From 8a1a93562ce11e266b903ab91f75983f603e5334 Mon Sep 17 00:00:00 2001 From: wkmor1 Date: Mon, 19 Aug 2024 13:33:43 +0300 Subject: [PATCH] Increment version and update docs --- CITATION.cff | 8 +- DESCRIPTION | 4 +- NEWS.md | 6 + README.md | 4 +- _pkgdown.yml | 2 +- codemeta.json | 10 +- docs/404.html | 48 +- docs/CODE_OF_CONDUCT.html | 4 +- docs/CONTRIBUTING.html | 4 +- docs/LICENSE-text.html | 4 +- docs/LICENSE.html | 4 +- docs/articles/finbif.html | 2 +- docs/articles/index.html | 4 +- docs/articles/v02_occurrence_data.html | 2 +- docs/articles/v03_selecting_variables.html | 2 +- docs/articles/v04_metadata.html | 2 +- docs/articles/v05_filtering.html | 2 +- docs/authors.html | 10 +- docs/index.html | 10 +- docs/news/index.html | 13 +- docs/pkgdown.yml | 6 +- docs/reference/caching.html | 4 +- docs/reference/common_name.html | 4 +- docs/reference/fb_check_taxa.html | 4 +- docs/reference/fb_clear_cache.html | 4 +- docs/reference/fb_collections.html | 4 +- docs/reference/fb_informal_groups.html | 4 +- docs/reference/fb_last_mod.html | 4 +- docs/reference/fb_metadata.html | 4 +- docs/reference/fb_occurrence.html | 4 +- docs/reference/fb_occurrence_load.html | 4 +- docs/reference/fb_request_token.html | 4 +- docs/reference/fb_taxa.html | 4 +- docs/reference/fb_update_cache.html | 4 +- docs/reference/filters.html | 4 +- docs/reference/finbif-package.html | 6 +- docs/reference/finbif.html | 4 +- docs/reference/finbif_check_taxa.html | 4 +- docs/reference/finbif_clear_cache.html | 4 +- docs/reference/finbif_collections.html | 4 +- docs/reference/finbif_informal_groups.html | 4 +- docs/reference/finbif_last_mod.html | 4 +- docs/reference/finbif_metadata.html | 4 +- docs/reference/finbif_occurrence.html | 4 +- docs/reference/finbif_occurrence_load.html | 4 +- docs/reference/finbif_request_token.html | 4 +- docs/reference/finbif_taxa.html | 4 +- docs/reference/finbif_update_cache.html | 4 +- docs/reference/from_schema.html | 4 +- docs/reference/index.html | 4 +- docs/reference/scientific_name.html | 4 +- docs/reference/taxon_id.html | 4 +- docs/reference/to_dwc.html | 4 +- docs/reference/to_native.html | 4 +- docs/reference/variables.html | 4 +- docs/search.json | 2 +- docs/sitemap.xml | 62 +- inst/NEWS.Rd | 8 + man/finbif-package.Rd | 2 +- tests/fixtures/finbif_cache_db_timeout.yml | 80 +- tests/fixtures/finbif_cache_file_timeout.yml | 80 +- tests/fixtures/finbif_cache_timeout.yml | 80 +- tests/fixtures/finbif_check_taxa.yml | 22 +- tests/fixtures/finbif_collections.yml | 10574 ++++++--------- tests/fixtures/finbif_informal_groups.yml | 9 +- tests/fixtures/finbif_last_mod1.yml | 11 +- tests/fixtures/finbif_last_mod2.yml | 11 +- tests/fixtures/finbif_last_mod3.yml | 11 +- tests/fixtures/finbif_metadata.yml | 297 +- tests/fixtures/finbif_occurrence.yml | 11196 +++++++--------- .../fixtures/finbif_occurrence_aggregate.yml | 94 +- .../fixtures/finbif_occurrence_api_error.yml | 9 +- tests/fixtures/finbif_occurrence_dates.yml | 184 +- tests/fixtures/finbif_occurrence_load.yml | 217 +- tests/fixtures/finbif_occurrence_print.yml | 33 +- tests/fixtures/finbif_taxa.yml | 30 +- tests/testthat/_snaps/caching.md | 66 +- tests/testthat/_snaps/finbif_collections.md | 588 +- tests/testthat/_snaps/finbif_metadata.md | 72 +- tests/testthat/_snaps/finbif_occurrence.md | 129 +- .../testthat/_snaps/finbif_occurrence_load.md | 10 +- 81 files changed, 9880 insertions(+), 14286 deletions(-) diff --git a/CITATION.cff b/CITATION.cff index c529c64e..e9ca9cde 100644 --- a/CITATION.cff +++ b/CITATION.cff @@ -1,6 +1,6 @@ # YAML 1.2 --- -version: "0.9.8" +version: "0.9.8.9000" date-released: 2024-08-19 title: finbif abstract: | @@ -40,7 +40,7 @@ keywords: - taxonomy - "web-services" license: MIT -url: "https://luomus.github.io/finbif/" +url: "https://finbif-docs-dev.netlify.app/" repository-code: "https://github.com/luomus/finbif" preferred-citation: authors: @@ -51,7 +51,7 @@ preferred-citation: type: manual year: 2024 doi: "10.5281/zenodo.3612814" - notes: "R package version 0.9.8" - url: "https://luomus.github.io/finbif/articles/finbif.html" + notes: "R package version 0.9.8.9000" + url: "https://finbif-docs-dev.netlify.app/articles/finbif.html" message: "If you use this software, please cite it using these metadata." ... diff --git a/DESCRIPTION b/DESCRIPTION index fdf941da..23ebaf84 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,6 +1,6 @@ Package: finbif Title: Interface for the 'Finnish Biodiversity Information Facility' API -Version: 0.9.8 +Version: 0.9.8.9000 Authors@R: c( person(given = "Finnish Museum of Natural History - Luomus", role = "cph"), @@ -22,7 +22,7 @@ Description: A