WATER WARS: Online Course: Groundwater Modeling using MODFLOW 6 and Model Muse — Hatari Labs


This online course is NOT teaching about Primary Water.  

The Groundwater modeling is the secondary water cycle.

Most important we are NOT running out of water.

Water is a RENEWABLE – to learn the Water Facts go to www.PrimaryWater.org

And also watch the YouTube video “Primary Water Explained”. 


A numerical flow model can be the most efficient and effective tool to carry out these analyzes and obtain reasonable information on the relationships between groundwater components. However, having a modeling tool is not enough, it is necessary to know both the modeling platform and understand the processes it wants to reproduce, and in this particular case, understand the water dynamics of the hydrogeological system.

This course develops the main functions and applications of the latest version of the MODFLOW 6 groundwater modeling code through the ModelMuse interface, both developed by the United States Geological Survey (USGS). This version includes innovative tools for the construction and simulation of hydrogeological models, mainly highlighting the incorporation of the discretization option for discretized by vertices grids.


The development of the course will allow the application of these groundwater modeling tools to analyze regional and local flow, so that participants learn to build these models and analyze the results. In this course the student will learn:

  • ModelMuse environment and tools for modelling.
  • Know the potential of MODFLOW 6 and the ModelMuse environment.
  • Conceptualization criteria, grid design and boundary conditions.
  • Modelling of particle tracking with MODPATH.
  • Calibration and transient simulation of numerical models.
  • Analyze the results obtained in the simulated models.


Course content

Session 1: Basic MODFLOW 6

Exercise 1:

  • Three-dimensional steady-state simulation with different constant heads that define the groundwater flow throughout the extension of the model.

Exercise 2

  • Three-dimensional steady-state simulation with 2 different constant heads, and different values of hydraulic conductivities associated with the location of each grid cell.
  • Intersection of objects and overwriting of hydraulic conductivities associated with geometries.

Session 2: Boundary conditions and transient simulations

Exercise 3:

  • Three-dimensional steady-state simulation with confined and unconfined layers with recharge, rivers, and wells applied to the numerical model with different pumping scenarios.

Exercise 4:

  • Three-dimensional transient simulation of 10 periods of 365 days each, with different boundary conditions and different scenarios in which pumping wells are applied trough different layers of the simulated aquifer.

Session 3: DISV Package and quadtree refinements

Exercise 5:

  • Three-dimensional steady-state simulation with a lake with constant-head, a river and wells with quadtree refinement in different levels for each boundary condition and with different pumping rates.

Session 4: Advanced packages

Exercise 6:

  • Three-dimensional transient simulation with advanced packages like multi-aquifer wells (MAW) and stream-flow routing (SFR) that interact between them and a lake with constant head.

Midterm Exam

  • Focused in solve a case adittional of the session 4 developed by the instructor.

Session 5: Particle tracking

Exercise 7:

  • Forward and backward particle tracking simulations applied to general-head boundary conditions and wells in a three-dimensional steady-state simulation with quadtree refinement.

Exercise 8:

  • Forward, backward and transient particle tracking simulation applied to a three-dimensional transient simulation with wells with different pumping rates and a river that interacts with a nearby well.

Session 6: Three-dimensional anisotropy

Exercise 9:

  • Three-dimensional steady-state simulation with wells pumping and injecting water in different boundaries with three-dimensional anisotropy applied in 2 axis that creates whirls

Exercise 10:

  • Three-dimensional steady-state simulation with quadtree refinement and three-dimensional anisotropy distributed in 2 axis of the grid.

Session 7: Geological faults

Exercise 11:

  • Three-dimensional steady-state simulation with general-head boundary conditions with a fractured zone and a core of a fault with high and low hydraulic conductivities respectively.

Exercise 12:

  • Three dimensional steady-state simulation with quadtree refinement, three-dimensional anisotropy and zones of high and low hydraulic conductivity influenced by a fractured zone and a fault respectively

Session 8: Regional model

Exercise 13:

  • Three-dimensional steady-state simulation with a basin that delimits the active zone, recharge, evapotranspiration and rivers placed throughout the extension of the grid.

Exercise 14:

  • Application of head observations and post-processing of results with Python

Final Exam

  • Final exam is similar to midterm except given at the end.


Saul Montoya M.Sc. 

Saul Montoya M.Sc. is a Hydrogeologist and Numerical Modeler. Mr. Montoya is a Civil Engineer graduated from the Catholic University in Lima with postgraduate studies in Management and Engineering of Water Resources (WAREM Program) from Stuttgart University – Germany with mention in Groundwater Engineering and Hydroinformatics. Mr Montoya has a strong analytical capacity for the interpretation, conceptualization and modeling of the surface and underground water cycle and their interaction. 

He is in charge of numerical modeling for contaminant transport and remediation systems of contaminated sites. Inside his hydrological and hydrogeological investigations Mr. Montoya has developed a holistic comprehension of the water cycle, understanding and quantifying the main hydrological dynamic process of precipitation, runoff, evaporation and recharge to the groundwater system. 

Over the last 9 years Saul has developed 2 websites for knowledge sharing in water resources: www.gidahatari.com (Spanish) and www.hatarilabs.com (English) that have become relevant due to its applied tutorials on groundwater modeling, spatial analysis and computational fluid mechanics.


Here are some details of each methodology:

  • Manuals and files for the exercises will be delivered.
  • The course will be developed by videos on private web platform.
  • There is online support for questions regarding the exercises developed in the course.
  • Digital certificate available at the end of the course.
  • Video of the classes will be available for 2 months.
  • To receive the digital certificate you must submit the exercises after 1 month.

Cost and payment

The cost of the course is $ 180 dollars.

This online course will be given on out elearning platform: elearning.hatarilabs.com . You will need to create an account to payment by Paypal and automatically you will register for the course.

For any other information please write to: saulmontoya@hatarilabs.com


After payment with Paypal, fill out the following registration form including the information related to your payment. We will send you an e-mail to confirm your registration.

For any other information please write to: saulmontoya@hatarilabs.com