still grayed out then there is still an essential piece of information that has not been set The required inputs vary depending on the gridding option selected Press the Generate button to create a new EFDC model using the
209. r 7 6 9 Sediment Bed The Sediment Bed Viewing Opt provides access to the cohesive and non cohesive sediment transport bed properties The suspended sediment plotting and analysis capabilities are available in the Water Column Viewing Opt Figure 7 15 shows the ViewPlan with Sediment Bed Viewing Opt selected The cell edit form also shown in Figure 7 15 is a typical view when editing sediment mass this model used KB 10 The Sediment Bed option is always available even if sediment transport is not being simulated This option is always available because the bed shear stress is always computed and available to post process When viewing sediment data the first option to set is the Layer Settings EFDC uses a sediment bed layering scheme where the sediment water column interface layer number can vary from cell to cell The maximum number of layers i e KB is set in the Sediment parameter form Sect 4 6 1 The user has three options for viewing sediment data Total i e sum of all the layers a specified layer or the Top Layer The layer number that is in contact with the water column can vary so the Top Layer option provides an easy way to view the sediment layer that is in contact with the water column EFDC Explorer amp Working Form le 4 9 BIH e elste Eli Zisis x DS Ih DS INTL Viewing Opt s w Modify Edit Cell SedimentBed v i i Za H Timing ewa gns Active m Bottom Elevation 11 559 Layer Settings
210. r FLOW and WAVE User Manual November 2006 Delft Netherlands DiToro D M amp Fitzpatrick J J 1993 Chesapeake bay sediment flux model Contract Report EL 93 2 US Dunsbergen D W and Stalling G S 1993 The Combination of a Random Walk Method and a Hydrodynamic Model for the Simulation of Dispersion of Dissolved Matter In Water Transactions on Ecology and the Environment vol 2 WIT Press www witpress com ISSN 1743 3541 Hamrick J M 1992 A Three Dimensional Environmental Fluid Dynamics Computer Code Theoretical and Computational Aspects Special Report No 317 in Applied Marine Science and Ocean Engineering Virginia Institute of Marine Science Gloucester Point VA 64pp Hamrick J M 1996 User s Manual for the Environmental Fluid Dynamics Computer Code Special Report No 331 in Applied Marine Science and Ocean Engineering Virginia Institute of Marine Science Gloucester Point VA Hayter E J V Paramygin and C V John 2003 Three Dimensional Modeling of Cohesive Sediment Transport in a Partially Stratified Micro tidal Estuary to Assess Effectiveness of Sediment Traps 7th International Conference on Nearshore and Estuarine Cohesive Sediment Transport Processes Virginia Institute of Marine Science DS International LLC 10 1 EFDC_Explorer Kirby J T amp R A Dalrymple 1994 Combined refraction diffraction model REF DIF1 version 2 5 Res Report CACR 94 22 Center for Applied Coastal Research Unive
211. r to display the directory files in the directory you unzipped the files to and then double click the file SETUP EXE 3 Choose the directory and install EFDC_Explorer 4 If you used a temporary directory you should delete the files that were unzipped Keep a copy of the zip file in case you need to install the program again 5 For Vista users you may need to change the EFDC _ExplorerdS exe to Run as Administrator before you can use EFDC_ Explorer to run models EE EFDC_Explorers 15 x EFES a AS Alem EFOC Information and Pre Processing Director Browse Title A l i Activated Parameters Active aE H Rows ill water Layers BEE Salinity Dive Cohestves 1 Water Quality Curvilinean Cols EE Sed Layers E Temperature Toxics 0 4 Non Cohestves 3 WO General Benth Nutrients AlgaewO IC s WO BC LPT Initial Boundary Timing amp Labels Grid amp General Sed T ox Others Title ren amp Lee 7 Cells Across Channel Aun LogNotes Project Tithe fuml EC 4 DT 09s HMD o Summary of Model Timing Delta T and Output Options Aun Logging Options H Ref Start Time oog d v Use EE Linkage m ae Sae Time Rer EI End Time EEE d Freq E hrs Modify write to the log file PX Negative Depth Courant StepsHet P4000 Time Step ood z Nowi Linkage write EE_ARRAYS OUT Post Processing Options Misc Analysis Comparison Data Calibration Plots Output File Loading Ix
212. re is toggled on and off using the Alt M keystroke The current reporting units system is shown in the status bar at the bottom of the form The user can also LMC the units label on the status bar to toggle the units EFDC and EFDC_Explorer require the model generation and inputs to be in the metric system The use of the English units for display is only for reporting In order to edit or change the model inputs the reporting units must be set to metric 7 2 6 Second Layer Many of the Viewing Opts can be overlaid with either velocity vectors or cell indexes using the options in the 2nd Layer frame The display format of the 2 Layer parameter is controlled by the current settings for that parameter For example if velocity vectors are to be overlaid water column TSS and the user wants to change the format and or plotting locations of the velocities the user must go to the Velocity view make the desired changes and then go back to the Water Column view and redisplay the TSS concentrations The velocity vectors will then be overlaid on the TSS plot in the new format DS International LLC 7 13 EFDC_ Explorer 7 3 ViewPlan Display Options The primary display options form for ViewPlan is displayed by one of several access methods They include pressing the EN button on the toolbar or RMC ing on either the legend horizontal scale or timing frame The Display Options form consists of four tabs shown in Figure 7 7 to Figure 7 9 To
213. rer C Caloosahatchee TMDL WQOPSLC Concentration Time Series FILE DDD Cc ae This file is only used by EE to generate mass loadings for EFDC Ci A INPUT UNITS mg l EXCEPT TAM mol l FCB MPN 1 C kxk Ce e MWOPSR NS TCPSER NS TAPSERANS RMULADJ NS ADDADJ NS C TWOPSER M NS WQPSSER M NWV 1 7 NS C WQPSSER M NWV 8 14 NS Cee WOPSSER M NWV 15 22 NS kxk Cre EME CHG CHD CHG ROC LOC DOC ROP Ces LOR HOP P4D RON LON DON NHX GER NOX SUU SAA COD DOX TAM FCB C kxk TaZ 86400 0 i Oi WY eR VS abo LIZ OU 0 0000 020000 Oal OSS Isa 686 Lesbo 10 9485 O01 13 OO 13 0 0944 Os 130 0 4181 025989 0 2984 0 0000 0 0000 0 0000 GeZ2006 0 0000 2925 O00 0 0000 0 0000 0 1988 Ie 33 60 13360 10 6880 00123 OLUT O s 1013 9 O 1220 0 4514 0 6465 0 3824 0 0000 0 0000 0 0000 629626 0 0000 29244500 0 0000 0 0000 Ox Z007 L282 99 Leno 1046037 ORONA OZ O21 Oped Gres 0 1214 0 4490 0 6432 O 3035 0 0000 0 Q000 0 0000 6 4734 0 0000 2920900 0 0000 0 0000 OsZ202 7 1 3934 1 3934 11 1468 O01 Os 0127 0 0994 Oh MZ 0 4484 0 6423 Oe S291 0 0000 OOU 0 0000 Cue SoD 0 0000 29264500 0 0 000 0 0000 0 2047 1 4910 1 4910 Dg O26 I O0133 0 0138 0 0910 0 1234 0 4565 0 6533 0 2974 0 0000 0 0000 0 0000 6 4037 0 0000 DS International LLC B 6 Data Format B 11 Water Quality Point Source Loading Concentration Time Series File Sf 2472008 L0 523234 AM MAC s0096 HOODOO s9001 IOS PO oll 29801 0104 0543 ore al Og 0554 PIBO OREG sOGUS oers fl
214. risons Line Styles Load Existing Definitions Get ed Define MMA Define Layer Apply Defaults Mumber of Profiles E ka Fathname B73205 4 3005935 0 SE 08 F 4 Projects St LuciesModel Datas SE 08_FProt_SALIN wg Ba24l 4 3009173 3 SE 03 F Projects St LucteModel Datas SE 03 Prot SALIN wg B7r65Sr 5 3010367 5 SE 02 F 4 Projects St LucieModel Datas SE Q2 Proft SALIN wg 579818 6 3006834 8 SE 01 F Projects St LucieModel Datas SE 01_Prof_SALih vig P2054 3005935 0 SE 08 F Projects St LucieSModel Datas 5E 08 Prof TEMP wg ofa241 4 3009173 3 SE 03 F Projects St Lucie Model DatasSE 03_Prof_TE MP wg of fBo o 3010367 5 SE 02 F ProjectsSt Lucie Model DatasSE U2 _Prot_TEMP wq 579618 6 3006834 8 SE 0 F Projectsst LuciesModel Datas SE 01_Prof_TE MP wg Figure 5 20 Vertical profile calibration EFDC cell and data linkage definitions The information is very similar to the time series model data linkage form However the Group column is missing as the profile plot structure is pre defined One other major difference is the format of the data contained in the Pathname field Appendix B Format B 8 provides guidance on the format This file can contain one or more snapshots in time for the same station and parameter 5 4 4 1 Vertical Profile Plots The Plots function allows the user to view on screen or export the plots that are currently defined and enabled i e Use flag 1 The Plots function loads the EFD
