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Forest compostional dynamics

UVAFME-VOC

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UVAFME-VOC is an Individual-based forest volatile organic compounds emission model that is developed from the state-of-the-art forest gap model--University of Virginia Forest Model Enhanced (UVAFME). Though with an VOC component, this model can TOTALLY be treated and applied as an individual-based forest gap model, as the VOC component is literally added on top of UVAFME without changing any part of it.

Please check out the manuscript by Wang, Shugart, and Lerdau in Ecological Modelling for details.

UVAFME-VOC (v1.0) is written in Fortran 2003 (a Python-based version that would make it more widely accessible is under conceiving). Any questions related to the explicit VOC simulation in particular and the individual-based forest model in general can be directed to B. Wang @ wbwenwen@gmail.com or bw8my@virginia.edu

Run UVAFME-VOC

Get the code/repo

git clone https://github.com/bioatmosphere/UVAFME-VOC

Understand the directory structure:

  1. src/: 24 in total including all source code (in .f90/.F90) and a Makefile.

  2. input_data/: all input files needed

  3. output_data/: where outputs reside

  4. file_list.txt: a .txt file lising directories of all files needed

Compile and Run the Program

Navigate to the src/ folder and run the following commands from a shell:

# compile and move the successfully compiled .exe file out of /src above to its parent folder
# NOTE: a compiler (e.g. intel) is required
make UVAFME.exe
mv UVAFME.exe ..
# run the program
./UVAFME.exe file_list.txt

Publications arising from this model

Wang, B., Shugart, H. H., & Lerdau, M. T. (2017). An individual-based model of forest volatile organic compound emissions—UVAFME-VOC v1.0. Ecological Modelling, 350, 69-78.

Wang, B., Shugart, H. H., Shuman, J. K., & Lerdau, M. T. (2016). Forests and ozone: productivity, carbon storage, and feedbacks. Scientific Reports, 6, 22133.

Wang, B., Shuman, J., Shugart, H. H., & Lerdau, M. T. (2018). Biodiversity matters in feedbacks between climate change and air quality: a study using an individual‐based model. Ecological Applications.

Shugart, H. H., Wang, B., Fischer, R., Ma, J., Fang, J., Yan, X., ... & Armstrong, A. H. (2018). Gap models and their individual-based relatives in the assessment of the consequences of global change. Environmental Research Letters, 13, 033001.

Wang, B., Shugart, H.H. & Lerdau, M.T. (2019). Complexities between plants and the atmosphere. Nature Geoscience 12, 693–694

H. H. Shugart, Adrianna Foster, Bin Wang, Dan Druckenbrod, Jianyong Ma, Manuel Lerdau, Sassan Saatchi, Xi Yang & Xiaodong Yan. (2020).Gap models across micro- to mega-scales of time and space: examples of Tansley’s ecosystem concept. Forest Ecosystems 7, 14.

Zhang, H.; Shugart, H.H.; Wang, B.; Lerdau, M. The Significance of Aggregation Methods in Functional Group Modeling. Forests 2021, 12, 1560.