A Geostatistical Uncertainty Analysis Package Applied to Groundwater Flow and Contaminant Transport Modeling.

Developed By:

William L. Wingle , Eileen P. Poeter , and Sean A. McKenna .

Department of Geology and Geological Engineering

Colorado School of Mines

Golden, Colorado 80401

This work funded by:

United States Bureau of Reclamation

United States Amry Corps of Engineers, Waterways Experiment Station

Sandia National Laboratories

TABLE OF CONTENTS (Short)

TABLE OF CONTENTS (Long)

UNCERT - TABLE OF CONTENTS (Short)

Chapter 1: Introduction (to expanded))
Chapter 2: Installation (to expanded)
Chapter 3: X-Windows and Motif (to expanded)
Chapter 4: Mainmenu (uncert) (to expanded)
Chapter 5: Plotgraph (to expanded)
Chapter 6: Histo(gram) (to expanded)
Chapter 7: Distribution Comparison (distcomp) (to expanded)
Chapter 8: Vario (to expanded)
Chapter 9: Variofit (to expanded)
Chapter 10: Grid (to expanded)
Chapter 11: Contour (to expanded)
Chapter 12: Surface (to expanded)
Chapter 13: Block (to expanded)
Chapter 14: SISIM & SISIM3D (to expanded)
Chapter 15: Modmain (to expanded)
Chapter 16: Mt3dmain (to expanded)
Chapter 17: Array (to expanded)
Chapter 18: Utilities (to expanded)

Appendix A: C Print Formats (to expanded)
Appendix B: Makefile and Source Code Requirements (to expanded)
Appendix C: Preference Files (to expanded)
Appendix D: X Resource Files (to expanded)
Appendix E: Help Files (to expanded)
Appendix F: Bibliography (to expanded)
Appendix G: Software Contributions to UNCERT (to expanded)

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TABLE OF CONTENTS (Long)

Chapter 1: Introduction

The UNCERT Project
Introduction

Chapter 2: Installation

Information and Comments

Warranty

Hardware / Operating System Requirements
Acquiring Software
Installation

Unpacking the Software
Compiling UNCERT
Setting Up User Accounts

Chapter 3: X-Windows and Motif

The Application Window
Pull-Down Menus
Pop-up Dialogs
Buttons
Scrolled Text
Slider Bar
Text Fields
Toggles
Toggle Menus
Option Menu Lists

Chapter 4: Mainmenu (uncert)

The Main Menu
File
Data Analysis

Array
Distcomp
Graph
Histogram

Geostatistics

Semivariogram Analysis
Semivariogram Fit
Grid
SISIM3D

Modeling

MODFLOW
MT3D

Visualization

Block
Contour
Surface

Help
Running from the Command Line

Chapter 5: Plotgraph

The Main Menu
File

Open
Add
View
Save
Save as
Save Preferences
Print Setup
Print
Quit
Quit Without Saving

Data
Curve Fitting
Graph

Axes
Border
Fonts
Labels
Mesh
Style

Log
Plot

Now
Refresh

Help
Zoom and Mouse Control

Location
Refresh
Zoom

Example of Using Plotgraph
Running From the Command Line
Setting up the Input Data File

Basic
Repeated X Value with Many matching Y Values
Multiple Lines
GEO-EAS/GSLIB Files

Plotgraph Mathematics

Theory of Least-Squares Regression

Bibliography (plotgraph)

Chapter 6: Histo(gram)

The Main Menu
File

Open
View
Save Preferences
Print Setup
Print
Quit

Data
Style

Plot Type

Histograms
Box and Whisker Plots
Cumulative Distributions
1.0 - Cumulative Distributions
Probability Plots

Y-Axis Type
Transform Type

Statistics

Display
Tabulated

Graph

Border
Fonts
Labels
Line Styles
Mesh

Plot
Log
Help
Zoom and Mouse Control
Example of Using Histo
Running From the Command Line
Setting up the Input Data File

Column

No Header Column Data
Variable Length Columns
GEO-EAS/GSLIB

Gridded

Histo Mathematics

Classical Statistics
Calculation of Normal-Distribution and the Development of a Probability Distribution Graph Axis

Normal-distribution with associated z values

Bibliography (histo)

Chapter 7: Distribution Comparison (distcomp)

Chapter 8: Vario

The Main Menu
File

Open
View
View Results
Save
Save as
Save Preferences
Print Setup
Print
Quit
Quit Without Saving