215. rite or append a new Water Quality Time Series which is a Load Concentration file with concentration in kg per day The WQ BC Load Concentrations rely on two new input files wqpslc inp and wqpsl inp Note that wqpsl inp is an EFDC_Explorer file and is not used by EFDC It is often a very large file When the user returns to edit the Water Quality Tables and Series in the Boundary tab EFDC_ Explorer displays all 21 WQ parameters In the MASS Loadings option these parameters are depth averaged and not layered and so are vertically constant However after converting to Concentrations loadings the user is informed that the values have been converted and now are now stored layer by layer Initially these values will be an average as calculated by EFDC_Explorer but the user can now specify certain layers and assign new values as required DS International LLC 4 33 EFDC_Explorer 4 10 2 Lagrangian Particle Transport LPT EFDC_Explorer has been updated to incorporate the pre and post processing of LPT s Dang Huu Chung and P M Craig 2009 The EE pre processing provides full control for initial particle seeding LPT computational option selection and plotting The EE post processing allows for a range of display options for the tracks animations to the screen and or AVI files and the ability to export any or all of the particle tracks to ASCII files The LPT sub model has been implemented with the following major options e Parti
216. roach is discussed in the following section Timing amp Labels O e Grid amp General Comp Opts SedT ox O thers WO General Benth Mutrients Algae IC s WO BC Misc Set Initial Conditions Water Column Set Initial Conditions Other Parameters 1063361 Surface Elev Tosics IC lies Bottom Elevations EEE sany F us Sediment Bed Solids 24 33 _Temperature Use Sediments x Use Thermal Depth Bed Temp ti dye r Use BE Cohesive 1 EFOC Restart Option Input Write Restart File EFOC IC Smoothing Options Use Option Set Files Dye Overnirte X write File Smoothing Smoothing Mot Used Figure 4 45 Tab Initial Conditions 4 11 1 Apply Cell Properties via Polygons EFDC_ Explorer often needs to assign constant or spatially varying values across the entire model domain or within subsets for a variety of water column sediment and other spatially variable parameters and concentrations The form Apply Cell Properties via Polygons provides the general purpose horizontal spatial assignment function needed This utility is context parameter sensitive and displays different options and features based on what the user requested and or specified for data Figure 4 46 shows an example of this utility for salinity Apply Cell Properties via Polygons Salinity Poly File PAD allc nas1 Spublic Projects KotzebuesModels 05_ BC pad are File E Projects FDEP PerdidosModelQutlines amp DatalnitiahG 1993 0nganic ca
217. rofile for Calibration Validation Profiles SE 03 Unknown Unknown 573370 8125 3009112 First line Title for some meaning 14 18 Aug 1999 11 25 here station name coordinate 0 000 0 500 1 000 1 500 2 000 2 500 3 000 3 000 3 500 4 000 4 500 5 000 5 500 6 000 This field is not used by EE 6 300 6 300 Pea OO Te LOO 7 400 9 000 10 300 10 300 11 200 11 700 12 300 14 200 16 500 17 500 12 29 Sep 1999 10 15 Second line number of data 0 000 Oi 1 000 1 500 2 000 24900 3x000 3 000 3900 4 000 4 500 5 000 points on the vertical profile i e 12600 oa 26600 E e 2 700 a 2 7700 aa 2700 e700 2 700 14 Date Gregorian i e 18 Aug 8 18 Oct 1999 12 05 1999 and time i e 11 25 0 000 0 500 1 000 1 500 2 000 2500 3 000 3 000 Third line the water depths from 0 100 0 100 0 100 OQ 6 9 0 100 0 100 0 100 0 100 the water surface of the points T3 29 Nov 1999 11 33 along the vertical profile the depth 0 000 0 500 1 000 1 500 2 000 2 500 3 000 3 000 3 500 4 000 4 500 5 000 5 500 unit must correspond to the model 6 300 6 700 verre OL 8 400 10 600 12 100 12 700 12 700 16 700 17 000 17 100 17 200 18 400 unit meters 9 15 Dec 1999 11 00 Fourth line the observation water 0 000 0 500 1 000 1 500 2 000 2 000 2 500 3 000 3 500 quality values of the points Units 8 500 8 600 8 600 8 800 9 300 9 700 9 900 10 700 11 480 Must correspond to the model 13 13 Jan 2000 10 54 nite 0 000 0 500 1 000 1 500 2 000 2 500 3 000 3 000 3 500 4 000 4 500 5 000 5 500
218. rsity of Delaware Park K A Y Kuo J Shen and J M Hamrick 2000 A three Dimensional Hydrodynamic Eutrophication Model HEM 3D Description of Water Quality and Sediment Process Submodels EFDC Water Quality Model Special Report in Applied Marine Science and Ocean Engineering No 327 School of Marine Science Virginia Institute of Marine science College of William and Mary Gloucester Point VA Signell Richard P 2007 Seagrid Matlab Oceanographic Grid Generator USGS Woods Hole Ma Stacey M W S Pond and Z P Nowak 1995 A numerical model of circulation in Knight Inlet British Columbia Canada J Phys Oceanogr 25 1037 1062 Tetra Tech 2007a EFDC Technical Memorandum Theoretical and Computational Aspects of the Generalized Vertical Coordinate Option in the EFDC Model Tetra Tech Inc Fairfax VA Tetra Tech 2007b The Environmental Fluid Dynamics Code User Manual US EPA Version 1 01 Tetra Tech Inc Fairfax VA Tetra Tech 2007c EFDC Technical Memorandum Thermal Bed Model Tetra Tech Inc Fairfax VA DS International LLC 10 2 EFDC_Explorer Appendix A EFDC Internal Array Visualization Instructions DS International LLC A 1 EFDC_ Explorer The only thing the user need to do to use EFDC_ Explorer to plot and otherwise visualize arrays from within EFDC is to modify the EEXPORT subroutine in the section of code listed in the following textbox To turn on the feature use the following sta
219. ry Conditions The Edit Review button provides access to the general Boundary Conditions Definitions Groups group form shown in Figure 4 49 This form provides a listing of all the defined boundary groups by group ID The list of boundary groups can be sorted by ID or listed in the order they are defined in the EFDC INP file In the top frame Number of Boundary Groups the number of the currently defined boundary groups by type are shown For details on how Boundary Groups work see Section 4 12 6 A method to quickly define one or more boundary groups where boundary condition details are to be added later is available using the Batch Define button This approach uses a P2D file with one or more polylines polygons in a single file If a polyline is open i e the 1 and last point are not the same EFDC_ Explorer will select all of the cells the line intersects as one group If the polyline is closed i e the 1 and last point are the same EFDC_ Explorer will select all of the cells whose centroids are inside the polygon as one group As the user selects a boundary group from the list summary information about the boundary group and its linkages to various boundary forcings is displayed To edit a boundary group the user can double click on the group ID or press the Edit button see Section 4 12 2 RMC ing on a group ID pops up a menu that allows the user to Insert add a new boundary group Delete d
220. rying should use ISDRY 99 When using wetting drying the Minimum Height in the Water Depth Setting frame should be less than the Dry Depth Otherwise the initial water depths everywhere will force all of the models cells to wet even if they should be dry The Mass Balance frame enables mass balance checking and reporting for EFDC The number of steps relates to the number of time steps accumulated between reporting The V button provides quick access to the mass balance file Consistent with the fixed naming convention the mass balance file written by EFDC is BAL OUT for the 3 time level solution and BAL2T OUT for the 2 time level solution With the Masks frame the Use check box enables the user to enable masks zero thickness flow barriers in EFDC The MASK INP file will then be required by EFDC EFDC_Explorer can generate and modify masks using the Modify button as shown in Figure 4 5 The Create Masks utility does not automatically turn on the mask computation it just generates the masks and writes the MASK INP file The user must manually click the mouse cursor inside the Use Masks check box to use the masks generated Masks can be viewed added and deleted in the ViewPlan function When viewing the Bottom Elevations RMC on a cell Enable Editing must be checked first and the cell properties are displayed along with the mask options Mask Editing Tool ManageE
