From 04a5c5bf2e2cd193ff149afc15148d1f655b3708 Mon Sep 17 00:00:00 2001 From: ZekeMarshall Date: Wed, 17 Apr 2024 13:18:58 +0100 Subject: [PATCH] Version 0.9991 --- CITATION.cff | 5 +++++ DESCRIPTION | 11 ++++++++--- JOSS/paper.Rmd | 5 +++++ JOSS/paper.html | 4 ++-- JOSS/paper.md | 7 ++++++- NEWS.md | 7 +++++++ README.Rmd | 2 +- README.md | 2 +- docs/documentation.Rmd | 3 ++- report/Report.Rmd | 2 +- www/documentation.html | 10 ++++++---- 11 files changed, 44 insertions(+), 14 deletions(-) diff --git a/CITATION.cff b/CITATION.cff index 0a09f81..26f2db6 100644 --- a/CITATION.cff +++ b/CITATION.cff @@ -23,6 +23,11 @@ authors: email: corr@ceh.ac.uk affiliation: UKCEH orcid: 'https://orcid.org/0000-0001-5070-5293' + - given-names: Rob + family-names: Marrs + email: calluna@liverpool.ac.uk + affiliation: University of Liverpool + orcid: 'https://orcid.org/0000-0002-0664-9420' repository-code: 'https://github.com/ZekeMarshall/RMAVIS' abstract: 'A R Shiny application for the assignment of vegetation survey plot data to GB NVC communities with additional exploratory analyses.' keywords: diff --git a/DESCRIPTION b/DESCRIPTION index 0b4a8a5..4429517 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,7 +1,7 @@ Package: RMAVIS Title: Assign Vegetation Survey Data to GB NVC Communities -Version: 0.999 -Date: 2024-04-16 +Version: 0.9991 +Date: 2024-04-17 Authors@R: c(person(given = "Zeke", family = "Marshall", role = c("aut", "cre"), @@ -16,7 +16,12 @@ Authors@R: c(person(given = "Zeke", family = "Harrower", email = "corr@ceh.ac.uk", role = c("aut"), - comment = c(ORCID = "0000-0001-5070-5293"))) + comment = c(ORCID = "0000-0001-5070-5293")) + person(given = "Rob", + family = "Marrs", + email = "calluna@liverpool.ac.uk", + role = c("aut"), + comment = c(ORCID = "0000-0002-0664-9420"))) Description: A R Shiny application for the assignment of vegetation survey plot data to GB NVC communities with additional exploratory analyses. License: MIT + file LICENSE Encoding: UTF-8 diff --git a/JOSS/paper.Rmd b/JOSS/paper.Rmd index 85d313d..38a06ff 100644 --- a/JOSS/paper.Rmd +++ b/JOSS/paper.Rmd @@ -15,11 +15,16 @@ authors: - name: Colin Harrower orcid: 0000-0001-5070-5293 affiliation: 2 + - name: Rob Marrs + orcid: 0000-0002-0664-9420 + affiliation: 3 affiliations: - name: UK Centre for Ecology \& Hydrology, Lancaster Environment Centre, Library Avenue, Bailrigg, Lancaster, LA1 4AP, United Kingdom index: 1 - name: UK Centre for Ecology \& Hydrology, Maclean Building, Benson Lane, Crowmarsh Gifford, Wallingford, Oxfordshire, OX10 8BB, United Kingdom index: 2 + - name: School of Environmental Sciences, University of Liverpool, Liverpool, L69 3GP, UK + index: 3 date: "`r Sys.Date()`" bibliography: paper.bib output: diff --git a/JOSS/paper.html b/JOSS/paper.html index e6edd0d..cada70f 100644 --- a/JOSS/paper.html +++ b/JOSS/paper.html @@ -10,7 +10,7 @@ - + RMAVIS v1.0: a R Shiny application for the analysis of vegetation survey data and assignment to GB NVC communities. @@ -374,7 +374,7 @@

RMAVIS v1.0: a R Shiny application for the analysis of vegetation survey data and assignment to GB NVC communities.

