Data

Tools

Indexes

Applications

Experiments

Open Sustainable Technology

FIMS

A software system designed and architected to support next-generation fisheries stock assessment, ecosystem, and socioeconomic modeling.
https://github.com/noaa-fims/fims

Category: Biosphere
Sub Category: Marine Life and Fishery

Keywords

noaa-nsap r-package stock-assessment

Keywords from Contributors

fisheries fisheries-stock-assessment stock-synthesis latex noaa file-upload weighted unitful simulations report

Last synced: about 2 hours ago
JSON representation

Repository metadata

The repository for development of FIMS

README.md

FIMS status badge
R-CMD-check
Codecov test coverage
Lifecycle: experimental

Overview

The NOAA Fisheries Integrated Modeling System (FIMS) is a software system designed to support next-generation fisheries stock assessment, ecosystem, and socioeconomic modeling. A team of experts within NOAA Fisheries is designing and developing the system, and we are advised by the FIMS Council, which includes academic, industry, and international partners. The roles of internal and external collaborators are outlined in the governance section of our Developer Guide. Our software is currently operational for estimation purposes and we plan for it to be operational for management in late 2025.

Users and developers are welcome to submit ideas or questions using the GitHub Discussion Board and bug reports using GitHub Issues. The Discussion Board is a place for all members of the assessment and open-source software community to ask and answer questions, share updates, have open-ended conversations, and follow along on decisions affecting FIMS. If you happen to find a bug, please report it in the appropriate repository, for example use issues in the collaborative workflow repository to make suggestions about the developer guide and issues in the FIMS repository for bugs in the software design.

Installing FIMS

Install the latest precompiled version of FIMS from R universe within R using the following code:

install.packages("FIMS", repos = c("https://noaa-fims.r-universe.dev", "https://cloud.r-project.org"))

Or, you can follow the instructions in the Collaborative Workflow to install FIMS from GitHub or a local clone.

Getting Help

Please report bugs along with a minimal reproducible example on the FIMS GitHub Issues page.

Code of Conduct

All contributors participating and contributing to the FIMS project are expected to adhere to the FIMS Code of Conduct.

Contributors

All contributions to this project are gratefully acknowledged using the allcontributors package following the all-contributors specification. Contributions of any kind are welcome!

Code

Issue Authors

Issue Contributors

NOAA Disclaimer

This repository is a scientific product and is not official communication of the National Oceanic and Atmospheric Administration, or the United States Department of Commerce. All NOAA GitHub project code is provided on an 'as is' basis and the user assumes responsibility for its use. Any claims against the Department of Commerce or Department of Commerce bureaus stemming from the use of this GitHub project will be governed by all applicable Federal law. Any reference to specific commercial products, processes, or services by service mark, trademark, manufacturer, or otherwise, does not constitute or imply their endorsement, recommendation or favoring by the Department of Commerce. The Department of Commerce seal and logo, or the seal and logo of a DOC bureau, shall not be used in any manner to imply endorsement of any commercial product or activity by DOC or the United States Government.

Software code created by U.S. Government employees is not subject to copyright in the United States (17 U.S.C. section 105). The United States/Department of Commerce reserve all rights to seek and obtain copyright protection in countries other than the United States for Software authored in its entirety by the Department of Commerce. To this end, the Department of Commerce hereby grants to Recipient a royalty-free, nonexclusive license to use, copy, and create derivative works of the Software outside of the United States.

U.S. Department of Commerce | National Oceanographic and Atmospheric Administration | NOAA Fisheries

Owner metadata

GitHub Events

Total
Last Year

Committers metadata

Last synced: 9 days ago

Total Commits: 1,290
Total Committers: 22
Avg Commits per committer: 58.636
Development Distribution Score (DDS): 0.692

Commits in past year: 72
Committers in past year: 12
Avg Commits per committer in past year: 6.0
Development Distribution Score (DDS) in past year: 0.611

Name Email Commits
Christine Stawitz - NOAA 4****A 397
Andrea-Havron-NOAA a****n@n****v 207
Bai Li b****i@n****v 204
Matthew-Supernaw-NOAA m****w@n****v 154
Kathryn Doering k****g@n****v 108
github-actions[bot] 4****] 68
kellijohnson-NOAA k****n@n****v 50
Nathan Vaughan n****n@n****v 38
Christine.Stawitz c****z 22
Jane Sullivan j****n@n****v 13
Jon Kenton Tarsus Brodziak j****k@n****v 6
MOshima-PIFSC m****a@n****v 6
Ian Taylor i****r@n****v 4
peterkuriyama-NOAA 1****A 3
timjmiller t****r@n****v 2
KyleShertzer-NOAA 8****A 2
Srajal Dwivedi 9****d 1
Mark C m****n@u****u 1
Srajal Dwivedi s****3@g****m 1
Kelli.Johnson 1****2@m****l 1
Bai.Li B****i@n****l 1
Ricardo Yin y****6@g****m 1

Committer domains:

