From 36ae40c33948dc262187ef420c803110e52ad847 Mon Sep 17 00:00:00 2001 From: Trevor Riley <89118428+TNRiley@users.noreply.github.com> Date: Fri, 27 Mar 2026 15:49:09 -0400 Subject: [PATCH 01/12] Add CITATION.cff for software citation information DOI needs update when paper is released --- CITATION.cff | 44 ++++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 44 insertions(+) create mode 100644 CITATION.cff diff --git a/CITATION.cff b/CITATION.cff new file mode 100644 index 0000000..376a7c8 --- /dev/null +++ b/CITATION.cff @@ -0,0 +1,44 @@ +cff-version: 1.2.0 +message: "If you use this software, please cite it as below." +authors: + - family-names: "Riley" + given-names: "Trevor N." + orcid: "https://orcid.org/0000-0002-6834-9802" + - family-names: "Young" + given-names: "Sarah" + orcid: "https://orcid.org/0000-0002-8301-5106" + - family-names: "Paxton" + given-names: "Avery B." + orcid: "https://orcid.org/0000-0002-4871-9167" + - family-names: "Wallrich" + given-names: "Lukas" + orcid: "https://orcid.org/0000-0003-2121-5177" + - family-names: "Hair" + given-names: "Kaitlyn" + orcid: "https://orcid.org/0000-0003-0180-7343" + - family-names: "Grainger" + given-names: "Matthew J." + orcid: "https://orcid.org/0000-0001-8426-6495" +title: "CiteSource: An R Package for Data-Driven Search Strategy Development and Enhanced Evidence Synthesis Reporting" +version: 0.1.1 +doi: TBD +url: "https://github.com/ESHackathon/CiteSource" +preferred-citation: + type: article + authors: + - family-names: "Riley" + given-names: "Trevor N." + - family-names: "Young" + given-names: "Sarah" + - family-names: "Paxton" + given-names: "Avery B." + - family-names: "Wallrich" + given-names: "Lukas" + - family-names: "Hair" + given-names: "Kaitlyn" + - family-names: "Grainger" + given-names: "Matthew J." + title: "CiteSource: An R Package for Data-Driven Search Strategy Development and Enhanced Evidence Synthesis Reporting" + journal: "Research Synthesis Methods" + year: 2026 + doi: TBD From 813f86a2ad29c617ac7be9151adb9759c5de7a71 Mon Sep 17 00:00:00 2001 From: Trevor Riley <89118428+TNRiley@users.noreply.github.com> Date: Fri, 27 Mar 2026 15:52:26 -0400 Subject: [PATCH 02/12] Add citation section to README Added citation information for CiteSource publication. --- README.md | 3 +++ 1 file changed, 3 insertions(+) diff --git a/README.md b/README.md index 227c24d..b2ed23c 100644 --- a/README.md +++ b/README.md @@ -20,6 +20,9 @@ Development of this project began as part of the Evidence Synthesis Hackathon an CiteSource was created under [the General Public License (>=v3)](https://www.gnu.org/licenses/gpl-3.0.html). +**Citing CiteSource** +Riley, T. N., Young, S., Paxton, A. B., Wallrich, L., Hair, K., & Grainger, M. J. (2026). CiteSource: An R Package for Data-Driven Search Strategy Development and Enhanced Evidence Synthesis Reporting. Research Synthesis Methods. (DOI/PUBLICATION FORTHCOMING) + **Shiny Web Application** Whether you know R or not, we want you to be able to use CiteSource! Check out our [CiteSource Shiny App!](https://litrev.shinyapps.io/CiteSource/) From 07b2de637cff6c9b5197c01491276340a57292f5 Mon Sep 17 00:00:00 2001 From: Trevor Riley <89118428+TNRiley@users.noreply.github.com> Date: Fri, 27 Mar 2026 15:52:42 -0400 Subject: [PATCH 03/12] Update README with citation details Added citation information for CiteSource. --- README.md | 1 + 1 file changed, 1 insertion(+) diff --git a/README.md b/README.md index b2ed23c..e8f77e8 100644 --- a/README.md +++ b/README.md @@ -21,6 +21,7 @@ Development of this project began as part of the Evidence Synthesis Hackathon an CiteSource was created