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Open Sustainable Technology

A curated list of open technology projects to sustain a stable climate, energy supply, biodiversity and natural resources.

PEcAn

The Predictive Ecosystem Analyzer is an integrated ecological bioinformatics toolbox.
https://github.com/PecanProject/pecan

Category: Biosphere
Sub Category: Ecological and Environmental Modeling

Keywords

bayesian cyberinfrastructure data-assimilation data-science ecosystem-model ecosystem-science forecasting meta-analysis national-science-foundation pecan plants r

Keywords from Contributors

crops trait ecosystem-models transformer agriculture chart climate phenotyping observation measur

Last synced: about 24 hours ago
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Repository metadata

The Predictive Ecosystem Analyzer (PEcAn) is an integrated ecological bioinformatics toolbox.

README.md

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Our Vision

Ecosystem science, policy, and management informed by the best available data and models

Our Mission

Develop and promote accessible tools for reproducible ecosystem modeling and forecasting

What is PEcAn?

The Predictive Ecosystem Analyzer (PEcAn) (see pecanproject.org) is an integrated ecological bioinformatics toolbox (Dietze et al 2013, LeBauer et al, 2013) that consists of: 1) a scientific workflow system to manage the immense amounts of publicly-available environmental data and 2) a Bayesian data assimilation system to synthesize this information within state-of-the-art ecosystems models. This project is motivated by the fact that many of the most pressing questions about global change are not necessarily limited by the need to collect new data as much as by our ability to synthesize existing data. This project seeks to improve this ability by developing a accessibe framework for integrating multiple data sources in a sensible manner.

The PEcAn workflow system allows ecosystem modeling to be more reproducible, automated, and transparent in terms of operations applied to data, and thus ultimately more comprehensible to both peers and the public. It reduces the redundancy of effort among modeling groups, facilitate collaboration, and makes models more accessible the rest of the research community.

PEcAn is not itself an ecosystem model, and it can be used to with a variety of different ecosystem models; integrating a model involves writing a wrapper to convert inputs and outputs to and from the standards used by PEcAn. Currently, PEcAn supports over a dozen ecosystem models, with more being added all the time (see the models folder for the most up-to-date list)

Documentation

Consult documentation of the PEcAn Project; either the latest stable development branch, the latest release. Documentation from earlier releases is here.

Getting Started

See our "Tutorials Page" that provides self-guided tutorials, links to vignettes, and an overview presentation.

Installation

Complete instructions on how to install PEcAn can be found in the documentation here. To get PEcAn up and running you can use one of the following methods:

  1. Use Docker. This is recommended, especially for development and production deployment.
  2. Install all of the PEcAn R packages on your own Linux or MacOS computer or server. This can be done by installing from r-universe:
# Enable repository from pecanproject
options(repos = c(
  pecanproject = 'https://pecanproject.r-universe.dev',
  CRAN = 'https://cloud.r-project.org'))
# Download and install PEcAn.all in R
install.packages('PEcAn.all')

Some functionalities will be limited without also installing the Postgres database (BETYdb), though we are making steady progress toward removing this dependency.

Website

Visit our webpage to keep up with latest news, version, and information about the PEcAn Project

Web Interface demo

The fastest way to begin modeling ecosystems is through the PEcAn web interface.
We have a demo website that runs the current version of PEcAn. Using this instance you can perform a run using either ED or SIPNET at any of the predefined sites.

The demo instance only allows for runs at pecan.ncsa.illinois.edu. Once you have set up the run it will execute on our server; depending on the number of people executing a model and the model selected this can take between a few seconds and a few minutes to finish. Once it's finished, you see the results of the execution and can plot the outputs of the model. Complete examples of a few executions can be found in our online tutorials.

