FLINT.example

This project gives an example of how to build and run libraries using the FLINT framework.

There are 3 different environemnts listed in this document to build and run the examples:

Windows - Visual Studio 2019: develop, run and debug
Visual Studio Code: develop, run and debug
Docker: run only

and currently four different sample runs:

Test Module sample at point level
RothC sample at point level
Chapman richards Point sample
Chapman richards Spatial sample

Environment: Visual Studio 16 2019 Win64

Building the project

Assuming you have followed the moja flint documentation to build using the vcpkg method, the commands below should build your example project solution.

NOTE: Paths used in commands may be different on your system.

# Create a build folder under the Source folder
mkdir -p Source\build
cd Source\build

cmake -G "Visual Studio 16 2019" -DCMAKE_INSTALL_PREFIX=C:\Development\Software\moja -DVCPKG_TARGET_TRIPLET=x64-windows -DOPENSSL_ROOT_DIR=c:\Development\moja-global\vcpkg\installed\x64-windows -DENABLE_TESTS=OFF -DCMAKE_TOOLCHAIN_FILE=c:\Development\moja-global\vcpkg\scripts\buildsystems\vcpkg.cmake ..

Running the project

Running in the IDE and debugging is a little tricky. This could more than likely be resolved with better cmake setups. But for now there is some setup that can make running and debugging work.

The issue is we want to run with the moja.cli.exe from the moja.FLINT project, but debug in our current IDE (FLINT.example).

The solution is to use properties to setup a Debug run in the IDE, making the command run moja.cli.exe.

NOTE : All paths used below with C:\Development\moja-global will need to be modified to match your system build location of the moja project.

Test Module Example

The settings required in VS2019 are:

# Command
C:\Development\moja-global\FLINT\Source\build\bin\Debug\moja.cli.exe

# Command Args
--config config\point_example.json --config config\libs.base.win.json  --logging_config logging.debug_on.conf
 
# Working Directory
$(SolutionDir)\..\..\Run_Env

# Environment
PATH=C:\Development\moja-global\vcpkg\installed\x64-windows\debug\bin;C:\Development\moja-global\FLINT\Source\build\bin\Debug;%PATH%
LOCAL_LIBS=$(OutDir)

With Envs: PATH for various libraries built in the Moja stage and LOCAL_LIBS so we can modify the explicit path for our example config to load libraries from this vs build (the default is the same location as the EXE).

To match this, the example point config uses an environment variable in the library path:

{
  "Libraries": {
    "moja.flint.example.base": {
      "library": "moja.flint.example.based.dll",
      "path": "%LOCAL_LIBS%",
      "type": "external"
    }
  }
}

RothC example

There is also a RothC example, to run that project use the same setup as below but change the command arguments:

# Command Args
--config config\point_rothc_example.json --config config\libs.base_rothc.win.json --logging_config logging.debug_on.conf

Chapman Richards example

Based on the moja repository Chapman Richards, thsi sample can run both a point and spatial version (over Dominica).

# Command Args
# Point
--config config/point_forest_config.json --config config/libs.gdal.chaprich.win.json
# Spatial
--config config/forest_config.json --config config/libs.gdal.chaprich.win.json --config_provider config/forest_provider.json

Environment: Visual Studio Code

It is also possible to develop, run and debug in Visual Studio Code using Remote Containers. You will need to install Visual Studio Code and add the extension:

Remote - Container

Others extensions may be required, please follow instructions during VS Code startup. Extensions required during development will be installed in the container (listed below).

With these extensions installed, on startup, VS Code should ask if you want to open the project in a Container - OR you can press F1 and select Remote-Containers: Open folder in Container...

The VS Code project has some launch.json settings in place (in the .vscode folder), these can run both the base and rothc samples. It is possible to debug into the moja.flint libraries by loading on of the .cpp/.h files and setting a breakpoint - OR stepping into a method using the debugger

To build the project the cmake and C++ extensions will be required. These have been specified in the devcontainer.json file. To build the library use Cmake Configure, Buold and Install.

	"extensions": [
		"ms-vscode.cpptools",
		"austin.code-gnu-global",
		"twxs.cmake",
		"ms-vscode.cmake-tools"
	]

Once the project opens the folder in the dev container, use the cmake commands to configure and build the project. Once this is done you should be ready to run/debug one of the samples.

NOTE: The libraries require a slightly different paths to work inside the dev-container, so there is a new version of the library configs for VS Code. These commands will work from the terminal in the running container after cmake has been successful.

