LifeCLEF2023-SampleSubmission

Challenge submission template with scripts required to evaluate methods for FungiCLEF2023 and SnakeCLEF2023 challenges.

Instruction to add a custom method:

1. Update predict.py script with the custom classification model.
2. Set python dependencies in requirements.txt file.
3. Add fine-tuned checkpoint to the directory and replace "DF20-ViT_base_patch16_224-100E.pth" in Dockerfile.
4. Run docker compose up --build to evaluate the model.

Key files:

• predict.py - Prediction script that loads the fine-tuned model, runs inference, and creates user_submission.csv file.
• requirements.txt - File with python dependencies.
• Dockerfile - Dockerfile with instructions to install packages from requirements.txt and a command to run start.sh.
• docker-compose.yml - Docker compose configuration to build docker image and run container. Contains instruction to mount volume with image data.
• start.sh - Bash script that runs predict.py and evaluate.py.
• evaluate.py - Evaluation script that computes competition metrics.