From 5f386cd438968d08525c5dfeafa1be405d5f6f13 Mon Sep 17 00:00:00 2001 From: Peter Desmet Date: Fri, 3 Nov 2023 13:39:47 +0100 Subject: [PATCH 1/5] Add Zenodo badge --- README.md | 2 ++ 1 file changed, 2 insertions(+) diff --git a/README.md b/README.md index b4af54f..aae9a68 100644 --- a/README.md +++ b/README.md @@ -1,5 +1,7 @@ # Camtrap DP +[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.10068759.svg)](https://doi.org/10.5281/zenodo.10068759) + **Camera Trap Data Package** (or **Camtrap DP** for short) is a community developed data exchange format for camera trap data. ## Usage From 506be3c2976e54212ba89d74736a81be0242a495 Mon Sep 17 00:00:00 2001 From: Peter Desmet Date: Fri, 3 Nov 2023 13:40:24 +0100 Subject: [PATCH 2/5] Update citation (and linke to Zenodo) --- pages/home.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/pages/home.md b/pages/home.md index 4eeea5f..ca2a352 100644 --- a/pages/home.md +++ b/pages/home.md @@ -69,8 +69,8 @@ To cite Camtrap DP in general, use the preprint ([bibtex](citation.bib)): > Bubnicki JW, Norton B, Baskauf SJ, Bruce T, Cagnacci F, Casaer J, Churski M, Cromsigt JPGM, Dal Farra S, Fiderer C, Forrester TD, Hendry H, Heurich M, Hofmeester TR, Jansen PA, Kays R, Kuijper DPJ, Liefting Y, Linnell JDC, Luskin MS, Mann C, Milotic T, Newman P, Niedballa J, Oldoni D, Ossi F, Robertson T, Rovero F, Rowcliffe M, Seidenari L, Stachowicz I, Stowell D, Tobler MW, Wieczorek J, Zimmermann F, Desmet P (2023) Camtrap DP: An open standard for the FAIR exchange and archiving of camera trap data. EcoEvoRxiv. preprint -To cite a specific version of Camtrap DP, use: +To cite version 1.0 of Camtrap DP, use: -> Camtrap DP Development Team (\) Camera Trap Data Package (Camtrap DP). Version \. accessed on \. +> Desmet P, Bubnicki JW, Camtrap DP Development Team. (2023). Camtrap DP (1.0). Biodiversity Information Standards (TDWG). Camtrap DP is managed by the [Machine Observations Interest Group](https://www.tdwg.org/community/mobs/) of Biodiversity Information Standards (TDWG). From 1d132d771aa0d8e48c0a0e8f4eb909537ee2921c Mon Sep 17 00:00:00 2001 From: Peter Desmet Date: Wed, 8 Nov 2023 09:21:31 +0100 Subject: [PATCH 3/5] Use full link to refer to page --- camtrap-dp-profile.json | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/camtrap-dp-profile.json b/camtrap-dp-profile.json index 8421923..c9404a2 100644 --- a/camtrap-dp-profile.json +++ b/camtrap-dp-profile.json @@ -24,7 +24,7 @@ ], "properties": { "resources": { - "description": "See [Data Package specification](https://specs.frictionlessdata.io/data-package/#resource-information). Camtrap DP further requires each object to be a [Tabular Data Resource](https://specs.frictionlessdata.io/tabular-data-resource/) with a specific `name` and `schema`. See [Data](../data) for the requirements for those resources.", + "description": "See [Data Package specification](https://specs.frictionlessdata.io/data-package/#resource-information). Camtrap DP further requires each object to be a [Tabular Data Resource](https://specs.frictionlessdata.io/tabular-data-resource/) with a specific `name` and `schema`. See [Data](https://camtrap-dp.tdwg.org/data) for the requirements for those resources.", "minItems": 3, "items": { "oneOf": [ From cc7fa6029f0ed6dd896cec3f00433fdd0d11a481 Mon Sep 17 00:00:00 2001 From: Peter Desmet Date: Mon, 11 Dec 2023 12:10:30 +0100 Subject: [PATCH 4/5] Include link to paper rather than preprint --- citation.bib | 24 ++++++++++++------------ pages/home.md | 6 +++--- 2 files changed, 15 insertions(+), 15 deletions(-) diff --git a/citation.bib b/citation.bib index 4aaf031..0c69395 100644 --- a/citation.bib +++ b/citation.bib @@ -1,13 +1,13 @@ - -@techreport{bubnicki_camtrap_2023, - type = {preprint}, - title = {Camtrap {DP}: {An} open standard for the {FAIR} exchange and archiving of camera trap data}, - shorttitle = {Camtrap {DP}}, - url = {https://ecoevorxiv.org/repository/view/5593/}, - abstract = {Camera trapping has revolutionized wildlife ecology and conservation by providing automated data acquisition, leading to the accumulation of massive amounts of camera trap data worldwide. Although management and processing of camera trap-derived Big Data are becoming increasingly solvable with the help of scalable cyber-infrastructures, harmonization and exchange of the data remain limited, hindering its full potential. We present a new data exchange format, the Camera Trap Data Package (Camtrap DP), designed to allow users to easily exchange, harmonize and archive camera trap data at