221. s for the cell based on the water column layer results Water Layers 1toKC Specific Layer 0 Depth Averaged i Min Ayvg Max The ID field is used for labeling the plots and statistics reports This field contains the full path to the data file in DAT or WQ formats for the specific parameter location and layer option The user can enter a None or Skip in this field to only display a model time series Enter the parameter code that will be extracted from the model for comparison to the data contained in the corresponding data file The list of currently available parameters is shown in Figure 5 15 RMC ing on this field after it has focus pops up the browse function to allow the user to select or change the file This is the plot number If each line uses a unique Group then each model data pair will be displayed on a separate plot If two of more model data lines use the same Group they will be displayed on the same plot This is a flag to optionally turn on or off the plots and statistics computation for each model data pair Enhanced Message Box Farameter Codes 99 Disabled l Water Surface Elevation 0 Total Suspended Solids TSS l Salinity z Temperature 3 Dye SH Toxics Class Number e g Sl 50 411 Toxics 6 Solids Class Mumber e g 61 60 TSS S Water Quality 501 Cyanobacteria S12 Labile FON S02 Diatomaceous Algae 213 Diss Org Nitrogen S03 Green Algae S14
222. s in the Number of Kinetic Zones box This number can be changed at any time during the model building process Zones are assigned by water column layer and cell so it is possible for the same cell to have more than one zone assigned to it if KC gt 1 The parameters that vary by zone are shown in the frame Water Quality Kinetics There are three groups of parameters that can vary by zone The each group the use of zones or not is separately controlled using the check boxes for that group The specific parameters for the Current Zone for each group are modified by clicking on the Modify button Timing amp Labels ca Grid amp General Sed T ox Others WO Generaf Benth Nutients Algae wO IC s WO BC 7 Misc Global Kinetic Options Water Column Kinetics Current Kinetics Options Module 1 Standard z Zone 5 C Use Zones for Kinetics Modify mi arams Simulated EE Reaeration Opt Constant wind Generated bed Kinetic Update Frequency fi 0 a od COD Decay EE Kinetic Ones a I UseZonestorSeting Modi M i Modif C Output Restart File wWOwWECRST OUT Use Zones for Setting ate lee te Modi _ Zones Initialize WWO Parameters from File I Use Zones for Algal Dynamics ems Figure 4 31 Tab Water Quality General 4 8 Benth Nutrients The Benth Nutrients tab shown in Figure 4 32 provides access to the sediment diagenesis benthic flux settings as well as many of the b
223. s map and view boundary condition time series o View profiles of sediment bed and water column properties with time o Store and quickly display time series calibration comparisons o Compare velocity data to other model runs or field data e g ADCP o Compare model results from two different models to each other e View Sediment Diagenesis concentrations and nutrient fluxes o View by class or total concentrations of PON POP amp POC o View concentrations by diagenesis layer or totals o View nutrient fluxes e Model Metrics Grid Orthogonality map amp statistics Cell angle maps Courant Number Courant Friedrichs Levy CFL time step limits Froude Number Densimetric Froude Number Celerity and o Richardson Number e View Longitudinal Profile plots o Generate longitudinal plots of water column and bottom sediments results o User specified layer averaging e g 1 3 will average the bottom three layers o Water column or bottom sediment data can be overlaid with bottom topography and or water surface elevation depth results and or bed shear e Overlay plan view plots with the following Calibration Data Information O O O O OOO o Station ID o Date Time coordinated data values o Date Time coordinated data residuals and o Data values and residuals can use the same depth averaging or specified layer options specified for the model results e View plotting and animation of Lagrangian Particle Tracking o Added the ability to exp
224. seeeeeeseeeeeeees 1 8 1 3 3 TN RETES EN EERI EEEE TATAA TIIS EE TAIETE PISTE TEESE TTINA ETETEA 1 8 1 3 4 O reie E E EE EEEE E 1 8 Taa E S RARA A E A A A 1 8 1 4 Tennis ADORIS onnea 1 9 e cole che ilps AN ieir ai EEA 2 1 2 1 EE a P A AE E SNOEN A A IE OOE EEN 2 1 2 2 General Frogram SIF NIG seisi TA 2 2 2 3 PFL E E S aA EAA 2 2 2 PUG Explorer Priman TOOD eennscnunarnnaa a 3 1 3 1 Da E i EEEN EEE E EN EN PETEN EIE AEN E PEI NE E ESETE 3 1 3 1 1 Do kE oE E e EEIE IE EA ASA NT AEP da E A AIA AA ATTE 3 3 3 1 2 RTP eaaa RENAE EE EAE AEA AAEE AANE EEAO 3 4 3 2 Fe e PROE AE ne nen eae liad a se E nets ett et EEA E A EE 3 5 3 3 EPO F oa EE 3 6 3 4 Julian to Gregorian Calendar Converter cccccccceccseececeeeeceeeeeeceeeseeseeeeeeseeesees 3 7 0 Toolbag General Utilities scissniacinscceearemacneaanaxiienereneeamemmasammaiees 3 8 3 6 ana Toos anad VUNE Sianas AE AAA R AAAA 3 10 3 7 TO E AA AAAA AA O EA 3 11 3 8 P a E E E E E 3 11 3 9 en Niy A AE A AEA A OT 3 12 EF s E 3 13 STI Se ree VIEWS iin coriccspenbacri anid ccinasidcem a EA A 3 14 4 Caer Cl Ae eiin ean aAa a 4 1 4 1 Timing Labels and Output OptionS n0nnanenonnanennnnnnsnrnrnrsrrnrererrrrersrrnrersrrrrersrrnrne 4 1 4 1 1 EFDC Explorer Output OPIO dens deartictdidanierin a 4 2 4 1 2 mion Fe orc cera asa tavncteses er ecticen iia ninin ANKARAA EKAA aKa iaaii 4 3 4 1 3 Calendar Julian Date Linkage ccccecceeccecceeeceeceeecuecaeecaeseeece
225. ser defined ID ne 2s E gt Gy wa PES nPts in vertical profile LOOD Over NPS Input Depth Positive depths below water surface m End Loop LOOP Over DEUS Input Parameter Value units dependent on parameter End Loop BPnaA Tann DS International LLC B 3 EFDC_Explorer Data Format B 7 Time series observation data file structure Data file containing observation data Description wq dat 10993 USGS Speedy Salinity PPT First line 10993 number N of data oo ee eee points USGS_ Speedy Name Units title OTaTulET99S O1e00 27 01 Jul 1999 02 00 27 for some meaning here station name HUB SOO OsrOO OF water temperature in Celsius degree 01 Jul 1999 04 00 27 This text is only used for labeling 01 Jul 1999 05 00 27 O1 Tul 1999 06200 27 OL Jul 1999 07 00 27 01 Jul 1999 08 00 27 i gul 1999 0900 OF 0IsJul 1999 10 00 27 oleJal 1999 T1200 27 Second line to N lines Date Gregorian Julian date is also OK for example the 370th day counting from 01 Jan 1999 time and parameter s value The Gregorian date format can be in any 01 Jul 1999 12 00 27 l Oieee rogo i00 58 format that Windows recognizes as a 01 Jul 1999 14 00 27 date EE uses the last parameter in the 01 Jul 1999 15 00 28 line as the data value 01 Jul 1999 01 Jul 1999 6 8 8 7 6 6 5 9 5 6 8 9 The data lines are repeated for all N data points DS International LLC B 2 EFDC_Explorer Data Format B 8 Vertical P
226. ser to make adjustments to logical parameter groups For example the Algal Dynamics button brings up a form as shown in Figure 4 38 This allows the user to modify the algal default or background algal growth rates Timing amp Labels OO WE Grid amp General WE General Benth M utrients Algae Options Sed Tox Dthers LW BC Mise Initial Conditions Activate Salinity Toxicity of Cyanobacteria Spatially Varying IC s WOMW4CRS T INP Const IC s Activate Silica State Variables Algal Dynamics Light Extinction Set Spatially Varying Initial Conditions MS ocea anying IC s Stoichiometry Half S aturation Initialize IC s Temperature Fecal Coliform Decay Macioalgae Optimal Depths Modify Figure 4 37 Tab Algae WQ IC s DS International LLC 4 31 EFDC_Explorer Haximi m Haximi m Haximi m growth growth growth Maximum qrowth Basal Metabolism Basal Metabolism Basal Metabolism Basal Metabolism Predation Fate on Description Bate Bate Bate Rate Rate Rate Rate Bate for Cyanobacteria for for Diatoms Greens for Macroalgae Cyanobacteria for for Diatoms Greens for Hacroalgae Predation Fate on Predation Hate on Predation Bate on Background Light Extinction Coefficient l mi ft Cancel Figure 4 38 Algal Dynamics parameter form Cyanobacteria Diatoms Greens Hacroalgae Algal Growth Parameters Gl
