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Merge pull request #784 from uaf-arctic-eco-modeling/joss-paper-2
This branch brings in the JOSS paper (source code and related assets) as well as some related changes made in the review process. The review thread is here: openjournals/joss-reviews#7667
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‎.github/workflows/draft-joss-pdf.yml

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# Adapted from:
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# https://github.com/marketplace/actions/open-journals-pdf-generator
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#
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name: Draft PDF
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on:
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push:
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paths:
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- joss-paper/**
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- .github/workflows/draft-joss-pdf.yml
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jobs:
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paper:
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runs-on: ubuntu-latest
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name: Paper Draft
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steps:
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- name: Checkout
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uses: actions/checkout@v4
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- name: Build draft PDF
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uses: openjournals/openjournals-draft-action@master
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with:
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journal: joss
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# This should be the path to the paper within your repo.
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paper-path: joss-paper/paper.md
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- name: Upload
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uses: actions/upload-artifact@v4
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with:
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name: paper
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# This is the output path where Pandoc will write the compiled
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# PDF. Note, this should be the same directory as the input
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# paper.md
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path: joss-paper/paper.pdf
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‎.gitignore

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# assorted temporary stuff
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bundle*
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.dvc/*

‎CITATION.cff

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# cff-version: 1.2.0
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title: "DVMDOSTEM"
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message: >-
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If you use this software, please cite it using the
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metadata from this file.
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type: software
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identifiers:
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- type: doi
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value: 10.5281/zenodo.4281497
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description: "Latest release of DVMDOSTEM software"
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repository-code: "https://uaf-arctic-eco-modeling/dvm-dos-tem"
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url: >-
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https://uaf-arctic-eco-modeling.github.io/dvm-dos-tem/index.html#
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abstract: >-
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`DVMDOSTEM` is an advanced process-based terrestrial
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ecosystem model (TEM) designed to study ecosystem responses to climate changes
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and disturbances. It has a particular focus on permafrost regions (i.e. regions
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characterized by soils that stay partially frozen all year round for at
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least two consecutive years), encompassing boreal, arctic, and alpine landscapes.
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keywords:
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- C++
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- Python
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- Ecology
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- Terrestrial Ecology
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- Arctic
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- Boreal
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- Permafrost
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- Cryosphere
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- Tundra
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license: MIT
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authors:
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- family-names: "Carman"
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given-names: "Tobey B"
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orcid: "https://orcid.org/0000-0003-4617-4674"
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affiliation: "Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks 99775, Alaska, USA"
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- family-names: "Genet"
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given-names: "Hélène"
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orcid: "https://orcid.org/0000-0003-4537-9563"
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affiliation: "Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks 99775, Alaska, USA"
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- family-names: "Rutter"
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given-names: "Ruth A"
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orcid: "https://orcid.org/0009-0009-7043-6081"
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affiliation: "Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks 99775, Alaska, USA"
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- family-names: "Jafarov"
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given-names: "Elchin"
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orcid: "https://orcid.org/0000-0002-8310-3261"
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affiliation: "Woodwell Climate Research Center, Falmouth 02540, Massachusetts, USA"
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- family-names: "Euskirchen"
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given-names: "Eugénie"
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orcid: "https://orcid.org/0000-0002-0848-4295"
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affiliation: "Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks 99775, Alaska, USA"
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- family-names: "Maglio"
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given-names: "Ben"
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orcid: "https://orcid.org/0000-0002-1948-0177"
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affiliation: "Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks 99775, Alaska, USA"
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- family-names: "Clein"
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given-names: "Joy"
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orcid: "https://orcid.org/0000-0002-2816-5312"
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affiliation: "Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks 99775, Alaska, USA"
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- family-names: "Briones"
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given-names: "Valeria"
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orcid: "https://orcid.org/0000-0002-5649-851X"
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affiliation: "Woodwell Climate Research Center, Falmouth 02540, Massachusetts, USA"
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- family-names: "Mullen"
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given-names: "Andrew L"
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orcid: "https://orcid.org/0000-0002-9127-9996"
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affiliation: "Woodwell Climate Research Center, Falmouth 02540, Massachusetts, USA"
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- family-names: "Greaves"
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given-names: "Heather"
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orcid: "https://orcid.org/0000-0002-8800-019X"
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affiliation: "Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks 99775, Alaska, USA"
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- family-names: "McGuire"
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given-names: "A. D."
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orcid: "https://orcid.org/0000-0003-4646-0750"
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affiliation: "Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks 99775, Alaska, USA"
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- family-names: "Yuan"
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given-names: "Fengming"
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orcid: "https://orcid.org/0000-0003-0910-5231"
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affiliation: "Environmental Science Division and Climate Change Science Institute, Oak Ridge National Laboratory, Oak Ridge, TN 37831"
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- family-names: "Chang"
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given-names: "Chu-Chun"
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orcid: "https://orcid.org/0000-0002-2971-2349"
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affiliation: "Woodwell Climate Research Center, Falmouth 02540, Massachusetts, USA"
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- family-names: "Rady"
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given-names: "Joshua M."
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orcid: "https://orcid.org/0000-0002-7806-136X"
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affiliation: "Woodwell Climate Research Center, Falmouth 02540, Massachusetts, USA"
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- family-names: "Teber"
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given-names: "Doğukan"
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affiliation: "Woodwell Climate Research Center, Falmouth 02540, Massachusetts, USA"
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- family-names: "Rogers"
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given-names: "Brendan M"
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orcid: "https://orcid.org/0000-0001-6711-8466"
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affiliation: "Woodwell Climate Research Center, Falmouth 02540, Massachusetts, USA"
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- family-names: "Smith"
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given-names: "Trevor"
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affiliation: "Woodwell Climate Research Center, Falmouth 02540, Massachusetts, USA"
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- family-names: "Mevenkamp"
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given-names: "Hannah"
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orcid: "https://orcid.org/0000-0002-7241-5374"
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affiliation: "Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks 99775, Alaska, USA"
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- family-names: "Lara"
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given-names: "Mark J"
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orcid: "https://orcid.org/0000-0002-4670-7031"
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affiliation: "Department(s) of Plant Biology and Geography, University of Illinois Urbana-Champaign, Urbana, IL 61801"
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- family-names: "Zhuang"
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given-names: "Qianlai"
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orcid: "https://orcid.org/0000-0002-4536-9851"
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affiliation: "Department of Earth, Atmospheric, and Planetary Science, Purdue University, West Lafayette IN 47907 USA"
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- family-names: "Yi"
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given-names: "Shuhua"
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affiliation: "School of Geographic Sciences, Nantong University, Nantong Jiangsu, 226019 P.R. China"
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‎README.md