-

2024-04-15

+

2024-04-17

diff --git a/JOSS/paper.md b/JOSS/paper.md index 0bc6d34..02ed67f 100644 --- a/JOSS/paper.md +++ b/JOSS/paper.md @@ -15,12 +15,17 @@ authors: - name: Colin Harrower orcid: 0000-0001-5070-5293 affiliation: 2 + - name: Rob Marrs + orcid: 0000-0002-0664-9420 + affiliation: 3 affiliations: - name: UK Centre for Ecology \& Hydrology, Lancaster Environment Centre, Library Avenue, Bailrigg, Lancaster, LA1 4AP, United Kingdom index: 1 - name: UK Centre for Ecology \& Hydrology, Maclean Building, Benson Lane, Crowmarsh Gifford, Wallingford, Oxfordshire, OX10 8BB, United Kingdom index: 2 -date: "2024-04-15" + - name: School of Environmental Sciences, University of Liverpool, Liverpool, L69 3GP, UK + index: 3 +date: "2024-04-17" bibliography: paper.bib output: html_document: diff --git a/NEWS.md b/NEWS.md index 6ba2070..bf8d58f 100644 --- a/NEWS.md +++ b/NEWS.md @@ -3,6 +3,13 @@ title: "Release notes for `RMAVIS`" output: html_document --- +# RMAVIS 0.9991 (2024-04-17) +* Modifications: + - Updating author list. +* Fixes: NA +* New Features: NA + + # RMAVIS 0.999 (2024-04-16) * Modifications: - Updating to taxonomic backbone to use BSBI February 2024 taxon list. diff --git a/README.Rmd b/README.Rmd index a92b9e4..cf4307e 100644 --- a/README.Rmd +++ b/README.Rmd @@ -14,7 +14,7 @@ knitr::opts_chunk$set( # RMAVIS -[![Generic badge](https://img.shields.io/badge/Version-0.999-green.svg)]() +[![Generic badge](https://img.shields.io/badge/Version-0.9991-green.svg)]() [![Project Status: Active – The project has reached a stable, usable state and is being actively developed.](https://www.repostatus.org/badges/latest/active.svg)](https://www.repostatus.org/#active) [![DOI](https://zenodo.org/badge/722095560.svg)](https://zenodo.org/badge/latestdoi/722095560) [![status](https://joss.theoj.org/papers/460c6f934a108fcf5a16d0f2ab77492e/status.svg)](https://joss.theoj.org/papers/460c6f934a108fcf5a16d0f2ab77492e) diff --git a/README.md b/README.md index 9636d85..e68e91a 100644 --- a/README.md +++ b/README.md @@ -4,7 +4,7 @@ [![Generic -badge](https://img.shields.io/badge/Version-0.999-green.svg)]() +badge](https://img.shields.io/badge/Version-0.9991-green.svg)]() [![Project Status: Active – The project has reached a stable, usable state and is being actively developed.](https://www.repostatus.org/badges/latest/active.svg)](https://www.repostatus.org/#active) diff --git a/docs/documentation.Rmd b/docs/documentation.Rmd index 4fcb8ec..479ea8f 100644 --- a/docs/documentation.Rmd +++ b/docs/documentation.Rmd @@ -1,6 +1,6 @@ --- title: "RMAVIS - Documentation" -subtitle: "v0.999" +subtitle: "v0.9991" # output: # bookdown::word_document2: # always_allow_html: true @@ -132,6 +132,7 @@ This option is included to ensure that users who cannot confidently identify bryophytes to the species rank, or do not have data where bryophytes were confidently recorded can still use RMAVIS without false presences or absences unduly skewing the results. + > Caution is advised in excluding bryophyte taxa as bryophytes are key and often > highly diagnostic components of many NVC communities. diff --git a/report/Report.Rmd b/report/Report.Rmd index 93ed721..981b149 100644 --- a/report/Report.Rmd +++ b/report/Report.Rmd @@ -149,7 +149,7 @@ reportOptions_options <- list(`NVC Assignment` = c("Site, Czekanowski" = "nvcAss ```{r RMAVISVersion, echo=FALSE, message=FALSE, warning=FALSE, results='asis'} -cat("**Version:** ", as.character("v0.999"), sep = "") +cat("**Version:** ", as.character("v0.9991"), sep = "") ``` diff --git a/www/documentation.html b/www/documentation.html index bf5478f..15f51ec 100644 --- a/www/documentation.html +++ b/www/documentation.html @@ -1711,7 +1711,7 @@

RMAVIS - Documentation

-

v0.999

+

v0.9991

@@ -1782,9 +1782,11 @@

2.1.1 Options

This option is included to ensure that users who cannot confidently identify bryophytes to the species rank, or do not have data where bryophytes were confidently recorded can still use RMAVIS without -false presences or absences unduly skewing the results. -> Caution is advised in excluding bryophyte taxa as bryophytes are key and often -> highly diagnostic components of many NVC communities.

+false presences or absences unduly skewing the results.

+
+

Caution is advised in excluding bryophyte taxa as bryophytes are key and often +highly diagnostic components of many NVC communities.

+

Input Method

Three methods for entering data into RMAVIS are provided: manual, upload, and example. The manual method allows the user to enter the data