programmatic interface to the 'Finnish Biodiversity Information location and other variables. The data accessed are conveniently preformatted for subsequent analyses. License: MIT + file LICENSE -URL: https://github.com/luomus/finbif, https://luomus.github.io/finbif/ +URL: https://github.com/luomus/finbif, https://finbif-docs-dev.netlify.app/ BugReports: https://github.com/luomus/finbif/issues VignetteBuilder: knitr diff --git a/NEWS.md b/NEWS.md index 602b3412..74853cb5 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,5 +1,11 @@ # News for Package finbif +# finbif 0.9.8.9000 + +## NEW FEATURES + + - This is the latest development version. + # finbif 0.9.8 ## DEPRECATION diff --git a/README.md b/README.md index d3a59a14..53416602 100644 --- a/README.md +++ b/README.md @@ -8,8 +8,8 @@ [![r-universe](https://luomus.r-universe.dev/badges/finbif)](https://luomus.r-universe.dev) [![CRAN downloads](https://cranlogs.r-pkg.org/badges/grand-total/finbif?color=brightgreen)](https://cran.r-project.org/package=finbif) [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.3612814.svg)](https://doi.org/10.5281/zenodo.3612814) -[![Build Status](https://github.com/luomus/finbif/workflows/R-CMD-check/badge.svg?branch=main)](https://github.com/luomus/finbif/actions) -[![codecov](https://codecov.io/gh/luomus/finbif/branch/main/graph/badge.svg)](https://app.codecov.io/github/luomus/finbif/branch/main) +[![Build Status](https://github.com/luomus/finbif/workflows/R-CMD-check/badge.svg?branch=dev)](https://github.com/luomus/finbif/actions) +[![codecov](https://codecov.io/gh/luomus/finbif/branch/dev/graph/badge.svg)](https://app.codecov.io/github/luomus/finbif/branch/dev) The `finbif` R package is a programmatic interface to the diff --git a/_pkgdown.yml b/_pkgdown.yml index fa7e2d67..4dfdc1ab 100644 --- a/_pkgdown.yml +++ b/_pkgdown.yml @@ -9,7 +9,7 @@ template: font-size-base: "1rem" base_font: google: "Roboto" -url: https://luomus.github.io/finbif/ +url: https://finbif-docs-dev.netlify.app/ home: title: "FinBIF R package" destination: docs diff --git a/codemeta.json b/codemeta.json index 6ad43c1f..ce8145c7 100644 --- a/codemeta.json +++ b/codemeta.json @@ -4,11 +4,11 @@ "identifier": "finbif", "description": "A programmatic interface to the 'Finnish Biodiversity Information Facility' ('FinBIF') API (). 'FinBIF' aggregates Finnish biodiversity data from multiple sources in a single open access portal for researchers, citizen scientists, industry and government. 'FinBIF' allows users of biodiversity information to find, access, combine and visualise data on Finnish plants, animals and microorganisms. The 'finbif' package makes the publicly available data in 'FinBIF' easily accessible to programmers. Biodiversity information is available on taxonomy and taxon occurrence. Occurrence data can be filtered by taxon, time, location and other variables. The data accessed are conveniently preformatted for subsequent analyses.", "name": "finbif: Interface for the 'Finnish Biodiversity Information Facility' API", - "relatedLink": ["https://luomus.github.io/finbif/", "https://CRAN.R-project.org/package=finbif"], + "relatedLink": ["https://finbif-docs-dev.netlify.app/", "https://CRAN.R-project.org/package=finbif"], "codeRepository": "https://github.com/luomus/finbif", "issueTracker": "https://github.com/luomus/finbif/issues", "license": "https://spdx.org/licenses/MIT", - "version": "0.9.8", + "version": "0.9.8.9000", "programmingLanguage": { "@type": "ComputerLanguage", "name": "R", @@ -246,7 +246,7 @@ "applicationCategory": "Biodiversity", "isPartOf": "https://species.fi", "keywords": ["api", "biodiversity", "biodiversity-informatics", "biodiversity-information", "finbif", "finbif-access", "occurrences", "r-package", "r-programming", "rstats", "species", "specimens", "taxon", "taxonomy", "web-services"], - "fileSize": "13255.975KB", + "fileSize": "12047.358KB", "citation": [ { "@type": "SoftwareSourceCode", @@ -262,8 +262,8 @@ ], "name": "Introduction to the finbif package", "identifier": "10.5281/zenodo.3612814", - "url": "https://luomus.github.io/finbif/articles/finbif.html", - "description": "R package version 0.9.8", + "url": "https://finbif-docs-dev.netlify.app/articles/finbif.html", + "description": "R package version 0.9.8.9000", "@id": "https://doi.org/10.5281/zenodo.3612814", "sameAs": "https://doi.org/10.5281/zenodo.3612814" } diff --git a/docs/404.html b/docs/404.html index 9620dec1..0ba2e569 100644 --- a/docs/404.html +++ b/docs/404.html @@ -6,30 +6,30 @@ Page not found (404) • finbif - - - - - - - - - - - - + + + + + + + + + + + + - + - Skip to contents + Skip to contents
-