227. set all the initial and boundary conditions A special case here is if the user sets the number to 0 then the toxics inputs are skipped for that project from that time forward oe Toxics hoo Warning Changing this may cause loss of Major Settings current initial and boundary conditions Toxic Transport Parameters Toxic 1 nd Compute Toxics Toxic Name Tox Partition Coefficients IC amp Other Params Sorption Model C Simple Kd f DOC amp POC foc TSS Only Parameter DOC WC Solids Based Flag 0 or 1 WC Partition Coeff I ma WC Solids Exponent if Flaq 1 Bed Solids Based Flag 0 or 1 Bed Partition Coeff I rma foc s Col NCo 1 Water Column 0 1 0 1 Sediment Bed 0 0472 0 0104 OK Cancel Figure 4 28 Toxic Transport Options To enable the simulation of Toxics you need to select Compute Toxics checkbox or set the simulate toxics ISTRAN 5 flag to 1 under the Grid amp General tab Computational Options button Each toxic has many of its own settings so the user must first select the toxic to be edited entered by using the drop down list in the upper left corner of the Toxic Transport Parameters frame Once a toxic has been selected all the appropriate information is displayed on the form The Toxic Name field is only used by EFDC_ Explorer for labeling and information The contents of the grid i e field under the Partition Coeffici
228. set to 1 Bed Morphology Options in Bed amp Consol tab of the Sediments form which allows the bottom elevations to change with sediment transport 7 6 9 1 Toxics The Toxics option is enabled only if toxics are being simulated When selected the labels in the Layer Settings frame changes The Total Seds becomes Total Tox and the Sed Class becomes Tox Class Their function is the same but they apply to toxics classes instead of sediment classes In addition the user can select the state of the toxics either Total Total toxic concentration for the class option selected Tox Diss Dissolved phase concentrations for the class option selected Tox DOC Toxic concentration of the dissolved organic carbon DOC complexed phase for the class option selected Tox POC Toxic concentration of the particulate organic carbon POC adsorbed phase for the class option selected POC The POC concentrations assigned to the sediments DOC The DOC concentrations assigned to the sediments 6 9 2 Bed Processes In the Bed Processes frame several options are available to display bed shear stress total bed shear cohesive fraction bed shear and non cohesive fraction bed shear The availability of the bed shear stress option is influenced by the bed shear stress computational option specified in Section 4 6 1 When viewing bed shear stress the user can toggle between stream power Watts m and be
229. st be assigned In ViewPlan EFDC_ Explorer provides a wind series weighting map for each station or the wind weighting total as a QC to make sure it adds up to 1 0 The Atmospheric Data frame provides access to the ASER spatially varying options The solar radiation shading factor can be assigned using the Shade Factors button and or edited in ViewPlan If you are using more than one ASER series you must distribute the atmospheric data series assignments This is done using the Series Weighting function The same approach discussed for the WSER series weighting is used for the ASER series weighting assignments The atmospheric series weight for each station used must be assigned In ViewPlan EFDC_Explorer provides an atmospheric series weighting map for each station or the wind weighting total as a QC to make sure it adds up to 1 0 Figure 4 48 provides two example plots of the WSER series weightings The Figure 4 48 a shows the series weighting for the Inland station and b shows the weighting for the Coastal station The same plots can be obtained for the ASER weightings if NASER gt 1 DS International LLC 4 42 EFDC_Explorer Wind Weight 0 1 Wind Weight 0 1 Wind Sta Inland Station ON 8 Kilometers Wind Sta Coastal Station m 8 Kilometers b Figure 4 48 Example WSER series weighting for two stations DS International LLC 4 43 EFDC_ Explorer 4 12 2 Edit Review Bounda
230. t frame allows the user to determine the Coriolis number by setting the Latitude Deg which is the latitude of the midpoint of the model domain The Channel Modifiers frame allows the use to select the use of EFDC channel modifiers These are like pipes that connect two cells The Channel Modifier Flag option box is used to enable the use of the channel modifiers capability of EFDC The normal on option is when this flag is set to 2 If set EFDC requires the MODCHAN INP file to be input The most flexible approach to create and edit channel modifiers is to 1 turn on this option i e ISCHAN 2 2 enter the ViewPlan 3 select Modchannel 4 enable edit and 5 use the right mouse click to add delete or modify channel modifiers i e pipes Care should be exercised in using channel modifiers as model instability is sometimes increased and mass balance errors can occur 4 5 1 Turbulence Options The Turbulence Options frame displays the various hydrodynamic parameters like eddy diffusivities and activation of wave generated turbulence which can be selected and changed by clicking on the Modify button These options are described in the follow sub sections 4 5 1 1 Turbulent Diffusion Figure 4 8 shows the main form for the computational options for the horizontal and vertical eddy viscosities and diffusivities The parameters and options have been grouped according to which dimension th
231. t Default Cancel OK Figure 9 4 TSP Utility date axis options form DS International LLC 9 5 EFDC_Explorer 10 References Adcroft A and J M Campin 2004 Rescaled height coordinates for accurate representation of free surface flows in ocean circulation models Ocean Modelling 7 269 284 Army Engineer Waterways Experiment Station Vicksburg MS 316 pp Haas K A I A Svendsen and M C Haller 1998 Numerical modeling of nearshore circulation on barred beach with rip channels ASCE 26th Int Conference on Coastal Engineering Bicknell B R J C Imhoff J L Kittle Jr T H Jobes and A S Donigian Jr 2001 Hydrological Simulation Program Fortran HSPF User s Manual for Release 12 U S EPA National Exposure Research Laboratory Athens GA in cooperation with U S Geological Survey Water Resources Division Reston VA Cerco C F amp Cole T M 1994 Three dimensional eutrophication model of Chesapeake Bay Volume 1 main report Technical Report EL 94 4 US Army Engineer Waterways Experiment Station Vicksburg MS Dang Huu Chung and P M Craig 2009 Implementation of a Lagrangian Particle Tracking Sub Model for the Environmental Fluid Dynamics Code Dynamic Solutions LLC Dang Huu Chung and P M Craig 2009 Implementation of a Wind Wave Sub Model for the Environmental Fluid Dynamics Code Dynamic Solutions LLC Delft Hydraulics 2006 Delft3D RGFGRID Generation and manipulation of curvilinear grids fo
232. t bed 200808 5 5 Mass Balance Tool Options FOr cccccccecceecseceeseeeeeceeteeeeeeeeeeeceeeesecseeseeeees 5 6 Tan compar on Dai anna A 5 6 Load a comparison EFDC model ciadcssinccnicon er dinarnccneescenerecnaeenexeonccenss 5 7 Loading measured 2D calibration data ccccccccceccecceeceeee eee eeeeeseeseeeeeseeeeeeaes 5 8 Example 2D velocity data comparison cccccecceeceeceeeeeeceeceeceeeeeeceeteeseeeeees 5 9 Ton ta FOE aien AE ai 5 10 Example time series calibration statistics report ccccccecc eee eee eee eeeeeeeseeeeees 5 12 Time series calibration EFDC cell and data linkage definitions 00 5 13 Available calibration parameter COCES cccccceccecceceeceeceeceeseeseeeeeeeeeeeeeeeees 5 14 Example model data time series comparison for water levels c 0cee 5 15 Example model data time series comparison for dissolved oxygen 6 5 16 Calibration tool Model vs Data Correlation Plots ccccccceccseeeeeeeeeeeeeeees 5 16 Example model data Correlation Plots comparison for water surface elevation 5 17 Vertical profile calibration EFDC cell and data linkage definitions 5 18 Example model data vertical profile plot for salinity cccceceeeeeeeeeeeeeees 5 19 Generate new model options form with expanding Cartesian option 6 1 Example digital topographic data