Publications

  • LeBauer, D.S., D. Wang, K. Richter, C. Davidson, and M.C. Dietze (2013). Facilitating feedbacks between field measurements and ecosystem models. Ecological Monographs. doi:10.1890/12-0137.1
  • Wang, D, D.S. LeBauer, and M.C. Dietze (2013). Predicting yields of short-rotation hybrid poplar (Populus spp.) for the contiguous US through model-data synthesis. Ecological Applications doi:10.1890/12-0854.1
  • Dietze, M.C., D.S LeBauer, and R. Kooper (2013). On improving the communication between models and data. Plant, Cell, & Environment doi:10.1111/pce.12043
  • Dietze, Michael C., Shawn P. Serbin, Carl Davidson, Ankur R. Desai, Xiaohui Feng, Ryan Kelly, Rob Kooper et al. "A quantitative assessment of a terrestrial biosphere model's data needs across North American biomes." Journal of Geophysical Research: Biogeosciences 119, no. 3 (2014): 286-300.
  • Viskari, Toni, Brady Hardiman, Ankur R. Desai, and Michael C. Dietze. "Model-data assimilation of multiple phenological observations to constrain and predict leaf area index." (2015) doi:10.1890/14-0497.1
  • Shiklomanov. A, MC Dietze, T Viskari, PA Townsend, SP Serbin. 2016 "Quantifying the influences of spectral resolution on uncertainty in leaf trait estimates through a Bayesian approach to RTM inversion" Remote Sensing of the Environment 183: 226-238
  • LeBauer, David, Rob Kooper, Patrick Mulrooney, Scott Rohde, Dan Wang, Stephen P. Long, and Michael C. Dietze. "BETYdb: a yield, trait, and ecosystem service database applied to second‐generation bioenergy feedstock production." GCB Bioenergy (2017).

A extensive list of publications that apply PEcAn or are informed by our work on Google Scholar.

Acknowledgements

The PEcAn project is supported by the National Science Foundation (ABI #1062547, ABI #1458021, DIBBS #1261582, ARC #1023477, EF #1318164, EF #1241894, EF #1241891), NASA Terrestrial Ecosystems, the Energy Biosciences Institute, Department of Energy (ARPA-E awards #DE-AR0000594 and DE-AR0000598), and an Amazon AWS in Education Grant.

Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation, NASA, or other federal agencies. PEcAn is a collaboration among research groups at the Department of Earth And Environment at Boston University, the Carl Woese Institute for Genomic Biology at the University of Illinois, the Image Spatial Data Analysis group at the National Center for Supercomputing Applications, the Department of Atmospheric & Oceanic Sciences at the University Wisconsin-Madison, and the Terrestrial Ecosystem Science & Technology group at Brookhaven National Lab.

BETYdb is a product of the Energy Biosciences Institute at the University of Illinois at Urbana-Champaign. We gratefully acknowledge the great effort of other researchers who generously made their own data available for further study.

License

University of Illinois/NCSA Open Source License

Copyright (c) 2012, University of Illinois, NCSA. All rights reserved.

PEcAn project
<www.pecanproject.org>

Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal with the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:

  • Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimers.
  • Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimers in the documentation and/or other materials provided with the distribution.
  • Neither the names of University of Illinois, NCSA, nor the names of its contributors may be used to endorse or promote products derived from this Software without specific prior written permission.

THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NON INFRINGEMENT. IN NO EVENT SHALL THE CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS WITH THE SOFTWARE.

Activities

Alt

Citation (CITATION.cff)

