Implement rescale

.dockerignore

@@ -0,0 +1,2 @@
+.dockerignore
+.venv

.github/ISSUE_TEMPLATE/improvement-task.md

@@ -0,0 +1,20 @@
+---
+name: Improvement Task
+about: Suggest an idea for this project
+title: "[TASK]"
+labels: ''
+assignees: felipe-mf, VirginiaBee47
+
+---
+
+# Task Title
+
+Description: Task Description
+
+
+Measurement Criteria: 
+- Criterion #1
+- Criterion #2
+
+Timeline:
+- List dates of past progress and planned future updates.

.github/workflows/release.yml

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+name: Release
+
+on:
+  workflow_dispatch:
+    inputs:
+      version:
+        description: 'New version'
+        required: true
+
+jobs:
+  update-and-build:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Check out the repo
+        uses: actions/checkout@v2
+
+      - name: Update pyproject.toml version
+        run: |
+          sed -i "s/^version = .*/version = \"${{ github.event.inputs.version }}\"/" pyproject.toml
+          git config --global user.name 'GitHub Actions'
+          git config --global user.email 'actions@github.com'
+          git commit -am "ci: Version bump ${{ github.event.inputs.version }}"
+          git push
+
+      - name: Set up Docker Buildx
+        uses: docker/setup-buildx-action@v1
+
+      - name: Login to Docker Hub
+        uses: docker/login-action@v1
+        with:
+          username: ${{ vars.DOCKER_USERNAME }}
+          password: ${{ secrets.DOCKER_TOKEN }}
+
+      - name: Build and push Docker Image
+        uses: docker/build-push-action@v2
+        with:
+          context: .
+          file: ./Dockerfile
+          platforms: linux/amd64 #,linux/arm64 future ;)
+          push: true
+          tags: ${{ vars.DOCKER_IMAGE_NAME }}:${{ github.event.inputs.version }}, ${{ vars.DOCKER_IMAGE_NAME }}:latest
+
+      - name: Push version bump commit
+        run: |
+          git tag ${{ github.event.inputs.version }}
+          git push origin ${{ github.event.inputs.version }}
+          git push
+
+      - name: Create GitHub Release
+        uses: actions/create-release@v1
+        env:
+          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+        with:
+          tag_name: ${{ github.event.inputs.version }}
+          release_name: Release ${{ github.event.inputs.version }}
+          draft: false
+          prerelease: false

.gitignore

@@ -2,6 +2,7 @@
 tags
 data/*
 pythia/__pycache__/*
+pythia/.idea/*
 .idea/*
 .vscode/*
 *.pyc
@@ -11,3 +12,8 @@ work/*
 docs/source/_build
 docs/build
 .venv
+dist
+*~
+.python-version
+.idea/
+pythia-data/