Experimental

Data
Soft Data
Indicator Threshold
Search Parameters

Point (Irregular) Data
Gridded Data

Spatial Equations
Covariance View
2D Semivariogram

Search Parameters
Calculate

Calculate

Jackknifing

Modify
Individual Display
Calculate

Graph

Border
Error-Bar Style
Fonts
Labels
Legends
Mesh
Style

Log
Plot
Model
Help
Example of Using Vario
Running From the Command Line
Setting up the Input Data File

Uncertainty File

Vario Mathematics

Semivariogram
Cross-Semivariogram
Covariance
Correlogram
General Relative Semi-semivariogram
Pairwise Relative Semi-semivariogram
Semivariograms of Logarithms
Semirodogram
Semimadogram
Indicator Semivariogram
Indicator Covariance
Soft Data Theory

What Are Soft Data?
Bayesian Statistics
Bayesian Analysis of Hard Data
Bayesian Analysis of Soft Data (A)
Bayesian Analysis of Soft Data (B)
Bayesian Analysis of Soft Data (C)

Indicator Coding of Soft Data

Hard Data
Soft Data, Type A
Soft Data, Type B
Soft Data, Type C

Improving Semivariogram Estimates With Soft Data

Improving Covariance Estimates with Type A Soft Data
Improving Semivariogram Estimates With Type B Soft Data
Improving Semivariogram Estimates With Type C Soft Data

Jackknifing

Bibliography (vario)

Chapter 9: Variofit

The Main Menu
File

Open
View Data
View Results
Save
Save as
Save Preferences
Print Setup
Print
Quit
Quit Without Saving

Regression

Calculation Method

Automatic
Manual

Parameters
Slider Fitting
Solution Method
Calculate

Jackknife

Modify
Individual Display

Latin-Hypercube

Parameters
Individual Display
Save
Save as
Calculate

Series

Display
Parameters

Graph

Border
Error-Bar Style
Fonts
Labels
Legends

Data Parameters
Model Parameters

Mesh
Style

Log
Plot
Help
Example of Using Variofit

Loading a Pre-Existing Experimental Semivariogram
Calculating a Single Model Semivariogram - Automatic Mode
Calculating a Single Model Semivariogram - Manual Mode
Calculating Multiple Latin-Hypercube Sampled Model Semivariograms

Running From the Command Line
Setting up the Input Data File

Single Models
Jackknifed Models

Output Data File Formats

Single Models
Latin-Hypercube Sampled Models

Variofit Mathematics

Experimental Semivariogram Calculation
Automated Semivariogram Fit

Modified Least-Squares Regressions

Latin-Hypercube Sampling

Bibliography (variofit)

Chapter 10: Grid

The Main Menu
File

Open
View
Save Preferences
Quit
Quit Without Saving

Method

Inverse-Distance
Ordinary Kriging (GSLIB)

Model Semivariograms
Search parameters
Drift Parameters
Zonation Parameters

Trend-Surface Analysis
Calculate

Grid

2D-Grid
3D-Grid
Calculate

Log
View
Help
Example of Using Grid

Inverse-Distance Example
Trend-Surface Analysis Example

Running From the Command Line
Setting up the Input Data File
Output Files
Grid Mathematics

Inverse-Distance Mathematics
Kriging Mathematics
Trend-Surface Analysis Mathematics
Analysis of Variance (ANOVA) Mathematics for Trend-Surface
Regressions

Bibliography (grid)

Chapter 11: Contour

The Main Menu
File

Open
View
Save Preferences
Print Setup
Print
Quit

Blanking (& Line Drawing)
Contour

Active Plane
Parameters

Gradient
Posting
Graph

Border
Fonts
Labels
Mesh
Scale

Palette

Set Palette
Color Legend

Plot
Profile

File

Save
Save as
Print Setup
Print
Quit

Line

Random Line
Fixed Start Line
Specify Line Coordinates

Graph

Border
Labels

Graph
Section

Mesh

General Comments

Graph Appearance
Plotting Profile Line on Contour Map
Removing Profile Lines

Help
Zoom and Mouse Control

Position of Mouse on Map
Zoom

Example of Using contour
Running From the Command Line
Setting up Input Files

The Standard UNCERT Grid Formats

Grid Centered
Node Centered

Other Grid File Formats

SURFER
GSLIB

Setting up a Blanking File
Setting up a Posting File
Setting up a Palette File

Contour Mathematics

Slope Gradient Determination

Bibliography (contour)