local to global scales. Camtrap DP structures camera trap data in a simple yet flexible data model consisting of three tables (Deployments, Media, and Observations) that supports a wide range of camera deployment designs, classification techniques (e.g., human and AI, media-based and event-based) and analytical use cases, from compiling species occurrence data through distribution, occupancy and activity modeling to density estimation. The format further achieves interoperability by building upon existing standards, Frictionless Data Package in particular, which is supported by a suite of open software tools to read and validate data. Camtrap DP is the consensus of a long, in-depth, consultation and outreach process with standard and software developers, the main existing camera trap data management platforms, major players in the field of camera trapping, and the Global Biodiversity Information Facility (GBIF). Under the umbrella of the Biodiversity Information Standards (TDWG), Camtrap DP has been developed openly, collaboratively, and with version control from the start and we encourage camera trapping users and developers to join the discussion and contribute to the further development and adoption of this standard.}, - institution = {EcoEvoRxiv}, - author = {Bubnicki, Jakub W. and Norton, Ben and Baskauf, Steven J. and Bruce, Tom and Cagnacci, Francesca and Casaer, Jim and Churski, Marcin and Cromsigt, Joris P.G.M. and Dal Farra, Simone and Fiderer, Christian and Forrester, Tavis D. and Hendry, Heidi and Heurich, Marco and Hofmeester, Tim R. and Jansen, Patrick A. and Kays, Roland and Kuijper, Dries P.J. and Liefting, Yorick and Linnell, John D.C. and Luskin, Matthew S. and Mann, Christopher and Milotic, Tanja and Newman, Peggy and Niedballa, Jürgen and Oldoni, Damiano and Ossi, Federico and Robertson, Tim and Rovero, Francesco and Rowcliffe, Marcus and Seidenari, Lorenzo and Stachowicz, Izabela and Stowell, Dan and Tobler, Mathias W. and Wieczorek, John and Zimmermann, Fridolin and Desmet, Peter}, - month = jun, - year = {2023}, - doi = {10.32942/X2BC8J}, +@article{bubnicki_camtrap_2023, + title = {Camtrap DP: an open standard for the FAIR exchange and archiving of camera trap data}, + author = {Bubnicki, Jakub W. and Norton, Ben and Baskauf, Steven J. and Bruce, Tom and Cagnacci, Francesca and Casaer, Jim and Churski, Marcin and Cromsigt, Joris P. G. M. and Farra, Simone Dal and Fiderer, Christian and Forrester, Tavis D. and Hendry, Heidi and Heurich, Marco and Hofmeester, Tim R. and Jansen, Patrick A. and Kays, Roland and Kuijper, Dries P. J. and Liefting, Yorick and Linnell, John D. C. and Luskin, Matthew S. and Mann, Christopher and Milotic, Tanja and Newman, Peggy and Niedballa, Jürgen and Oldoni, Damiano and Ossi, Federico and Robertson, Tim and Rovero, Francesco and Rowcliffe, Marcus and Seidenari, Lorenzo and Stachowicz, Izabela and Stowell, Dan and Tobler, Mathias W. and Wieczorek, John and Zimmermann, Fridolin and Desmet, Peter}, + journal = {Remote Sensing in Ecology and Conservation}, + year = 2023, + volume = {n/a}, + number = {n/a}, + pages = {}, + keywords = {Biodiversity data, camera traps, data exchange, data sharing, information standards}, + doi = {https://doi.org/10.1002/rse2.374}, + url = {https://zslpublications.onlinelibrary.wiley.com/doi/abs/10.1002/rse2.374}, + abstract = {Abstract Camera trapping has revolutionized wildlife ecology and conservation by providing automated data acquisition, leading to the accumulation of massive amounts of camera trap data worldwide. Although management and processing of camera trap-derived Big Data are becoming increasingly solvable with the help of scalable cyber-infrastructures, harmonization and exchange of the data remain limited, hindering its full potential. There is currently no widely accepted standard for exchanging camera trap data. The only existing proposal, “Camera Trap Metadata Standard” (CTMS), has several technical shortcomings and limited adoption. We present a new data exchange format, the Camera Trap Data Package (Camtrap DP), designed to allow users to easily exchange, harmonize and archive camera trap data at local to global scales. Camtrap DP structures camera trap data in a simple yet flexible data model consisting of three tables (Deployments, Media and Observations) that supports a wide range of camera deployment designs, classification techniques (e.g., human and AI, media-based and event-based) and analytical use cases, from compiling species occurrence data through distribution, occupancy