Add DOI for article and prep for v1.0.0 release

openplantpathology · Jan 16, 2023 · 2d15340 · 2d15340
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -29,6 +29,7 @@ BugReports: https://github.com/openplantpathology/Reproducibility_in_Plant_Patho
 Description: A research compendium for a perspectives paper,
     "Reproducibility in plant pathology: where we stand and a way forward",
     published in "Phytopathology".
+DOI: 10.1094/PHYTO-10-21-0430-PER
 Depends:
     R (>= 3.5.0)
 License: MIT + file LICENSE

diff --git a/README.md b/README.md
@@ -16,16 +16,16 @@ developed.](http://www.repostatus.org/badges/latest/active.svg)](http://www.repo
 This repository contains the data and code for our article:
 
 > Sparks, A.H., Del Ponte, E.M., Alves, K. S., Foster, Z., Grünwald, N.
-> J. (YYYY). *Openness and computational reproducibility in plant
-> pathology: where do we stand and a way forward*. Name of journal/book
-> <https://doi.org/xxx/xxx>
+> J. (2023). *Openness and computational reproducibility in plant
+> pathology: where do we stand and a way forward*, *Phytopathology*
+> <https://doi.org/10.1094/PHYTO-10-21-0430-PER>.
 
 Our pre-print is online on the agriRxiv preprint server:
 
 > Sparks, A.H., Del Ponte, E.M., Alves, K. S., Foster, Z., Grünwald, N.
-> J. (2022). *Openness and computational reproducibility in plant
-> pathology: where do we stand and a way forward*. agriRxiv, Accessed 31
-> Oct 2022. Online at <https://doi.org/10.31220/agriRxiv.2021.00082>
+> J. (2023). *Openness and computational reproducibility in plant
+> pathology: where do we stand and a way forward*. agriRxiv, Accessed 16
+> Jan 2023. Online at <https://doi.org/10.31220/agriRxiv.2021.00082>
 
 The paper is a systematic and quantitative review of articles published
 in 21 plant pathology journals that spans five years of publications. It
@@ -45,9 +45,9 @@ citations for their work.
 Please cite this compendium as:
 
 > Sparks, A.H., Del Ponte, E.M., Alves, K. S., Foster, Z., Grünwald, N.
-> J. (2022). *Compendium of R code and data for ‘Status and Best
-> Practices for Reproducible Research In Plant Pathology’*. Accessed 31
-> Oct 2022. Online at <https://doi.org/10.5281/zenodo.1250665>
+> J. (2023). *Compendium of R code and data for ‘Status and Best
+> Practices for Reproducible Research In Plant Pathology’*. Accessed 16
+> Jan 2023. Online at <https://doi.org/10.5281/zenodo.1250665>
 
 ### How to download or install
 
@@ -107,7 +107,7 @@ Docker session.
 
 ### Licensing
 
-Code: [MIT](http://opensource.org/licenses/MIT) year: 2022, copyright
+Code: [MIT](http://opensource.org/licenses/MIT) year: 2023, copyright
 holder: Adam H. Sparks
 
 Data: [CC-0](http://creativecommons.org/publicdomain/zero/1.0/)

diff --git a/README.rmd b/README.rmd
@@ -21,11 +21,11 @@ knitr::opts_chunk$set(
 
 This repository contains the data and code for our article:
 
-> Sparks, A.H., Del Ponte, E.M., Alves, K. S., Foster, Z., Grünwald, N. J. (YYYY). _Openness and computational reproducibility in plant pathology: where do we stand and a way forward_. Name of journal/book <https://doi.org/xxx/xxx>
+> Sparks, A.H., Del Ponte, E.M., Alves, K. S., Foster, Z., Grünwald, N. J. (2023). _Openness and computational reproducibility in plant pathology: where do we stand and a way forward_, _Phytopathology_ <https://doi.org/10.1094/PHYTO-10-21-0430-PER>.
 
 Our pre-print is online on the agriRxiv preprint server:
 
-> Sparks, A.H., Del Ponte, E.M., Alves, K. S., Foster, Z., Grünwald, N. J. (2022). _Openness and computational reproducibility in plant pathology: where do we stand and a way forward_. agriRxiv, Accessed `r format(Sys.Date(), "%d %b %Y")`. Online at <https://doi.org/10.31220/agriRxiv.2021.00082>
+> Sparks, A.H., Del Ponte, E.M., Alves, K. S., Foster, Z., Grünwald, N. J. (2023). _Openness and computational reproducibility in plant pathology: where do we stand and a way forward_. agriRxiv, Accessed `r format(Sys.Date(), "%d %b %Y")`. Online at <https://doi.org/10.31220/agriRxiv.2021.00082>
 
 The paper is a systematic and quantitative review of articles published in 21 plant pathology journals that spans five years of publications.
 It provides a basis for identifying what has been done so far in the discipline of plant pathology's published research to ensure computational reproducibility.

diff --git a/codemeta.json b/codemeta.json
@@ -499,7 +499,7 @@
     },
     "SystemRequirements": null
   },
-  "fileSize": "58893.674KB",
+  "fileSize": "58918.052KB",
   "citation": [
     {
       "@type": "SoftwareSourceCode",

diff --git a/docs/index.html b/docs/index.html