Page not found (404)

+

Page not found (404)

diff --git a/docs/CODE_OF_CONDUCT.html b/docs/CODE_OF_CONDUCT.html index 7382c425..dd21beb7 100644 --- a/docs/CODE_OF_CONDUCT.html +++ b/docs/CODE_OF_CONDUCT.html @@ -1,5 +1,5 @@ -Contributor Covenant Code of Conduct • finbif +Contributor Covenant Code of Conduct • finbif Skip to contents @@ -7,7 +7,7 @@ finbif - 0.9.8 + 0.9.8.9000
diff --git a/docs/index.html b/docs/index.html index 9da4bc3a..da8e8a44 100644 --- a/docs/index.html +++ b/docs/index.html @@ -21,7 +21,7 @@ - + Skip to contents @@ -31,7 +31,7 @@ finbif - 0.9.8 + 0.9.8.9000

Getting a FinBIF access token @@ -177,8 +177,8 @@

Dev status

  • r-universe
  • CRAN downloads
  • DOI
    • -
  • Build Status
    • -
  • codecov
    • +
  • Build Status
    • +
  • codecov
    • diff --git a/docs/news/index.html b/docs/news/index.html index df57b983..2691c640 100644 --- a/docs/news/index.html +++ b/docs/news/index.html @@ -1,5 +1,5 @@ -Changelog • finbif +Changelog • finbif Skip to contents @@ -7,7 +7,7 @@ finbif - 0.9.8 + 0.9.8.9000