cff-version: 1.2.0
title: >-
  The Predictive Ecosystem Analyzer (PEcAn) is an
  integrated ecological bioinformatics toolbox.
version: 1.8.0
abstract: >-
  The Predictive Ecosystem Analyzer (PEcAn) (see
  pecanproject.org) is an integrated ecological
  bioinformatics toolbox (Dietze et al 2013, LeBauer
  et al, 2013) that consists of: 1) a scientific
  workflow system to manage the immense amounts of
  publicly-available environmental data and 2) a
  Bayesian data assimilation system to synthesize
  this information within state-of-the-art ecosystems
  models. This project is motivated by the fact that
  many of the most pressing questions about global
  change are not necessarily limited by the need to
  collect new data as much as by our ability to
  synthesize existing data. This project seeks to
  improve this ability by developing a accessibe
  framework for integrating multiple data sources in
  a sensible manner.
license:
  - BSD-3-Clause and NCSA
doi: 10.5281/zenodo.5557914
message: >-
  Please cite this software using the metadata from
  'preferred-citation'.
type: software
authors:
  - given-names: David LeBauer
    affiliation: University of Arizona
    orcid: 'https://orcid.org/0000-0001-7228-053X'
  - given-names: Michael Dietze
    orcid: 'https://orcid.org/0000-0002-2324-2518'
    affiliation: Boston University
  - given-names: Rob Kooper
    email: [email protected]
    affiliation: National Center for Supercomputing Applications
    orcid: 'https://orcid.org/0000-0002-5781-7287'
  - affiliation: NASA Goddard
    given-names: Alexey Shiklomanov
    orcid: 'https://orcid.org/0000-0003-4022-5979'
  - affiliation: James Hutton Institute
    given-names: Betsy Cowdery
    orcid: 'https://orcid.org/0000-0002-6538-6296'
  - affiliation: University of Illinois, Urbana-Champaign
    given-names: Hamze Dokoohaki
    orcid: 'https://orcid.org/0000-0003-2131-7712'
  - affiliation: Finnish Meteorological Institute
    given-names: Istem Fer
    orcid: 'https://orcid.org/0000-0001-8236-303X'
  - affiliation: University of Michigan
    given-names: Anthony Gardella
    orcid: 'https://orcid.org/0000-0003-4380-3412'
  - affiliation: Carnegie Mellon University
    given-names: Luke Dramko
    orcid: 'https://orcid.org/0000-0002-5845-5628'
  - given-names: Ayush Pradad
  - given-names: Shashank Singh
  - given-names: Tanishq Jain
  - affiliation: Boston University
    given-names: Alexis Helgeson
  - affiliation: Pacific Northwest National Laboratory / University of Maryland
    given-names: Ben Bond-Lamberty
    orcid: 'https://orcid.org/0000-0001-9525-4633'
  - affiliation: Brookhaven National Laboratory
    given-names: Shawn P. Serbin
    orcid: 'https://orcid.org/0000-0003-4136-8971'
  - affiliation: NASA Goddard
    given-names: Ann Raiho
  - affiliation: Microsoft Corporation
    given-names: Tezan Sahu
    orcid: 'https://orcid.org/0000-0003-1031-9683'
  - given-names: Mukul Maheshwari
  - affiliation: University of Cambridge
    given-names: Anne Thomas
    orcid: 'https://orcid.org/0000-0002-2808-6462'
  - affiliation: Pools and Fluxes LLC
    given-names: Chris Black
    orcid: 'https://orcid.org/0000-0001-8382-298X'
  - affiliation: Rutgers University
    given-names: James Simkins
  - affiliation: University of Wisconsin-Madison
    given-names: Ankur Desai
    orcid: 'https://orcid.org/0000-0002-5226-6041'
  - affiliation: Worchester Academy
    given-names: Joshua Mantooth
  - given-names: Aman Kumar
  - affiliation: Boston University
    given-names: Liam Burke
  - affiliation: Wentworth Institute of Technology
    given-names: Afshin Pourmokhtarian
    orcid: 'https://orcid.org/0000-0003-2453-1212'
  - affiliation: Morton Arboretum
    given-names: Christy Rollinson
  - affiliation: PulseLabs AI
    given-names: Shubham Agarwal
    orcid: 'https://orcid.org/0000-0002-2977-9615'
  - affiliation: Purdue University
    given-names: Brady Hardiman
    orcid: 'https://orcid.org/0000-0001-6833-9404'
  - affiliation: University of New South Wales
    given-names: Martin De Kauwe
    orcid: 'https://orcid.org/0000-0002-3399-9098'
  - given-names: Eugene
  - affiliation: Boston University
    given-names: Tess McCabe
    orcid: 'https://orcid.org/0000-0002-8901-3267'
  - affiliation: Boston University
    given-names: Katie Ragosta
  - given-names: Tony Cohen
  - given-names: zhangwenx
  - affiliation: Finnish Meteorological Institute
    given-names: Tony Viskari
  - given-names: Yan Zhao
  - affiliation: Uber
    given-names: Jing Xia
  - given-names: Eric R. Scott
    affiliation: University of Arizona
    orcid: 'https://orcid.org/0000-0002-7430-7879'
  - given-names: Harunobu Ishii
    affiliation: Boston University Software & Application Innovation Lab(SAIL)