and activity modeling to density estimation. The format further achieves interoperability by building upon existing standards, Frictionless Data Package in particular, which is supported by a suite of open software tools to read and validate data. Camtrap DP is the consensus of a long, in-depth, consultation and outreach process with standard and software developers, the main existing camera trap data management platforms, major players in the field of camera trapping and the Global Biodiversity Information Facility (GBIF). Under the umbrella of the Biodiversity Information Standards (TDWG), Camtrap DP has been developed openly, collaboratively and with version control from the start. We encourage camera trapping users and developers to join the discussion and contribute to the further development and adoption of this standard.} } diff --git a/pages/home.md b/pages/home.md index ca2a352..efe7f90 100644 --- a/pages/home.md +++ b/pages/home.md @@ -14,7 +14,7 @@ File | Description `media.csv` | Table with [media](data/#media) files recorded during deployments. `observations.csv` | Table with [observations](data/#observations) derived from the media files. -Want to learn more about Camtrap DP? Read our [preprint](https://doi.org/10.32942/X2BC8J) or watch the [November 2022 webinar](https://www.gbif.org/composition/4fZGV2vrXjo3rNxySz41sj/exploring-camera-trap-data). +[Read our paper](https://doi.org/10.1002/rse2.374) to learn more about Camtrap DP. ## Example @@ -67,10 +67,10 @@ Questions? Suggestions? Contribute to the development of Camtrap DP by watching To cite Camtrap DP in general, use the preprint ([bibtex](citation.bib)): -> Bubnicki JW, Norton B, Baskauf SJ, Bruce T, Cagnacci F, Casaer J, Churski M, Cromsigt JPGM, Dal Farra S, Fiderer C, Forrester TD, Hendry H, Heurich M, Hofmeester TR, Jansen PA, Kays R, Kuijper DPJ, Liefting Y, Linnell JDC, Luskin MS, Mann C, Milotic T, Newman P, Niedballa J, Oldoni D, Ossi F, Robertson T, Rovero F, Rowcliffe M, Seidenari L, Stachowicz I, Stowell D, Tobler MW, Wieczorek J, Zimmermann F, Desmet P (2023) Camtrap DP: An open standard for the FAIR exchange and archiving of camera trap data. EcoEvoRxiv. preprint +> Bubnicki JW, Norton B, Baskauf SJ, Bruce T, Cagnacci F, Casaer J, Churski M, Cromsigt JPGM, Farra SD, Fiderer C, Forrester TD, Hendry H, Heurich M, Hofmeester TR, Jansen PA, Kays R, Kuijper DPJ, Liefting Y, Linnell JDC, Luskin MS, Mann C, Milotic T, Newman P, Niedballa J, Oldoni D, Ossi F, Robertson T, Rovero F, Rowcliffe M, Seidenari L, Stachowicz I, Stowell D, Tobler MW, Wieczorek J, Zimmermann F, Desmet P (2023). Camtrap DP: an open standard for the FAIR exchange and archiving of camera trap data. Remote Sensing in Ecology and Conservation. To cite version 1.0 of Camtrap DP, use: -> Desmet P, Bubnicki JW, Camtrap DP Development Team. (2023). Camtrap DP (1.0). Biodiversity Information Standards (TDWG). +> Desmet P, Bubnicki JW, Camtrap DP Development Team (2023). Camtrap DP (1.0). Biodiversity Information Standards (TDWG). Camtrap DP is managed by the [Machine Observations Interest Group](https://www.tdwg.org/community/mobs/) of Biodiversity Information Standards (TDWG). From e9dd6af8a88a7c1fcb228dee0980bd888cfd6a85 Mon Sep 17 00:00:00 2001 From: Peter Desmet Date: Mon, 11 Dec 2023 12:10:49 +0100 Subject: [PATCH 5/5] Reference webinar and publication guide near IPT --- pages/home.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/pages/home.md b/pages/home.md index efe7f90..3d4bb05 100644 --- a/pages/home.md +++ b/pages/home.md @@ -57,7 +57,7 @@ frictionless validate path/to/your/datapackage.json - [camtraptor](https://inbo.github.io/camtraptor): R package to read, explore and visualize Camtrap DP. - [Agouti](https://agouti.eu): Data management platform, uses Camtrap DP as export format. - [TRAPPER](https://os-conservation.org/projects/trapper): Data management platform, uses Camtrap DP as export format. -- [Integrated Publishing Toolkit (IPT)](https://www.gbif.org/ipt) (version 3.0): Online software tool to publish biodiversity datasets to the Global Biodiversity Information Facility (GBIF). +- [Integrated Publishing Toolkit (IPT)](https://www.gbif.org/ipt) (version 3.0): Online software tool to publish biodiversity datasets to the Global Biodiversity Information Facility (GBIF). See the [November 2022 webinar](https://www.gbif.org/composition/4fZGV2vrXjo3rNxySz41sj/exploring-camera-trap-data) for context and [Reyserhove et al. (2023)](https://doi.org/10.35035/doc-0qzp-2x37) for publication guidelines. ## Contribute