Chapter 12: Surface

The Main Menu
File

Open
View
Save Preferences
Print Setup
Print
Quit

View

Active Plane
View Type
Parameters

Gradient
Palette
Fonts
Log
Plot
Help
Example of Using surface
Running From the Command Line
Setting up the Input File
Surface Mathematics

Rotations and Transformations
Hidden Surface and Line Removal

Parallel Transformation
Back to Front Drawing

Surface Shading With Shaded Relief
Slope-Gradient Determination

Bibliography (surface)

Chapter 13: Block

The Main Menu
File

Open
Open SU
View
Save Preferences
Print Setup
Print
Quit

View
Data Range
Bench
Blank
Post
Palette
Fonts
Log
Plot
Help
Example of Using block
Running From the Command Line
Setting up the Input File

Equal Dimensions

Equally Spaced

Non-Equal Dimensions
Non-Gridded Files
Blanking Files

Block Mathematics
Bibliography (block)

Chapter 14: SISIM & SISIM3D

The Main Menu
Project

Open Project
View Project
Save Project
Save Project as
Quit
Quit Without Saving

Packages

Configuration

Open Configuration
View Configuration
Save
Save as
Modify

Data

Select Data File
View Data File

Geometry

Open Geometry
View Geometry
Save
Save as
Modify

Semivariogram

Single

Open Semivariogram
View Semivariogram
Save
Save as
Modify

Latin-Hypercube Solutions

Open Semivariograms
View Semivariograms

Uncertainty

Select Uncertainty File
View Uncertainty File

Simulator
Network

Mode
Select Computer List
View Computer List
Select Computers

Run
Statistics

Model Summary

Individual Simulation
All Simulations

View
Log
Help
Example of Using Sisim
Running From the Command Line
Command Line Options for Running ISIM3D
Sisim Input Data Files

Project Files
Configuration Files (sisim3d)
Data Files (sisim3d)
Geometry Files (sisim3d)
Semivariogram Files (sisim3d)
Uncertainty Files (sisim3d)
Latin-Hypercube Semivariogram Files
Computer List Files
.netrc

Sisim Output Data Files

Debug
Block & sisim3d Output
Kriging and Indicator Kriging
Stochastic Simulation

Bibliography (sisim)

Chapter 15: Modmain

The Main Menu
Project

Open Project
View Project
Save Project
Save Preferences
Quit
Quit Without Saving

Packages

Basic
Block Centered Flow Drain
Evapotranspiration
General Head
MT3D
Output Control
PCG
Recharge
River
SIP
SSOR
Well
Utility

Run

Now
Save Script

View

MODFLOW Output File
Drawdown/Head:Contoured Surface
Drawdown/Head:Block

Simulator
Network
Log
Help
Editor

Array

Print Setup
Print
Quit

Edit

Example of Using Modmain
Running From the Command Line
Setting up Files

Project File
Script File

Bibliography (modmain)

Chapter 16: Mt3dmain

The Main Menu
Project

Open Project
View Project
Save Project
Save Preferences
Quit
Quit Without Saving

Packages

Flow File
Basic
Advection
Dispersion
Sink & Source Mixing
Chemical Reaction
Utility

Run

Now
Save Script

View

MT3D Output File
as Contoured Surface
as Block

Simulator
Network
Log
Help
Editor
Example of Using Mt3dmain
Running From the Command Line
Setting up Files

Project File
Script File

Bibliography (mt3dmain)

Chapter 17: Array

The Main Menu
File

Save Preferences
Quit

Array

Array-Array
Array-Constant
Array-Indicator
Array-Reclassification
Array-Series

Array-Array Parameters
Array-Point Parameters

Array-Transform

Log
Help
Example of Using Array
Running From the Command Line
Input & Output Files
Array Mathematics

Chapter 18: Utilities

calc

Numerical and Operation Keypad

lpr_ps
ps_merge
editor

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Appendix A: C Print Formats

Appendix B: Makefile and Source Code Requirements

Makefile
Source Code

Module Specific Files
Shared Files

Included Example Data Files

block
contour
grid
histo
modmain
mt3dmain
plotgraph
sisim
surface
vario
variofit

Appendix C: Preference Files

Example plotgraph.prf File

Appendix D: X Resource Files

Graph Resource File

Appendix E: Help Files

Abbreviated plotgraph.help Help File

Appendix F: Bibliography

Appendix G: Software Contributions to UNCERT

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