# start in the correct folder
cd /workspaces/FLINT.example/Run_Env

# sample
moja.cli --config config/point_example.json --config config/libs.base.vscode.json  --logging_config logging.debug_on.conf

# rothc
moja.cli --config config/point_rothc_example.json --config config/libs.base_rothc.vscode.json  --logging_config logging.debug_on.conf

# Chapman Richards - forest point
moja.cli --config config/point_forest_config.json --config config/libs.gdal.chaprich.vscode.json 

# Chapman Richards - forest spatial 
moja.cli --config config/forest_config.json --config config/libs.gdal.chaprich.vscode.json --config_provider config/forest_provider.json

Environment: Docker

Docker file can be found in the Dockerfile

Builds fom the image mojaglobal/flint:bionic which can be found in docker hub

Building the docker:

# from repository root folder
cd Docker
docker build --build-arg NUM_CPU=8 -t moja/flint.example:bionic .

Commands to run using docker - stock result written to screen and results files create (./Run_Env/*.csv):

# from repository root folder
docker run --rm -v $(pwd)/Run_Env:/usr/local/run_env -ti moja/flint.example:bionic bash -c "cd /usr/local/run_env/; moja.cli --config config/point_example.json --config config/libs.base.simple.json --logging_config logging.debug_on.conf"
docker run --rm -v $(pwd)/Run_Env:/usr/local/run_env -ti moja/flint.example:bionic bash -c "cd /usr/local/run_env/; moja.cli --config config/point_rothc_example.json --config config/libs.base_rothc.simple.json --logging_config logging.debug_on.conf"

Commands to run moja from within the docker - stock result written to screen and results files create (./Run_Env/*.csv):

docker run --rm -v $(pwd)/Run_Env:/usr/local/run_env -ti moja/flint.example:bionic bash

Then inside the running container:

cd /usr/local/run_env/
moja.cli --config config/point_example.json --config config/libs.base.simple.json --logging_config logging.debug_on.conf
moja.cli --config config/point_rothc_example.json --config config/libs.base_rothc.simple.json --logging_config logging.debug_on.conf

Outputs

The runs above will create output files. While Stock values are output to the screen, there will also be some simplace CVS files created with both Stock and Flux values for the simulation.

Example_Point_Flux.csv
Example_Point_Stock.csv
Example_Rothc_Point_Flux.csv
Example_Rothc_Point_Stock.csv

TODO

Add a spatial example of RothC
- Need sample rasters in FLINT ready format for some of the RothC required data.
- Could write a smaple provider that access this data from a different format?
- Can produce spatial outputs, make them available for viewing in QGis?

How to Get Involved?

moja global welcomes a wide range of contributions as explained in Contributing document and in the About moja-global Wiki.

FAQ and Other Questions

You can find FAQs on the Wiki.
If you have a question about the code, submit user feedback in the relevant repository
If you have a general question about a project or repository or moja global, join moja global and
- submit a discussion to the project, repository or moja global team
- submit a message to the relevant channel on moja global's Slack workspace.
If you have other questions, please write to [email protected]

Contributors

Thanks goes to these wonderful people (emoji key):

_{moja global}
📆

_{James Leitch}
💻

_Mal
💻

This project follows the all-contributors specification. Contributions of any kind welcome!

Maintainers Reviewers Ambassadors Coaches

The following people are Maintainers Reviewers Ambassadors or Coaches

_{moja global}
📆

Maintainers review and accept proposed changes
Reviewers check proposed changes before they go to the Maintainers
Ambassadors are available to provide training related to this repository
Coaches are available to provide information to new contributors to this repository

Name		Name	Last commit message	Last commit date
Latest commit History 32 Commits
.devcontainer		.devcontainer
.github/ISSUE_TEMPLATE		.github/ISSUE_TEMPLATE
.vscode		.vscode
Docker		Docker
Documentation		Documentation
Run_Env		Run_Env
Science		Science
Source		Source
.all-contributorsrc		.all-contributorsrc
.gitignore		.gitignore
CONTRIBUTING.md		CONTRIBUTING.md
LICENSE		LICENSE
README.md		README.md

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FLINT.example

Environment: Visual Studio 16 2019 Win64

Building the project

Running the project

Test Module Example

RothC example

Chapman Richards example

Environment: Visual Studio Code

Environment: Docker

Building the docker:

Commands to run using docker - stock result written to screen and results files create (./Run_Env/*.csv):

Commands to run moja from within the docker - stock result written to screen and results files create (./Run_Env/*.csv):

Then inside the running container:

Outputs

TODO

How to Get Involved?

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FLINT.example

Environment: Visual Studio 16 2019 Win64

Building the project

Running the project

Test Module Example

RothC example

Chapman Richards example

Environment: Visual Studio Code

Environment: Docker

Building the docker:

Commands to run using docker - stock result written to screen and results files create (./Run_Env/*.csv):

Commands to run moja from within the docker - stock result written to screen and results files create (./Run_Env/*.csv):

Then inside the running container:

Outputs

TODO

How to Get Involved?

FAQ and Other Questions

Contributors

Maintainers Reviewers Ambassadors Coaches

About

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