233. t depths below the top of the core For each core the user must locate the core in horizontal XY space The Z requested is the top of the core elevation i e the bottom elevation at the core location Title Lane Discrete Flag Used to determine data file format Loop over groupings of cores Loop Terminated by the END statement ID Cores Xx Y Z Depths Loop over Depths Thickness Porosity SpecGrav nFractions Loop over nFractions Max Grainsizes um FndLoop Loop over nFractions S6Finer FndLoop FndLoop END gt End Core Definitions wre an TEND Ekanple SSS SS ee a ee a ee Tra Khuc Soil Sampling Results Discrete Core01 2 265814 3 1673167 4 5 90 4 On SOc 2as6G gt 9 20000 To 000 a0 S500 250 3 elon fs 30 LOO 00 94 240 89 50 64 210 gt 79 000 3 6700 16 50 L000 220 OOS 56 00 lt 2 366 6 IO Siro lo Shor sa a LOO OO H020 Ore 20 3a OO a ee C2 e200 OO S6 00 2 65 7 ToO 3500 L250 3 05 Lia LS 30 VOOIOO Jpg 84560 24670 SO 4A eel G80 See SOLOW 260 7 Veo 0 Oumre 210 0 melee 0 Mor mo LT omer LOO SOO Oso Sore oU ZO s8 25 2O bite 0 00 265808 LE7TS613 9 OT 2 0424S SECU0 2566 9 20000 LOCO TOU SeOO anes 23 eo shies fo 30 100400 9440 8 9 50 64 4 10 19 000 lt 36 700 6 50 201200 24 20 OSS SOLU 2 565 7 TIVO 3900 ZOO S75 717 a e320 LOO00 Go L30 SS yO Zr PO Le SAO O DS International LLC B 5 xxx End of 1 Core xxx End of 2nd Core EFDC_ Explo
234. t from a series of pre defined bundles of nutrients DS International LLC 7 6 EFDC_ Explorer 7 2 2 Keystroke Functions To obtain help on the keystroke functions press F1 What is actually shown on the help pop up depends on what data model results are loaded and the currently selected view Table 7 2 provides a listing of the keystroke functions in ViewPlan Table 7 2 ViewPlan keystroke function summary ee Ranning amp Zooming s S steps are fleas here FS Refresh Curontviow SSS e o o omo Ctrl E Zoom Model Extents Cell Property Copy Editing Get Property Ctrl LMC ing on a cell will copy that cell s current property Ctrl LMC to the operator box Set Property Ctrl RMC ing on a cell will apply the value or operator in Ctrl RMC the operator box to that cell Smoothing of Initial Conditions Field Ctrl S Smooth the Currently Selected IC Field This applies only to bottom elevations and the water column Rectangular Cell Selection for Editing Cell Properties To Select Cells in a Rectangle hold the ALT key down and Right Mouse drag The Enable Edit checkbox must be selected Polyline Editing Keys a Move to First Point a a Move to Last Point Move to Next Point ef P Move to Previous Point DEL Delete Current Point INS Insert New Point After Current Point Ctrl D Delete the Currently Selected Polyline DS International LLC 17 1 EFDC_ Explorer Sift LMC Start a New Polylin
235. t project has been designed to be able to generate the necessary information for the Flable This type of project is simply the base model but without the actual inflows into the domain Instead all the flow boundaries have a step flow to allow the system to achieve steady state at that flow and then all the flows must be stepped up again to the appropriate level Generally this can be done with just one upstream flow BC but each case needs to be evaluated After the run is complete the EFDC results should be a series of steady state flow regimes throughout the model domain This utility then uses these results along with the reach polygons to build the FTable DS International LLC 3 9 EFDC_Explorer 3 6 Grid Tools and Utilities The Grid Tools function on the toolbar contains a range of different functions and utilities that have been needed Figure 3 9 shows a screen capture of the current functions available under the Toolbag a Orthogonality Deviation Statistics Export Outine of Model Domain Export Grid Cells Export Model Grid for Delft s RGFGrid Export Bottom Elevations I J Map Transpose I J s I Map Reverse Order Rotate Cell Angles Figure 3 9 Grid Tools functions Orthogonality Deviation Statistics This utility provides summary statistics on the orthogonality of the grid A perfectly orthogonal grid will have a zero deviation angle at every grid intersection The goal during the gridding process
236. ta import plot is correct Press OK to finalize the actual importing process DS International LLC 4 56 EFDC_Explorer Finally the time series form has several additional keystroke functions Figure 4 56 shows a screen capture of the help message F1 Enhanced Message Box EFDC Explorer Edit Series Keys ALT Next Series ALT Previous Series ALT FP Plot the Current Series Ctrel F Find Text F3 Find Next Ctrl H Replace Text Ctrl U Undo Reset Current Series Edits oi cippoer_ Figure 4 56 Time series keystroke function help message 4 12 8 Groundwater In the Groundwater Interactions frame Figure 4 47 the user can select a range of groundwater interaction options The user should review the EFDC code to ensure the option specification and EFDC function for the groundwater parameters The current options are Option 0 Disable groundwater interaction Option 1 Allow soil wetting and drying Option 2 Allow groundwater interaction GWMAP and GWSER and Option 3 Apply a constant groundwater flux out of the model by zones EFDC_DS only The Modify Series button gives access to the groundwater class data Option 3 The number of series is input in the appropriate box and then the grid allows the user to specify the groundwater class data As with the vegetation class data the ID and the Description are used only by EFDC_ Explorer The ID as with the vegetation classes is again us
237. tches it to input polygon ID s Figure 4 15 shows the form for applying a vegetation map to the model cells The file containing one or more polygons in the same file see Appendix B for polygon formats needs to be opened via the Browse button The polygon file will be read and the polygon ID s will be matched to the vegetation class ID s If any vegetation classes do not have any defining polygons the user will be notified Once the initial matching process is complete the user then must choose to perform the actual vegetation assignment If there are unmatched vegetation classes the user can choose to process anyways but they need to be aware that no EFDC cells will be matched to any the vegetation classes that do not have a polygon The classes can always be edited later if desired Figure 4 16 shows a vegetation map that resulted from the polygon vegetation class assignments A simpler approach can be used to assign a single vegetation class to a polygon region if the P2D file contains only one polygon DS International LLC 4 13 EFDC_Explorer Apply Cell Properties via Polygons for Vegetation Classes Poly File F Projects HR TestReach Data amp Outlines TA wetlands pzd RIHAR Modify Options Group of Pols Properties of Classes Ta of Unique ID s in File no of ID s not Defined o Default Class fi Inside Cell Test ie Centroid Appi Comers H 2 Include Centroids Done Read P2D
238. tedecteaiebetnmetalecipaeeiasenaiakeceneialetpsatedesipeialenueiaceciiatess 4 57 5 Main Form Post Processing Operations cccccccecceecceeeeeceeceeececeeeeceeeeeeseeeseeeeeeaeeeaes 5 1 5 1 E E a A E E A EEA EEE E AEE EAEE EE T 5 2 5 2 Miscellaneous Fes cicecsiesact ge rcen eta raed ramecnewcasen px gle paesniah oxaealne paaeerseeesaiaeoteuass 5 4 gal Single Column Sediment Layers ccccccccsscceeeceeceeeceeceeceeceeceeseeceeseenaes 5 4 ies eo an E OA ES R 5 5 TA Mass Balance TOO sonra aaa 5 6 om ope NE EEA AA A EE E E AEE AE A A EEE S A E E EETA 5 6 2 a ey Conparnisorn Model aeriene E E EAE E ease 5 7 9 2 Load 2D Measured Data sik siete grbdca nyneiniieaiiee ened uiaeke nasa eiaee 5 8 5 4 Se a a E Ot A E O EAA E E E A 5 10 5 4 1 Model Comparison Statistics sa decisis ccausininsdoniaicconnisdaviewindacsavdadaaseuindmeandlednedonians 5 10 5 4 2 Time Series CCMPAISONG ance anccncdinamenahunamunakascanans 5 13 5 4 2 1 Model Data Configuration ccccccccccecccecceeeeeeceeeeeeceeeseeseeeseeeeeeseeeeeeseees 5 13 5 4 2 2 Time Series ra cee acne eneeantecauece ncn iczrdernee sadwcnhetahecesncelenbelasacmadeesieteis 5 15 5 4 3 Pegi e piai e i rr NES E EA E AAA N EA EA 5 16 5 4 4 Vertical Profile Comparisons ccccecceeceeceeceeeeeeceeceeteeeeeeeeeeeeeeeesetseteeeaeeees 5 18 Sal venka FoOne PIS eenen A 5 18 6 Generate New Model ia etancscreutissennia sean sknnauasennsesansawtnatsnauenexsioteneuiandtaanaseen