preferred-citation:
  type: article
  title: Facilitating feedbacks between field measurements and ecosystem models
  authors:
    - given-names: David S LeBauer
    - given-names: Dan Wang
    - given-names: Katherine Richter
    - given-names: Carl Davidson
    - given-names: Michael C Dietze
  year: 2013
  collection-title: Ecological Monographs
  doi: 10.1890/12-0137.1
references:
  - type: article
    title: Facilitating feedbacks between field measurements and ecosystem models
    authors:
      - given-names: David S LeBauer
      - given-names: Dan Wang
      - given-names: Katherine Richter
      - given-names: Carl Davidson
      - given-names: Michael C Dietze
    year: 2013
    collection-title: Ecological Monographs
    doi: 10.1890/12-0137.1
  - type: article
    title: Predicting yields of short-rotation hybrid poplar (Populus spp.) for the contiguous US through model-data synthesis
    authors:
      - given-names: Dan Wang
      - given-names: David S LeBauer
      - given-names: Michael C Dietze
    year: 2013
    collection-title: Ecological Applications
    doi: 10.1890/12-0854.1
  - type: article
    title: On improving the communication between models and data
    authors:
      - given-names: Michael C Dietze
      - given-names: David S LeBauer
      - given-names: Rob Kooper
    year: 2013
    collection-title: Plant, Cell, & Environment
    doi: 10.1111/pce.12043
  - type: article
    title: A quantitative assessment of a terrestrial biosphere model's data needs across North American biomes
    authors:
      - given-names: Michael C Dietze
      - given-names: Shawn P Serbin
      - given-names: Carl Davidson
      - given-names: Ankur R Desai
      - given-names: Xiaohui Feng
      - given-names: Ryan Kelly
      - given-names: Rob Kooper
      - given-names: David LeBauer
      - given-names: Josh Mantooth
      - given-names: Kenton McHenry
      - given-names: Dan Wang
    year: 2014
    collection-title: "Journal of Geophysical Research: Biogeosciences"
    volume: 119
    number: 3
    pages: "286-300"
  - type: article
    title: Model-data assimilation of multiple phenological observations to constrain and predict leaf area index
    authors:
      - given-names: Toni Viskari
      - given-names: Brady Hardiman
      - given-names: Ankur R. Desai
      - given-names: Michael C. Dietze
    year: 2015
    doi: 10.1890/14-0497.1
  - type: article
    title: Quantifying the influences of spectral resolution on uncertainty in leaf trait estimates through a Bayesian approach to RTM inversion
    authors:
      - given-names: Shiklomanov. A
      - given-names: MC Dietze
      - given-names: T Viskari
      - given-names: PA Townsend
      - given-names: SP Serbin
    year: 2016
    collection-title: Remote Sensing of the Environment
    volume: 183
    pages: "226-238"
  - type: article
    title: "BETYdb: a yield, trait, and ecosystem service database applied to second generation bioenergy feedstock production"
    authors:
      - given-names: David S LeBauer
      - given-names: Rob Kooper
      - given-names: Patrick Mulrooney
      - given-names: Scott Rohde
      - given-names: Dan Wang
      - given-names: Stephen P Long
      - given-names: Michael C Dietze
    year: 2019
    collection-title: GCB Bioenergy
    volume: 10
    number: 1
    pages: "61-71"
    doi: 10.1111/gcbb.12420
repository-code: https://github.com/pecanproject/pecan
repository-artifact: https://hub.docker.com/orgs/pecan
keywords:
  - data science
  - ecosystem models
  - scientific visualization
  - climate science
  - Ecological Forecasting