under [the General Public License (>=v3)](https://www.gnu.org/licenses/gpl-3.0.html). **Citing CiteSource** + Riley, T. N., Young, S., Paxton, A. B., Wallrich, L., Hair, K., & Grainger, M. J. (2026). CiteSource: An R Package for Data-Driven Search Strategy Development and Enhanced Evidence Synthesis Reporting. Research Synthesis Methods. (DOI/PUBLICATION FORTHCOMING) **Shiny Web Application** From cfa48d40c32894ceb277d412e759e8656efad057 Mon Sep 17 00:00:00 2001 From: Trevor Riley <89118428+TNRiley@users.noreply.github.com> Date: Fri, 27 Mar 2026 15:54:05 -0400 Subject: [PATCH 04/12] Update project status badge to 'Active' --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index e8f77e8..a1bcef1 100644 --- a/README.md +++ b/README.md @@ -4,7 +4,7 @@ [![R-CMD-check](https://github.com/ESHackathon/CiteSource/workflows/R-CMD-Check/badge.svg)](https://github.com/ESHackathon/CiteSource/actions) -[![Status](https://img.shields.io/badge/Status-Work%20in%20Progress-orange)](https://github.com/ESHackathon/CiteSource) +[![Status](https://img.shields.io/badge/Status-Active-brightgreen)](https://github.com/ESHackathon/CiteSource) [![License: GPL v3](https://img.shields.io/badge/License-GPLv3-blue.svg)](https://www.gnu.org/licenses/gpl-3.0) From 586533ac833d67bcb623997ed2966f611b5f0809 Mon Sep 17 00:00:00 2001 From: Trevor Riley Date: Mon, 6 Apr 2026 08:49:05 -0400 Subject: [PATCH 05/12] update description with DOI and renvlock with plogr --- CITATION.cff | 2 +- DESCRIPTION | 8 ++++---- renv.lock | 11 +++++++++++ 3 files changed, 16 insertions(+), 5 deletions(-) diff --git a/CITATION.cff b/CITATION.cff index 376a7c8..00ae273 100644 --- a/CITATION.cff +++ b/CITATION.cff @@ -41,4 +41,4 @@ preferred-citation: title: "CiteSource: An R Package for Data-Driven Search Strategy Development and Enhanced Evidence Synthesis Reporting" journal: "Research Synthesis Methods" year: 2026 - doi: TBD + doi: https://doi.org/10.1017/rsm.2026.10084 diff --git a/DESCRIPTION b/DESCRIPTION index eb3a5bb..af80110 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,5 +1,5 @@ Package: CiteSource -Title: Analyze the Utility of Information Sources and Retrieval Methodologies for Evidence Synthesis +Title: An R package for data-driven search strategy development and enhanced evidence synthesis reporting Version: 0.1.1 Date: 2023-06-22 Authors@R: c( @@ -61,8 +61,6 @@ Suggests: shinybusy, shinyWidgets, testthat (>= 3.0.0) -Additional_repositories: - https://github.com/camaradesuk/ASySD VignetteBuilder: knitr Config/testthat/edition: 3 @@ -72,4 +70,6 @@ RoxygenNote: 7.2.3 Depends: R (>= 3.5.0) Remotes: - camaradesuk/ASySD + camaradesuk/ASySD, + krlmlr/plogr + \ No newline at end of file diff --git a/renv.lock b/renv.lock index 2fab65d..d624008 100644 --- a/renv.lock +++ b/renv.lock @@ -4139,6 +4139,17 @@ "Maintainer": "Lionel Henry ", "Repository": "CRAN" }, + "plogr": { + "Package": "plogr", + "Version": "0.2.0", + "Source": "GitHub", + "RemoteType": "github", + "RemoteHost": "api.github.com", + "RemoteUsername": "krlmlr", + "RemoteRepo": "plogr", + "RemoteRef": "main", + "RemoteSha": "53a4fd487bee827bfeefd44d1418c3a2d3ac0c2a" + }, "plotly": { "Package": "plotly", "Version": "4.12.0", From 990ce339708fed5359cf12c0483cf62329eb7705 Mon Sep 17 00:00:00 2001 From: Trevor Riley Date: Mon, 6 Apr 2026 09:08:37 -0400 Subject: [PATCH 06/12] update about.md with citation and add link on export page --- inst/shiny-app/CiteSource/app.R | 10 +++++++++- inst/shiny-app/CiteSource/www/about.md | 7 +++++++ 2 files changed, 16 insertions(+), 1 deletion(-) diff --git a/inst/shiny-app/CiteSource/app.R b/inst/shiny-app/CiteSource/app.R