Dockerfile

@@ -1,39 +1,27 @@
-FROM dssat/dssat-csm
+FROM dssat/dssat-csm:v4.8.2.0
 
-COPY . /app/pythia
-RUN ln -sf /bin/bash /bin/sh && \
-# install pre-reqs for pyenv installed pythons
-apt-get install -y build-essential libssl-dev zlib1g-dev libbz2-dev \
-libreadline-dev libsqlite3-dev wget curl llvm libncurses5-dev libncursesw5-dev \
-xz-utils tk-dev libffi-dev liblzma-dev python-openssl git libspatialindex-dev && \
-# setup pyenv
-curl https://pyenv.run | bash && \                          
-echo 'export PATH="/root/.pyenv/bin:/root/.local/bin:$PATH"' >> ~/.bashrc && \
-echo 'eval "$(pyenv init -)"' >> ~/.bashrc && \
-echo 'eval "$(pyenv virtualenv-init -)"' >> ~/.bashrc && \
-export PATH="/root/.pyenv/bin:/root/.local/bin:$PATH" && \
-eval "$(pyenv init -)" && \
-eval "$(pyenv virtualenv-init i)" && \
-# install python 3.7.9
-pyenv install 3.7.9 && \
-pyenv rehash && \
-pyenv virtualenv 3.7.9 pythia-3.7.9 && \
-pyenv activate pythia-3.7.9 && \
-pip install --upgrade pip && \
-pip install pipenv && \
-# install dependencies
-cd /app/pythia && \
-pipenv install && \
-echo "#!/bin/bash" > /app/pythia.sh && \
-echo "" >> /app/pythia.sh && \
-echo 'export PATH="/root/.pyenv/bin:/root/.local/bin:$PATH"' >> /app/pythia.sh && \
-echo 'export PYENV_VIRTUALENV_DISABLE_PROMPT=1' >> /app/pythia.sh && \
-echo 'eval "$(pyenv init -)"' >> /app/pythia.sh && \
-echo 'eval "$(pyenv virtualenv-init -)"' >> /app/pythia.sh && \
-echo "pyenv activate pythia-3.7.9" >> /app/pythia.sh && \
-echo "python /app/pythia/pythia.py \$@" >> /app/pythia.sh && \
-echo "pyenv deactivate" && \
-chmod 755 /app/pythia.sh
+RUN apt-get update && apt-get install -y \
+    python3.11 \
+    python3.11-dev \
+    python3-pip \
+    python3-venv \
+    python3-poetry \
+    python3-virtualenv \
+    curl \
+    gdal-bin=3.6.2+dfsg-1+b2 \
+    libgdal-dev=3.6.2+dfsg-1+b2 \
+    && rm -rf /var/lib/apt/lists/*
 
-ENTRYPOINT ["/app/pythia.sh"]
-CMD ["-h"]
+ENV GDAL_VERSION 3.6.2
+ENV C_INCLUDE_PATH=/usr/include/python3.11/cpython
+ENV CPLUS_INCLUDE_PATH=/usr/include/python3.11/cpython
+
+WORKDIR /app/pythia
+
+COPY pyproject.toml poetry.toml poetry.lock ./
+RUN POETRY_VIRTUALENVS_CREATE=false poetry install --no-interaction --no-ansi
+
+COPY . ./
+ENV PATH="${PATH}:/app/pythia/bin"
+
+ENTRYPOINT ["pythia"]

LICENSE.txt

@@ -0,0 +1,28 @@
+BSD 3-Clause License
+
+Copyright (c) 2025, DSSAT Foundation
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+1. Redistributions of source code must retain the above copyright notice, this
+   list of conditions and the following disclaimer.
+
+2. Redistributions in binary form must reproduce the above copyright notice,
+   this list of conditions and the following disclaimer in the documentation
+   and/or other materials provided with the distribution.
+
+3. Neither the name of the copyright holder nor the names of its
+   contributors may be used to endorse or promote products derived from
+   this software without specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
+FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
+OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