Owner metadata

GitHub Events

Total
Last Year

Committers metadata

Last synced: 4 days ago

Total Commits: 17,015
Total Committers: 207
Avg Commits per committer: 82.198
Development Distribution Score (DDS): 0.892

Commits in past year: 870
Committers in past year: 33
Avg Commits per committer in past year: 26.364
Development Distribution Score (DDS) in past year: 0.703

Name Email Commits
David LeBauer d****r@i****u 1838
Chris Black c****s@c****g 1429
istfer f****m@g****m 1336
Alexey Shiklomanov a****v@g****m 1305
Rob Kooper k****r@i****u 1303
Michael Dietze d****e@b****u 897
Betsy Cowdery e****y@g****m 556
hamzed h****d@b****u 551
Tony Gardella t****d@b****u 493
Shawn P. Serbin s****n@b****v 403
Alexis Helgeson a****o@b****u 379
Eric R. Scott s****r@g****m 354
LiamBurke24 l****4@g****m 279
araiho a****o@n****u 268
meetagrawal09 a****1@g****m 259
Shashank Singh 7****2 248
DongchenZ z****c@b****u 242
Luke-Dramko l****o@g****m 212
Ayush Prasad a****d@g****m 204
annethomas a****9@g****m 201
Shawn P. Serbin s****n@i****u 196
Ryan Kelly r****y@n****g 180
Katie Zarada k****a@p****u 180
Tanishq Jain t****0@g****m 161
ankurdesai d****i@a****u 145
Ryan Kelly r****y@l****u 130
Ben Bond-Lamberty b****y@p****v 127
jsimkins2 j****2@w****u 122
HenriKajasilta h****a@g****m 119
Tobey Carman t****n@g****m 115
and 177 more...

Committer domains:

Issue and Pull Request metadata

Last synced: 2 days ago

Total issues: 1,224
Total pull requests: 2,329
Average time to close issues: 8 months
Average time to close pull requests: 23 days
Total issue authors: 80
Total pull request authors: 114
Average comments per issue: 3.9
Average comments per pull request: 1.47
Merged pull request: 2,047
Bot issues: 0
Bot pull requests: 2

Past year issues: 39
Past year pull requests: 210
Past year average time to close issues: 25 days
Past year average time to close pull requests: 9 days
Past year issue authors: 11
Past year pull request authors: 23
Past year average comments per issue: 3.05
Past year average comments per pull request: 1.2
Past year merged pull request: 144
Past year bot issues: 0
Past year bot pull requests: 1

More stats: https://issues.ecosyste.ms/repositories/lookup?url=https://github.com/PecanProject/pecan

Top Issue Authors

  • mdietze (179)
  • serbinsh (136)
  • robkooper (115)
  • dlebauer (114)
  • infotroph (103)
  • tonygardella (95)
  • ashiklom (78)
  • Aariq (54)
  • mccabete (38)
  • ankurdesai (30)
  • rykelly (26)
  • istfer (26)
  • bcow (22)
  • Viskari (18)
  • Sweetdevil144 (13)

Top Pull Request Authors

  • infotroph (364)
  • robkooper (233)
  • ashiklom (160)
  • mdietze (134)
  • dlebauer (134)
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  • istfer (103)
  • serbinsh (101)
  • bcow (64)
  • bpbond (62)
  • DongchenZ (51)
  • rykelly (49)
  • meetagrawal09 (47)
  • ankurdesai (45)
  • para2x (38)

