blossom

https://github.com/timovdk/blossom

Science Score: 67.0%

This score indicates how likely this project is to be science-related based on various indicators:

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CITATION.cff file
Found CITATION.cff file
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codemeta.json file
Found codemeta.json file
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.zenodo.json file
Found .zenodo.json file
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DOI references
Found 2 DOI reference(s) in README
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Academic publication links
Links to: zenodo.org
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Scientific vocabulary similarity
Low similarity (8.8%) to scientific vocabulary

Last synced: 6 months ago · JSON representation ·

Repository

Basic Info

Host: GitHub
Owner: timovdk
License: mit
Language: C++
Default Branch: main
Size: 557 MB

Statistics

Stars: 1
Watchers: 1
Forks: 0
Open Issues: 0
Releases: 3

Created over 2 years ago · Last pushed 6 months ago

Metadata Files

Readme License Citation

BLOSSOM - BioLOgical Simulation in SOil Model

A soil biota agent based model (ABM) to simulate organisms in a 2d space.

Instructions

The ./blossom folder contains the model itself, and the config file needed to run the model. The filestructure should look as follows:

⚠️ You probably have to create some of these folders before running BLOSSOM ⚠️

``` 📁 blossom/ ├── 📁 bin ├── 📁 build ├── 📁 configs (config files will be generated by BLOSSOM in here) ├── 📁 include (contains .hpp files) ├── 📁 outputs │ ├── 📁 agents (will contain agent logs) │ └── 📁 som (will contain som logs) └── 📁 src (contains .cpp files)

📁 hpc (contains scripts for optimization and running on a slurm capable hpc) ```

In the base_config.props file, most of the parameters can be set. One parameter can be set in src/main.cpp: const int num_trials where the value determines the number of trials of the base_config, using different random seeds and different N0 values for each trial.

Install/Run

Prerequisites: - C++ compiler that supports C++ 20 (GCC >= 11, Clang >= 15) - make

Run make in ./blossom (make sure to set const int num_trials first, since this will be compiled into the executable! So everytime you change this value, first run make again, then blossom)
Run ./bin/blossom and BLOSSOM will start to run the simulations!

Owner

Login: timovdk
Kind: user

Repositories: 7
Profile: https://github.com/timovdk

Citation (CITATION.cff)

cff-version: 1.2.0
message: "If you use this software, please cite it as below."
authors:
- family-names: "van der Kuil"
  given-names: "Timo"
  orcid: "https://orcid.org/0009-0004-6930-9169"
title: "BLOSSOM"
version: v1.0
doi: 10.5281/zenodo.15644094
date-released: 2025-06-11
url: "https://github.com/timovdk/BLOSSOM"

GitHub Events

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Release event: 1
Watch event: 1
Push event: 87
Create event: 5

Last Year

Release event: 1
Watch event: 1
Push event: 87
Create event: 5

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Last synced: about 1 year ago

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