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[![Slack](https://img.shields.io/badge/slack-login-green.svg)](https://arctic-eco-modeling.slack.com)
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The dvm-dos-tem (`dvmdostem`) model is a process based bio-geo-chemical
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ecosystem model that focuses on C and N dynamics as well as soil thermal
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dynamics in high latitude ecosystems.
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ecosystem model that focuses on C and N cycles, vegetation dynamics and soil
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thermal dynamics in high latitude ecosystems.
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For more information see the [User Guide](https://uaf-arctic-eco-modeling.github.io/dvm-dos-tem/index.html).
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‎docs_src/sphinx/source/index.rst

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.. note::
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This project is under active development.
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DVM-DOS-TEM is a process-based biosphere model, designed to simulate biophysical
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and biogeochemical processes between the soil, the vegetation and the
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atmosphere. The model is spatially explicit and focuses on representing carbon
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and nitrogen cycles in high latitude ecosystems and how they are affected at
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seasonal (i.e. monthly) to centennial scales by climate, disturbances and
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DVM-DOS-TEM is a process-based terrestrial ecosystem model, designed to simulate
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biophysical and biogeochemical processes between the soil, the vegetation and
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the atmosphere. The model is spatially explicit and focuses on representing
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carbon and nitrogen cycles in high latitude ecosystems and how they are affected
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at seasonal (i.e. monthly) to centennial scales by climate, disturbances and
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biophysical processes such as permafrost, soil thermal and hydrological regimes,
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snow cover or canopy development.
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‎joss-paper/ddt_logo_910x705_alpha.png

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‎joss-paper/dvmdostem-overview-export_2024-08-19.jpg

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‎joss-paper/dvmdostem-overview-export_2025-03-06.jpg

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