Top Issue Labels

  • Status: Stale (456)
  • Type: Bug (178)
  • Type: Enhancement (156)
  • Type: Question (88)
  • Type: Documentation (86)
  • Topic: Web interface (65)
  • Priority: 02 - Normal (65)
  • Status: Discussion (62)
  • Status: Idea (60)
  • Priority: 03 - High (56)
  • Priority: 01 - Low (45)
  • Topic: models - ED (45)
  • Topic: New Dataset (43)
  • Topic: BETYdb (39)
  • Misc: good first issue (30)
  • Status: in progress (25)
  • Topic: New Model (23)
  • Topic: Testing (23)
  • Topic: Docker (19)
  • Status: Not started (18)
  • Topic: VM (15)
  • Topic: BrownDog (11)
  • Topic: HPC (11)
  • Topic: CRAN (9)
  • GSOC (9)
  • Misc: Epic (9)
  • Topic: Input - Meteorology (9)
  • Topic: models - BioCro (8)
  • Topic: Modules (8)
  • Topic: Benchmark (7)

Top Pull Request Labels

  • Modules (103)
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  • Dockerfile (61)
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  • Base (57)
  • Status: Ready (51)
  • Status: in progress (50)
  • Type: Bug (49)
  • Type: Enhancement (44)
  • GitHub Actions (43)
  • Type: Documentation (33)
  • Documentation (28)
  • Priority: 03 - High (25)
  • Scripts (23)
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  • Topic: BETYdb (19)
  • Topic: Docker (17)
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  • Topic: Input - Meteorology (9)
  • Topic: Visualization (7)
  • Topic: Modules (7)
  • GSOC (7)
  • Topic: Web interface (6)