239. tement IF TRUE AND JSEXPLORER EQ 0 THEN To turn off the feature use IF FALSE AND JSEXPLORER EQ 0O THEN There are basic two types of output one for time static arrays and one for those that vary as the model progresses the standard case Depending on the temporal nature of the array the user must code the loops inside the IF THEN block for time static arrays and outside below the IF THEN block for time variable arrays The basic code for outputting the arrays is very simple and examples for both are shown in the text box The user must make sure the flags are set right in order for EFDC_ Explorer to correctly handle the arrays The EFDC_INT OUT file is a binary file for efficient reads and disk storage The following is the basic structure DimFlag TimeFlag Two Integer 4 flags ArrayName One Character 8 name to identify the array The array Loop over the appropriate dimensions and output the array Remember to recompile after any changes to the source code DS International LLC A 2 EFDC_Explorer A section of code from the EEXPOUT subroutine in EFDC INTEGER 4 VER CHARACTER 8 ARRAYNAME CAKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKC INTERNAL ARRAYS IF TRUE AND JSEXPLORER EQ 0 THEN TIME STATIC ARRAYS TF N LT 2 NTSPTC NPSPH 8 THEN OPEN O7 EP LEE EFDC INT VOUT 5TATUS UNKNOWN CLOSE 9775 TATUS DELETE OPEN 37 2 LEB BEDC INT OUT STATUS UNKNOWN amp ACCESS SEQUE
240. tes The data posting label format is used to display the indexes No Labels The i Skip and j Skip fields can be used to reduce the frequency of labeling Sees if the labels are too crowded To only label certain cells do the following Show East Show South Transparent e Enter very large skip values for both the i and j indexes ao m 1 SKIF iSkp fi Reset List e RMC on the cells to be labeled e Refresh the view Until the Reset List is pressed each time the user views the Cell Indexes only the user defined cells will be labeled The Transparent check box causes the grid displayed to use no fill so only the grid outline is displayed This feature is also applied for the water column cells if the cells are dry This feature is needed when using georeferenced bitmap backgrounds to reveal the underlying background DS International LLC 7 20 EFDC_ Explorer 7 6 2 Cell Map The Cell Map Viewing Opt displays the cell as stored in the computer memory Figure 7 11 shows an example cell map using the Uniform Grid option The and J axes can be labeled as they are in this example Cells can be deactivated or activated using this view RMC ing on a cell pops up a menu that allows the user to Edit Activate Deactivate or Set as Show IJ The user can deactivate cells from several Viewing Opt views Deactivated cells are still defined and are in memory The number of active cells
241. the entered slope is positive the bottom elevations will decrease with higher J s The inverse is true if the entered slope is negative 6 5 Grid Type The Grid Type frame contains the primary selection of grid generation function The contents of the center frame Grid Element Generation Options will vary depending on the option selected Shown in Figure 6 1 is the frame contents for the Cartesian grid option 6 5 1 Cartesian Grid There are two options for generation of Cartesian grids uniform grid spacing and variable grid spacing The user selects the desired option and then fills in the appropriate settings as outlined below The coordinate system used in the topographic file if used boundary polygons and specified in the various required coordinate parameters must be the same Typically the user is not building a rectangular model domain Therefore the user has the option of entering a polygon file that specifies the outline of the model domain Any cells that are inside the polygon will be set as active for the model The Cell Test frame allows the user to DS International LLC 6 4 EFDC_Explorer set the inside polygon test options to determine if the cell is inside the model domain or not An option value of 0 will cause the inside cell test to use the cell centroid only If the Corners is between 1 and 4 the inside cell test will require the specified number of cell corners to be inside the pol
242. the metafile depends on two things in EFDC Explorer If you are exporting the results using the Show Border check box then the size and shape will reflect the printer settings If the check box is not displayed then the size and shape will reflect the current ViewPlan window 2 3 2 Export Tecplot Files It is recognized that EFDC Explorer does not and will never handle all the post processing desires needs of every project Therefore the capability to export the data to third party packages via an ASCII file is provided by the inclusion of the TP function from the toolbar This is the Tecplot export utility When selected ViewPlan displays the form shown in Figure 7 6 Here the user can select the beginning and ending times to export as well as the skip interval DS International LLC 7 10 EFDC_ Explorer The user must select the times to be exported The user may manually select the times using the Windows standard LMC Ctrl LMC and Shift LMC to select one or more times Another time selection option is to press Select All the button then toggles to Select None and set the Output Interval An Output Interval of 1 will output all selected times a value of 2 will output every other snapshot etc The number of snapshots that will be exported is shown in the Selected box The Horizontal Skip is used to set a skip count for exporting the model cells A skip count of 1 means every cell will be exported
243. time series option of Min Avg Max plots see Section 9 for more details The time series correlation and vertical profile model data linkages provided in the section 5 4 are only one means of conducting model data comparisons Almost any model parameter can be compared to data using the Import Data feature of the time series plotting utility See Section 9 for more details 5 4 1 Model Comparison Statistics There are four pre defined statistics available for the model data statistical reports They are Average Error AE AE 4 0 T Xi N Where AE The average error statistic O The observed value X The corresponding model value in space and time and N The number of valid data model pairs DS International LLC 5 10 EFDC_Explorer Relative Error RE N N lO X RE ou i 100 Oi Average Absolute Error AAE AAR i110 X l N Root Mean Square RMS Error Xi 1 0i E X N RMS Nash Sutcliffe Efficiency Coefficient t i 1 0 a XD NSEC 1 0 Oy Where Oy is the mean of the observed data The error statistic is selected at the beginning of each statistical report generation process The Statistics for each parameter and station as well as parameter composite statistics are reported Figure 5 13 shows an example of a statistical report for salinity and temperature Two of the stations had time series records from data loggers BR31 and CCORAL a
244. tion Timing There are three ways to handle the layers depth averaged a specified layer or Pian display all layers For the All Layers option the vectors for each cell are to correspond to the layer Blue for layer 1 and Red for layer KC The Velocity Opts frame controls the type of velocity plot to display These options can be combined For example the user can plot the 2D vectors over cells that have been colored base on vertical velocity magnitudes The details of the formats of the color ramps and vector styles is adjusted using the Display Options form The Show Flow checkbox when checked causes EFDC_ Explorer to report flows instead of velocities when LMC ing on the form and when cutting a profile Sect Layer Settings Depth Avgi pt All Lavers Layer 20 Flux Tool Magnitudes vertical Vel Show Flow C Single Dist Show Data Cells Show Compare 7 6 8 1 EFDC computes the velocities on the south and west faces of a cell These are the velocities saved in the linkage file When displaying the velocity field EFDC Explorer transforms the cell face velocities in IJ space to cell centered velocities in XY space When computing fluxes EFDC_Explorer uses the IJ space cell face velocities 7 6 8 1 Profile Tool EFDC_ Explorer provides a quick method for displaying a velocity profile or a flow profile if the option Show Flows is checked While in the velocity view