Issue and Pull Request metadata

Last synced: 1 day ago

Total issues: 482
Total pull requests: 258
Average time to close issues: 5 months
Average time to close pull requests: 7 days
Total issue authors: 17
Total pull request authors: 20
Average comments per issue: 3.87
Average comments per pull request: 3.47
Merged pull request: 181
Bot issues: 0
Bot pull requests: 12

Past year issues: 93
Past year pull requests: 165
Past year average time to close issues: 3 months
Past year average time to close pull requests: 8 days
Past year issue authors: 10
Past year pull request authors: 19
Past year average comments per issue: 2.45
Past year average comments per pull request: 3.21
Past year merged pull request: 102
Past year bot issues: 0
Past year bot pull requests: 12

More stats: https://issues.ecosyste.ms/repositories/lookup?url=https://github.com/noaa-fims/fims

Top Issue Authors

  • ChristineStawitz-NOAA (115)
  • Andrea-Havron-NOAA (94)
  • Bai-Li-NOAA (86)
  • kellijohnson-NOAA (69)
  • k-doering-NOAA (50)
  • JaneSullivan-NOAA (19)
  • msupernaw (16)
  • Cole-Monnahan-NOAA (6)
  • nathanvaughan-NOAA (6)
  • iantaylor-NOAA (6)
  • KyleShertzer-NOAA (4)
  • JonBrodziak (3)
  • Andrea-Havron (2)
  • Ovec8hkin (2)
  • cmlegault (2)

Top Pull Request Authors

  • ChristineStawitz-NOAA (67)
  • Bai-Li-NOAA (46)
  • Andrea-Havron-NOAA (35)
  • kellijohnson-NOAA (34)
  • k-doering-NOAA (27)
  • nathanvaughan-NOAA (7)
  • Srajald (6)
  • github-actions[bot] (6)
  • dependabot[bot] (6)
  • msupernaw (4)
  • MOshima-PIFSC (4)
  • peterkuriyama-NOAA (3)
  • iantaylor-NOAA (3)
  • RicardoYin01 (2)
  • JaneSullivan-NOAA (2)

Top Issue Labels

  • kind: feature (135)
  • kind: refactor (96)
  • P3 (67)
  • kind: bug (60)
  • theme: code cleanup (56)
  • theme: NLL refactor (53)
  • theme: more features (51)
  • status: wishlist (45)
  • status: triage_needed (45)
  • kind: documentation (45)
  • status: needs discussion (42)
  • P2 (40)
  • kind: question (36)
  • theme: documentation (32)
  • status: in progress (32)
  • P1 (29)
  • attribute: low hanging 🍎 (25)
  • status: help wanted (25)
  • theme: R interface (22)
  • attribute: needs discussion (22)
  • attribute: case study features (22)
  • theme: r interface (21)
  • low hanging 🍎 (20)
  • kind: test case (16)
  • attribute: good first issue (10)
  • sprint 1 (10)
  • theme: pilot studies (6)
  • case study features (5)
  • kind: vignette (5)
  • ro-hackathon-2025 (3)

Top Pull Request Labels

  • P3 (10)
  • theme: code cleanup (9)
  • kind: bug (9)
  • kind: documentation (7)
  • kind: refactor (7)
  • auto-update (6)
  • dependencies (6)
  • github_actions (6)
  • theme: documentation (4)
  • theme: R interface (3)
  • vignette (2)
  • kind: feature (2)
  • status: in progress (2)
  • attribute: low hanging 🍎 (1)
  • theme: more features (1)

Dependencies

DESCRIPTION cran
  • R >= 3.4 depends
  • Rcpp * imports
  • TMB >= 1.8.0 imports
  • usethis * imports
  • covr * suggests
  • testthat >= 3.0.0 suggests
.github/workflows/build-deploy-doxygen.yml actions
  • actions/checkout v3 composite
  • dmnemec/copy_file_to_another_repo_action main composite
.github/workflows/build-doxygen.yml actions
  • actions/checkout v3 composite
.github/workflows/pr-checklist.yml actions
  • actions/checkout v3 composite
  • actions/github-script 0.3.0 composite
.github/workflows/run-clang-format.yml actions
  • DoozyX/clang-format-lint-action v0.14 composite
  • actions/checkout v3 composite
  • peter-evans/create-pull-request v4 composite
.github/workflows/run-clang-tidy.yml actions
  • actions/checkout v3 composite
.github/workflows/run-googletest.yml actions
  • actions/checkout v3 composite
  • actions/upload-artifact v3 composite
  • codecov/codecov-action v3 composite
  • seanmiddleditch/gha-setup-ninja master composite
.github/workflows/call-calc-coverage.yml actions
.github/workflows/call-doc-and-style-r.yml actions
.github/workflows/call-r-cmd-check.yml actions
.github/workflows/call-update-pkgdown.yml actions
.github/workflows/get-gtest-codecov.yml actions
  • actions/checkout v3 composite
  • actions/upload-artifact v3 composite
  • codecov/codecov-action v3 composite
  • r-lib/actions/setup-r v2 composite
  • r-lib/actions/setup-r-dependencies v2 composite

Score: 7.80954132465341