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ecotaxa_front

Front end of the EcoTaxa application

https://github.com/ecotaxa/ecotaxa_front

Science Score: 44.0%

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

  • ✓
    CITATION.cff file
    Found CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (12.5%) to scientific vocabulary
Last synced: 6 months ago · JSON representation ·

Repository

Front end of the EcoTaxa application

Basic Info
  • Host: GitHub
  • Owner: ecotaxa
  • License: other
  • Language: JavaScript
  • Default Branch: master
  • Homepage:
  • Size: 43.4 MB
Statistics
  • Stars: 6
  • Watchers: 3
  • Forks: 6
  • Open Issues: 92
  • Releases: 0
Created almost 10 years ago · Last pushed 8 months ago
Metadata Files
Readme License Citation

README.md

EcoTaxa

EcoTaxa is a web application destined to process the large number of images generated by such quantitative imaging instruments. It leverages deep learning and an efficient user interface to allow taxonomists to classify thousands of images per day. In addition, it can store a large quantity of metadata together with the images, with very few constraints on its content. These metadata can be used by the operators to sort through the images and by the machine learning backend to suggest identifications. Finally, EcoTaxa can export the metadata and the identifications together, in a versatile text table or following the DarwinCore Archive standard, for further data exploitation.

Howto

Run EcoTaxa

This is the front-end part of the application, which is (nearly) stateless and takes/writes all data from/to a back-end.

To run a simple set up see the allinone instructions. This will give you a running solution but probably not scale to be a production environment.

Help develop EcoTaxa

See the backend's instructions to setup a development environment.

To start, provided that you have a proper running back-end, you must create a short file config/config.cfg. You can use appli/config-model.cfg as a template.

Then read the documentation of this repository to

This project is tested with BrowserStack.

Metadata

Citation

If you use EcoTaxa in your work, please cite it as

Marc Picheral, Sébastien Colin, and Jean-Olivier Irisson (2017) EcoTaxa, a tool for the taxonomic classification of images. http://ecotaxa.obs-vlfr.fr

License

This code is released under the GPLv3.

Contributors

Specifications and supervision

Current developers

Past contributors

  • Sebastien Colin, Station Biologique de Roscoff, Sorbonne Université
  • Laurent Navarro, AltiDev
  • Laurent Reese, Laboratoire d'Océanographie de Villefranche (LOV), Sorbonne Université

Owner

  • Name: EcoTaxa
  • Login: ecotaxa
  • Kind: organization

Citation (CITATION.cff) 

# This CITATION.cff file was generated with cffinit.
# Visit https://bit.ly/cffinit to generate yours today!

cff-version: 1.2.0
title: 'EcoTaxa, a tool for the taxonomic classification of images'
message: >-
  If you use this software, please cite it using the
  metadata from this file.
type: software
authors:
  - given-names: Marc
    family-names: Picheral
    email: marc.picheral@imev-mer.fr
    affiliation: >-
      Sorbonne Université, CNRS, Laboratoire
      d'Océanographie de Villefranche, LOV, F-06230
      Villefranche-sur-Mer, France
    orcid: 'https://orcid.org/0000-0001-8172-5473'
  - given-names: Sébastien
    family-names: Colin
    email: colin@sb-roscoff.fr
    affiliation: Sorbonne Université
    orcid: 'https://orcid.org/0000-0003-4440-9396'
  - given-names: Jean-Olivier
    family-names: Irisson
    email: irisson@normalesup.org
    affiliation: >-
      Sorbonne Université, CNRS, Laboratoire
      d'Océanographie de Villefranche, LOV, F-06230
      Villefranche-sur-Mer, France
    orcid: 'https://orcid.org/0000-0003-4920-3880'
repository-code: 'https://github.com/ecotaxa/ecotaxa_front'
repository: 'https://github.com/ecotaxa/ecotaxa_back'
abstract: >-
  Ecological data is increasingly collected in the form of
  images. The first information to be gathered from these
  images is usually the species present in them. When
  quantitative imaging instruments are used, these
  identifications can be used to compute additional
  ecologically relevant quantities such as concentrations,
  densities, and/or biovolumes.

  EcoTaxa is a web application destined to process the large
  number of images generated by such quantitative imaging
  instruments. It leverages deep learning and an efficient
  user interface to allow taxonomists to classify thousands
  of images per day. In addition, it can store a large
  quantity of metadata together with the images, with very
  few constraints on its content. These metadata can be used
  by the operators to sort through the images and by the
  machine learning backend to suggest identifications.
  Finally, EcoTaxa can export the metadata and the
  identifications together, in a versatile text table or
  following the DarwinCore Archive standard, for further
  data exploitation.
keywords:
  - image
  - taxonomy
  - deep learning
  - plankton
license: GPL-3.0-or-later

GitHub Events

Total
  • Create event: 38
  • Release event: 3
  • Issues event: 6
  • Delete event: 34
  • Issue comment event: 6
  • Push event: 96
  • Pull request event: 4
Last Year
  • Create event: 38
  • Release event: 3
  • Issues event: 6
  • Delete event: 34
  • Issue comment event: 6
  • Push event: 96
  • Pull request event: 4

Issues and Pull Requests

Last synced: 7 months ago

All Time
  • Total issues: 3
  • Total pull requests: 3
  • Average time to close issues: 21 days
  • Average time to close pull requests: 10 months
  • Total issue authors: 2
  • Total pull request authors: 3
  • Average comments per issue: 2.33
  • Average comments per pull request: 0.33
  • Merged pull requests: 3
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 3
  • Pull requests: 1
  • Average time to close issues: 21 days
  • Average time to close pull requests: 7 days
  • Issue authors: 2
  • Pull request authors: 1
  • Average comments per issue: 2.33
  • Average comments per pull request: 0.0
  • Merged pull requests: 1
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • jiho (50)
  • grololo06 (39)
  • picheral (10)
  • moi90 (4)
  • Kikouliou (2)
  • Elineau (2)
  • kingofcool666 (1)
  • LaurentReese (1)
  • rkiko (1)
Pull Request Authors
  • jiho (2)
  • grololo06 (1)
  • moilerat (1)
Top Labels
Issue Labels
feature (54) page-import (17) ui (17) ux (16) bug (14) page-classif (14) page-export (9) page-user (7) to clarify (6) page-proj_settings (5) db (5) collections (5) api (4) permissions (4) page-subset (4) page-admin (4) page-select_project (3) consistency (3) performance (3) notification (3) page-prediction (3) taxo (2) page-delete-objects (2) doc (2) page-about_project (2) page-merge (2) page-landing (2) page-tasks (2) logging (1) ecopart (1)
Pull Request Labels
page-proj_settings (1) dwca (1)