245. tion Mapping o Compute Display areal extents based on specified a minimum depth and duration o Compute Display areal extents based on a Depth Velocity Flood Hazard Factor o Compare up to 3 models on the same plot showing Areal Extents o Energy Mapping e Compute Display total head WS Elevation v7 2g e Compute FEMA Overtopping parameter depth v View Sediment Bottom results for any time output or animation by layer or averaged totaled over the number of sediment layers o Bottom topography elevations o Bottom scour deposition o Bottom grain size distributions o Bottom sediment mass distributions by layer or totaled over the total number of layers i e KB o Bottom sediment mass fractions by layer or averaged over KB o Bottom sediment porosity by layer or averaged over KB o Bed surface shear stress View Water Column results for any time output or animation by layer or averaged totaled over the number of water column layers o Salinity o Temperature o Dye or a computed Age of Water EFDC_DS Only o Toxics e Totals e DOC Complexed e Dissolved and e POC Adsorbed o Sediments by class or totaled o Water quality parameters e 22 EFDC modeled constituents e Derived parameters like Chl a algal growth limiters and TSIs o Anoxic volumes User specified DO cutoff o Light penetration Secchi Depth Extinction Coefficients Irradiance DS International LLC 1 5 EFDC_Explorer e View boundary condition
246. ton next to several of the fields allows the user to quickly assign all the boundary cells in the current group to the parameter specified in the adjacent field For example pressing the All next to the Flow Table field shown in Figure 4 53 would set the flow series number for all cells in the CDM14 flow group to the current flow table settings Cell can be added or removed from a boundary group using the Cell by Cell option Initially the user can use the Polygon option to select a polygon or polyline to assign the cells that are to be included in the group Once set the user should switch back to Cell by Cell for normal usage and editing 4 12 6 1 Flow BC Specifics For flow BC s the Flow Definition frame has several useful functions If the user has an input flow series for a river that requires distributing the river flow across several cells the single time series of flow can be specified in the Flow Table and the Factor can be set to split the flow appropriately among the cells The Dist Factors button sets the Factor based on cell volumes A constant inflow can also be distributed in a similar manner by using the Distr Q button next to the Constant Flow field The concentrations specified in the Constant Concentrations frame are only used with constant flows Specifying a constant salinity concentration of 5 ppt in the Constant Concentrations frame but
247. ts the pre processor functions and the lower section provides access to some of the post processor functions Another major section of EFDC_ Explorer is the toolbar located at the top of the form Figure 3 1 This provides access to the program configuration options and the main model viewing functions This section contains brief descriptions of several miscellaneous functions that are available from the main toolbar of EFDC_ Explorer AS elle Se S ae OS Figure 3 1 Main form toolbar 3 1 File Management EFDC uses fixed file names for its input files therefore each run project should be stored in separate directories EFDC_ Explorer operates in the same manner EFDC_ Explorer reads and writes the files with the standard fixed file names to from the specified subdirectory called a project by EFDC_ Explorer Figure 3 2 shows the main file management toolbar and Browse buttons to access the opening and or saving of a project 3 Klaag 58 226 RE EFDC Information and Pre Processing Directory Figure 3 2 Project Open Main Form DS International LLC 3 1 EFDC_ Explorer Table 3 1 Main toolbar summary of functions EFDC_Explorer configuration options including where the EFDC executable files are located one for the EPA version and one for the EFDC_DS version Convert between Julian days and Gregorian calendar dates Toolbox of miscellaneous features and utilities View Edit main EFDC INP file for the curre
248. u Toos Oe asiasana ai aiiai 3 10 Figure 3 10 Example of the model run times cccccceecceeceeeceeceeeceeeeeeceeseeeceeeeeeceeeneesaes 3 12 Figure 3 11 Example of ViewPlan output for the Perdido Bay water quality model 3 13 Figure 3 12 Example of ViewProfile output showing dissolved oxygen for Perdido Bay water rN FS r A A A N E EA 3 14 Figure 4 1 Tab Model Title Timing and Output ccc ceccccceeceeeeeeceeeseeseeeeeesaeeeeeseeesaees 4 1 Figure 4 2 Runtime Output and Title 2 0 0 0 ccc cccceccceeceeeeeeceeeeeeceeeseesaeeseeceeeseeseeeseeseeeees 4 2 Fe E o E a EEA EA EAE AO eas ener E AANA EA AAEE A ANT 4 4 Figure 4 4 Tab Grid numerical solution and miscellaneous options cccceeeeeeeeeeeeeeees 4 5 FOUG ee MSk I TOOL ec censc ox ea uarssuacecunsonncewacenist Casia EEEE EN eaii NEARNE 4 6 Figure 4 6 Tab Computational ODptions ccccecceccseceeceeeeeeeeeeeeceeceececeeceeeseeeeeeeeseeteeeaess 4 7 PIMP ee Tak Hydron aN e aeaa A E 4 8 Figure 4 8 Eddy Viscosities amp DIffUSIVITICS 0 ccc ccccceeceeeceeeeeeseeeeecaeeeeeceeeseesaeeseesaeeeaees 4 9 Figure 4 9 Turbulent Intensities ccccccccceccsecceeceeseeceececeeeceeceeceeseesuesaesausaeeceeseeseesensaees 4 9 Figure 4 10 Wave Turbulence Tab Internally Generated Wind Waves ccccceeeeeeeees 4 10 Figure 4 11 Wave Turbulence Tab Wave Options ccccccccceccsecceeeeeeceeeeeeeeeeeeese
249. ues box is shown in Figure 4 29 The parameters shown in Figure 4 29 change slightly depending on which heat sub model is being used Atmospheric Parameters Description Tet Field O Wret Bulb 1 Ael Hum O Dist SolRad over WC 1 Surface Layer TOO0 E yap Transter Coeff lt 0 Use W SP Drag TO00 Cony Tranter Coeff lt 0 Use WSF Drag Fast SolA ad Attenuation Coefficient Slow SolRad Attenuation Coefficient Fraction SolRiad Attenuated Fast Thermal Thickness of Bed lt 0 to use Spatially Varying TEMB ANP fm Initial Bed Temperature lt 0 to Not Allow Change with Time CI Convective Heat Transter Coefficient Bedw C no dim Heat Transter Coefhicient between Bed mis Use Computed Solar Radiation to Oyvernvyrite Input SolRad MM Latitude decimal degrees Longitude decimal degrees Use Spatially Varying Shade Factors rz M Anemometer Height m Cancel OF Figure 4 29 Atmospheric Parameters 4 6 7 Tracer Tool The purpose of the tool is to provide a quick way to setup EFDC computational options and boundary conditions for point source tracer injections Figure 4 30 shows an example of the tracer tool The list in the upper left of the Dye Injection Point frame shows the tracers currently defined The list on the right is a listing of all the currently defined flow type cells The user needs to assign an existing cell or create a new dye injection point and then assign the flow and dye concentration for each poi
250. urrent boundary group and finds any cells whose pressure series ID begins with l If it finds cells with an interpolated series it deletes the series and sets the pressure series index equal to Zero i e resets the assignment 4 12 6 3 Withdrawal Return BC Specifics EFDC_Explorer now fully supports the withdrawal return flow boundary condition of EFDC In the past EFDC did not allow the specification of the rise fall for the water quality constituents A 0 rise was always assumed EFDC_DS was modified to allow the rise fall for each water quality constituent to be specified if using the time series option i e QWRS INP file The constant rise fall feature is only available for the original set of EFDC parameters of salinity temperature dye toxics and sediments DS International LLC 4 51 EFDC_Explorer 4 12 6 4 Hydraulic Structure Specifics When the Hydraulic structure options have been selected the user is presented with a dropdown menu which allows selection from the following types Q Q h L T Q q h DY L T Q q h DX L T Q q h DX DY LT The user may also input the cell downstream from hydraulic structure in the Downstream and J boxes The length L Bottom elevation and Initial Depth are all displayed for the downstream cell The Head Pressure Parameters frame allows the user to set the head for each table After the user has selected a table number the A button applies the