Dependencies

.github/workflows/book.yml actions
  • actions/checkout v3 composite
  • actions/upload-artifact v3 composite
.github/workflows/ci-weekly.yml actions
  • actions/checkout v3 composite
  • docker://pecan/db ci composite
  • infotroph/tree-is-clean v1 composite
  • mdillon/postgis 9.5 docker
.github/workflows/ci.yml actions
  • actions/checkout v3 composite
  • docker://pecan/db ci composite
  • infotroph/tree-is-clean v1 composite
  • mdillon/postgis 9.5 docker
.github/workflows/depends.yml actions
  • actions/checkout v3 composite
  • docker/setup-buildx-action v2 composite
  • elgohr/Publish-Docker-Github-Action v5 composite
.github/workflows/docker.yml actions
  • actions/checkout v3 composite
  • docker/setup-buildx-action v2 composite
.github/workflows/stale.yml actions
  • actions/stale v6 composite
.github/workflows/styler-actions.yml actions
  • actions/checkout v3 composite
  • r-lib/actions/pr-fetch master composite
  • r-lib/actions/pr-fetch v1 composite
  • r-lib/actions/pr-push master composite
  • r-lib/actions/setup-r master composite
  • trilom/file-changes-action v1.2.4 composite
base/all/DESCRIPTION cran
  • PEcAn.DB * depends
  • PEcAn.MA * depends
  • PEcAn.assim.batch * depends
  • PEcAn.benchmark * depends
  • PEcAn.data.atmosphere * depends
  • PEcAn.data.land * depends
  • PEcAn.data.remote * depends
  • PEcAn.emulator * depends
  • PEcAn.logger * depends
  • PEcAn.priors * depends
  • PEcAn.remote * depends
  • PEcAn.settings * depends
  • PEcAn.uncertainty * depends
  • PEcAn.utils * depends
  • PEcAn.workflow * depends
  • utils * imports
  • PEcAn.BIOCRO * suggests
  • PEcAn.DALEC * suggests
  • PEcAn.ED2 * suggests
  • PEcAn.LINKAGES * suggests
  • PEcAn.SIPNET * suggests
  • PEcAn.allometry * suggests
  • PEcAn.photosynthesis * suggests
  • testthat * suggests
base/db/DESCRIPTION cran
  • DBI * imports
  • PEcAn.logger * imports
  • PEcAn.remote * imports
  • PEcAn.utils * imports
  • R.utils * imports
  • XML * imports
  • curl * imports
  • dbplyr * imports
  • dplyr * imports
  • fs * imports
  • glue * imports
  • lubridate * imports
  • magrittr * imports
  • methods * imports
  • ncdf4 * imports
  • purrr * imports
  • rlang * imports
  • tibble * imports
  • tidyr * imports
  • units * imports
  • RPostgreSQL * suggests
  • RPostgres * suggests
  • RSQLite * suggests
  • bit64 * suggests
  • data.table * suggests
  • here * suggests
  • knitr * suggests
  • rcrossref * suggests
  • rmarkdown * suggests
  • testthat >= 2.0.0 suggests
  • tidyverse * suggests
base/logger/DESCRIPTION cran
  • stringi * imports
  • utils * imports
  • testthat * suggests
base/qaqc/DESCRIPTION cran
  • PEcAn.logger * imports
  • graphics * imports
  • plotrix * imports
  • stats * imports
  • PEcAn.BIOCRO * suggests
  • PEcAn.ED2 * suggests
  • PEcAn.SIPNET * suggests
  • PEcAn.utils * suggests
  • knitr * suggests
  • mvbutils * suggests
  • rmarkdown * suggests
  • testthat >= 3.0.4 suggests
  • vdiffr >= 1.0.2 suggests
base/remote/DESCRIPTION cran
  • PEcAn.logger * imports
  • httr * imports
  • jsonlite * imports
  • urltools * imports
  • getPass * suggests
  • testthat * suggests
  • tools * suggests
base/settings/DESCRIPTION cran
  • methods * depends
  • PEcAn.DB * imports
  • PEcAn.logger * imports
  • PEcAn.remote * imports
  • PEcAn.utils * imports
  • XML >= 3.98 imports
  • lubridate >= 1.6.0 imports
  • optparse * imports
  • purrr * imports
  • testthat >= 2.0.0 suggests
  • withr * suggests
base/utils/DESCRIPTION cran
  • PEcAn.logger * imports
  • abind >= 1.4.5 imports
  • curl * imports
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  • lubridate >= 1.6.0 imports
  • magrittr * imports
  • ncdf4 >= 1.15 imports
  • rlang * imports
  • stringi * imports
  • units * imports
  • MASS * suggests
  • coda >= 0.18 suggests
  • data.table * suggests
  • ggplot2 * suggests
  • randtoolbox * suggests
  • raster * suggests
  • rjags * suggests
  • sp * suggests
  • testthat >= 2.0.0 suggests
  • xtable * suggests
base/visualization/DESCRIPTION cran
  • PEcAn.DB * imports
  • PEcAn.logger * imports
  • PEcAn.utils * imports
  • data.table * imports
  • ggplot2 * imports
  • maps * imports
  • ncdf4 >= 1.15 imports
  • plyr >= 1.8.4 imports
  • reshape2 * imports
  • rlang * imports
  • stringr >= 1.1.0 imports
  • grid * suggests
  • png * suggests
  • raster * suggests
  • sp * suggests
  • testthat >= 1.0.2 suggests
base/workflow/DESCRIPTION cran
  • PEcAn.DB * imports
  • PEcAn.data.atmosphere * imports
  • PEcAn.data.land * imports
  • PEcAn.logger * imports
  • PEcAn.remote * imports
  • PEcAn.settings * imports
  • PEcAn.uncertainty * imports
  • PEcAn.utils * imports
  • XML * imports
  • dplyr * imports
  • purrr >= 0.2.3 imports
  • mockery * suggests
  • testthat * suggests
apps/api/Dockerfile docker
  • pecan/base ${IMAGE_VERSION} build

Score: 11.867960064279028