README.md

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+# DSSAT-Pythia Installation Guide
+
+## Software Requirements
+To install and run DSSAT-Pythia on your PC, you will need the following software:
+
+1. **DSSAT**:  
+   Download and install DSSAT from [DSSAT website](https://get.dssat.net/request/?sft=4).
+
+2. **Python 3.8**:  
+   Download the Python 3.8 installer for Windows or macOS from [Python 3.8 release page](https://www.python.org/downloads/release/python-389/).  
+   - During installation, select “Customize installation.”
+   - Select all options under “Optional Features” and “Advanced Options.”
+   - Note: DSSAT-Pythia only works with Python 3.8. If you have another version, uninstall it and download Python 3.8 from the above link.
+
+3. **Git**:  
+   Download and install Git from [Git download page](https://git-scm.com/download/win).
+
+4. **Community Version of Visual Studio**:  
+   Download and install Visual Studio from [Visual Studio website](https://visualstudio.microsoft.com/downloads/).  
+   Select the **Desktop development with C++** workload during installation.
+
+5. **RStudio**:  
+   To use RStudio on your PC, install both R and RStudio:
+   - Download and install R from [CRAN website](https://cran.rstudio.com/).
+   - Download and install RStudio from [RStudio website](https://posit.co/download/rstudio-desktop/).
+
+---
+
+
+## Steps to Install DSSAT-Pythia on PC
+
+1. Enable **Developer Mode**:
+   - Open Windows Settings > Update & Security > For Developers.
+   - Switch on Developer Mode and restart the computer.
+
+2. Open the **Command Prompt** in the C Drive:
+   - Open the C drive and type `cmd` in the address bar and press Enter.
+
+3. Clone the DSSAT-Pythia repository:
+   ```bash
+   git clone https://github.com/dssat/pythia.git pythia
+   ```
+
+4. Navigate to the cloned directory:
+   ```bash
+   cd pythia
+   ```
+
+5. Delete the `poetry.lock` file:
+   ```bash
+   del poetry.lock
+   ```
+
+6. Install Poetry:
+   ```bash
+   pip install poetry
+   ```
+
+7. Install DSSAT-Pythia:
+   ```bash
+   <full path to poetry>\poetry install
+   <full path to poetry>\poetry build
+   ```
+   - On Windows, poetry will be found in "C:\Users\username\AppData\Local\Programs\Python\Python38\Scripts"
+
+8. Install the Pythia wheel file:
+   - Navigate to the `dist` folder and install the `.whl` file:
+     ```bash
+     cd dist
+     pip install pythia-2.3.0-py3-none-any.whl
+     ```
+   - **Note**: Check the version in the `dist` folder and adjust the command if necessary.
+
+9. Add the path to `pythia.exe` to your environment variables.
+
+10. Close the command prompt.
+
+---
+
+## Troubleshooting
+
+- If you encounter any issues during installation, delete the folder `C:\pythia` and repeat the installation steps.
+
+---
+
+## Input Files Setup
+
+1. Download the `InputFiles.zip` folder from [Google Drive link](https://drive.google.com/file/d/1vlBeWEavNggcuhRMgmO79aHTYZ7aq_Im/view?usp=sharing), unzip it, and save the `Simulation_Data` folder in `C:\pythia\`.
+
+2. Open the folder `C:\pythia\Simulation_Data\OUTPUT\Sri_Lanka` and remove all folders (if any).
+
+   **Note**: Remove the contents from the `OUTPUT` folder every time you run the model.
+
+---
+
+## Running the Model
+
+1. Open the command prompt at `C:\pythia\Simulation_Data\Sri_Lanka` by typing `cmd` in the folder address bar.
+
+2. Run the following commands to simulate maize and rice:
+   ```bash
+   pythia --all C:/pythia/Simulation_Data/Sri_Lanka/SL_Maize.json
+   pythia --all C:/pythia/Simulation_Data/Sri_Lanka/SL_Rice.json
+   ```
+
+3. To view the output:
+   - Open the `.json` file in `C:\pythia\Simulation_Data\Sri_Lanka\`.
+   - Find the working directory in `"workDir": "C:/pythia/Simulation_Data/OUTPUT/Sri_Lanka/…"` and navigate to that folder.
+   - The output will be available in `.csv` format.
+
+---
+
+## Plotting Output in RStudio
+
+1. Open the R code file: `C:\pythia\Simulation_Data\OUTPUT\ACASA_Sri_Lanka_maize.R`.
+
+2. Install all required packages and modify the file location on line 22 to match the output `.csv` file.
+
+3. Run the R script to generate the yield plot.
+
+4. The plot will be saved at the location specified in line 62.
+
+   **Note**: If you encounter errors reading the `.csv` file, open the file and delete all columns except `LATITUDE`, `LONGITUDE`, and `HWAH`.

bin/pythia

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+#!/usr/bin/env bash
+
+source .venv/bin/activate
+python3 -m pythia $@