251. uth CR Shoreline p2d Browse Centerline T halweg File JE Test Cases EE_Cury_South CR Centerline p2d Browse Roughness Channel 0 02 FloodPlain 0 04 Water Surface 0 Equi Distance Widths Uniform Fixed Width H of Water Layers fi Elevation Options o Ce Keep Titles 7 Generate Finished Reading x Y amp Z Data Points n 860 Ln Figure 6 5 Generate new model options form showing the curvilinear option Centerline Dominant Maximum Width Channel Cells Across 5 Bottom Elev 2 316 Time 1 00 9 Figure 6 6 Curvilinear grid generation example for Cedar River DS International LLC 6 8 EFDC_Explorer 6 5 3 Import Grid This feature allows the user to import an existing model grid from another hydrodynamic model or a grid generated using a supported third party grid generator The types of third party grids that can be imported are e Delft RGFGrid Delft 2006 e Grid95 or e SEAGRID Signell 2007 The types of model grid files that can be imported are e GEFDC Hamrick 2007 e CH3D WES version and University of Florida version and e ECOMSED In the Grid Type frame the user should select the Import Grid option The dropdown list below the option is then enabled The user then needs to select the appropriate import type Import type dependent options will then be displayed The user should specify the files and enter any options required The import file s which are opti
252. ved oxygen for Perdido Bay water quality model DS International LLC 3 14 EFDC_Explorer 4 Pre Processor Operations In the pre processor section of the main form EFDC_Explorer provides a simple user interface to many of the commonly used options in EFDC that are stored in EFDC INP Some parameters and settings are adjustable directly from this form while some others usually some specific subgroup are available from buttons located on the main form Many of the input boxes have tips values that pop up as the user pauses the mouse pointer over the input box In addition many of the input boxes have internal range checks but as they are so broad as to cover a large range of applications they should not be relied upon in any way to validate user inputs The ViewPlan function also provides some pre processing features and functions that will be described later in Section 7 4 1 Timing Labels and Output Options Figure 4 1 shows the Timing amp Labels tab On this tab the user also sets the output options that are available from EFDC Explorer The model run time time steps including activating auto stepping and output options are adjustable by clicking on the Modify button WO General Benth Nutrients Algaew Q IC s WORE Misc Initial Boundary Timing amp Labels BYE Grid amp General Sed Tox Others Title Water Quality Calibration 1994 Aun LogNotes Project Title BPunlo4 Based on Bunlods Perdido Bay
253. when using the EFDC_EPA version in the standard sigma mode if the GVC option is selected ONLY module 3 works For the EFDC_DS version the standard full kinetic module is Module 1 ISWQLVL 1 Once the kinetic option has been chosen the user still needs to select which parameters will be varied simulated within the selected kinetic option Clicking the Params button brings up the list of parameters whose simulation i e advection and dispersion can be switched on or off However even if a parameter is not simulated since it is still part of the kinetics the IC concentration is used for all of the kinetic calculations The best way to initialize the water quality sub model is to initialize the current model using data from another EFDC_Explorer model This is done using the Initialize WWQ Parameters from File in the Miscellaneous frame This operation should only be conducted once at the start of the water quality model construction This process overwrites all of the current model s settings EFDC allows for water column zones for the assignment of many of the water quality parameters The WQ zones can be set using the Define Zones button or can be set in ViewPlan Water Column Wtr Quality then check WQ Zones checkbox Clicking on the Define Zones button brings up the Apply Cell Properties via Polygons form You must first DS International LLC 4 2 EFDC_Explorer enter the maximum number of desired zone
254. xics the Total Seds Total Tox and Sed Class Tox Class are used to decide how to treat the display results i e as totals or by class The data displayed in the 2D plot can be edited using the editing tools available if the current time is set to the initial conditions The options listed in the Options frame will only be enabled if the correct The Density option is only available if salinity If only salinity is simulated the computational flags are set and or temperature are being simulated temperature is taken as a constant 20 C Laver Settings Depth Avg Pe Bot Layer Layer E 5 Total Seds _ Sed Clase Options Salinity Temperature ft ye Density Topics Total f Sediments i wir Quality DO a Enable Edit X Show Grid For most Viewing Opt s the Statistics tool on the toolbar is available to compute a range of statistics on the current view For the Water Column option the Statistics tool provides additional capability The Statistics tool can compute a time series of the mass weighted averages for any parameter for all or any subset of the model 6 11 1 Longitudinal Profile When viewing the Water Column the Longitudinal Profile tool is available on the toolbar This function is similar to the 2D profile ViewProfile but provides an XY longitudinal plot of the current parameter along some profile The approach to define th
255. xplorer application directory and then launches the batch file The file name is RunEFDC Bat This DOS batch file launches EFDC_DS or EFDC_EPA as a DOS window with the current project directory in the Title bar The EFDC_DS model allows the user to pause and restart the EFDC model during a run by pressing a key when the model s DOS window has focus When EFDC_DS finishes execution the model waits for the user to press a key to continue exit However if the user writes a custom DOS batch file using EFDC_DS and does not want the pause function the user must add the command line switch nopause to the EXE line For example E Code FORTRAN EFDC EFDC_DS Release efdc_ds_080228c2 exe nopause DS International LLC 3 11 EFDC_Explorer 3 9 Run Times 3 8 ala S E S The clock button provides a summary of the project s run times in hours As EFDC runs it keeps track of its run time and when the run finishes it writes the information to the file TIME LOG When this button is pressed EFDC Explorer reads the TIME LOG file and provides a summary of the information Figure 3 10 shows an example timing output This function is operational only for the EFDC_DS version EFDC_Explorer x i Model Ending Time 03 31 2004 00 12 N 3600 TIMEDAY 0 0462 DATE 20040331 TIME 001249 720 PRENT 0 1574 TCONG GRAD 0 00086 T P amp UY VELS 0 0054 T SSEDTOX 0 0000 TEXFLICIT 0 0256 TCVERTV D 0 0071 T CALC UVW 0 01
256. ygon to be considered inside and therefore an active cell lf the user is modeling a riverine system with overbank floodplains the user may provide a Channel Polygon file This file assigns all cells outside this polygon but inside the model domain as floodplain cells Cell type 7 Those cells inside the polygon receive a standard computational cell type Cell type 5 This allows some of the tools in EFDC_Explorer to be quickly applied e g Roughness Options The Rotation Angle can be entered to rotate a Cartesian grid about its centroid If a grid is to be rotated the coordinates entered in the following sections are based on the unrotated grid However the application of the Active Cell Polygon and Channel Polygon are applied after the cell rotation 6 5 1 1 Uniform Grid For the Cartesian grid option the user must specify the model corner coordinates and spacing Several utilities have been provided to speed up this process The Set to Data button simply copies the data from the topographic data corners to the grid corners The user can edit them afterwards as desired Secondly the Update button computes empty fields For example if the user enters the lower left LL corner the DX DY and NX IC 2 and NY JC 2 then presses the Update button the upper right UR coordinates are set Likewise if the LL and UR coordinates are set and the NX and NY values are set the DX and DY are comput

EFDC_Explorer3 Users Guide - CEFD

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