index de8ff54..28221a9 100644 --- a/inst/shiny-app/CiteSource/app.R +++ b/inst/shiny-app/CiteSource/app.R @@ -385,11 +385,19 @@ ui <- shiny::navbarPage("CiteSource", shiny::h6("Note that you can only download the data after you have run the deduplication. Also, you are only able to re-upload CSV and RIS files to continue with CiteSource, so please use these formats if you want that option."), shiny::downloadButton("downloadCsv", "Download csv"), shiny::downloadButton("downloadRis", "Download RIS"), - shiny::downloadButton("downloadBib", "Download BibTex") + shiny::downloadButton("downloadBib", "Download BibTex"), + shiny::hr(), + shiny::wellPanel( + shiny::h5("Cite CiteSource"), + shiny::p("If you use these results in a publication, please cite the software:"), + shiny::tags$code("Riley, T., Young, S., Paxton, A., Wallrich, L., Hair, K., & Grainger, M. (2026). CiteSource: An R package for data-driven search strategy development and enhanced evidence synthesis reporting. Research Synthesis Methods. https://doi.org/10.1017/rsm.2026.10084"), + shiny::br(), + shiny::a("View Publication", href = "https://doi.org/10.1017/rsm.2026.10084", target = "_blank") ) ) ) ) + ) ) diff --git a/inst/shiny-app/CiteSource/www/about.md b/inst/shiny-app/CiteSource/www/about.md index 5fd3fe8..d793304 100644 --- a/inst/shiny-app/CiteSource/www/about.md +++ b/inst/shiny-app/CiteSource/www/about.md @@ -9,6 +9,13 @@ CiteSource was developed as part of the [Evidence Synthesis Hackathon](https://w --- +### How to Cite +If you use CiteSource in your research, please cite the following publication: + +Riley, T., Young, S., Paxton, A., Wallrich, L., Hair, K., & Grainger, M. (2026). CiteSource: An R package for data-driven search strategy development and enhanced evidence synthesis reporting. Research Synthesis Methods. https://doi.org/10.1017/rsm.2026.10084 + +--- + ### Key Features:
From 4963c3a104257df3f257f3567c414d2231cd5e1d Mon Sep 17 00:00:00 2001 From: Trevor Riley Date: Mon, 6 Apr 2026 09:18:44 -0400 Subject: [PATCH 07/12] Exorcised plogr and updated lockfile --- DESCRIPTION | 2 - renv.lock | 243 ++++++++++++++++++++++++------------------------ renv/activate.R | 89 ++++++++++++++++-- 3 files changed, 200 insertions(+), 134 deletions(-) diff --git a/DESCRIPTION b/DESCRIPTION index af80110..aefed3a 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -71,5 +71,3 @@ Depends: R (>= 3.5.0) Remotes: camaradesuk/ASySD, - krlmlr/plogr - \ No newline at end of file diff --git a/renv.lock b/renv.lock index d624008..440d5b7 100644 --- a/renv.lock +++ b/renv.lock @@ -1,6 +1,6 @@ { "R": { - "Version": "4.5.0", + "Version": "4.5.2", "Repositories": [ { "Name": "CRAN", @@ -59,21 +59,22 @@ "Depends": [ "R (>= 2.10)" ], - "Author": "Kaitlyn Hair [aut, cre, cph] (ORCID: ), Lukas Wallrich [aut] (ORCID: )", - "Maintainer": "Kaitlyn Hair ", "RemoteType": "github", "RemoteHost": "api.github.com", - "RemoteUsername": "camaradesuk", "RemoteRepo": "ASySD", - "RemoteRef": "master", - "RemoteSha": "df54be9d7850df603d34a406e42590b682687c02" + "RemoteUsername": "camaradesuk", + "RemoteRef": "HEAD", + "RemoteSha": "df54be9d7850df603d34a406e42590b682687c02", + "NeedsCompilation": "no", + "Author": "Kaitlyn Hair [aut, cre, cph] (ORCID: ), Lukas Wallrich [aut] (ORCID: )", + "Maintainer": "Kaitlyn Hair " }, "DBI": { "Package": "DBI", - "Version": "1.2.3", + "Version": "1.3.0", "Source": "Repository", "Title": "R Database Interface", - "Date": "2024-06-02", + "Date": "2026-02-11", "Authors@R": "c( person(\"R Special Interest Group on Databases (R-SIG-DB)\", role = \"aut\"), person(\"Hadley\", \"Wickham\", role = \"aut\"), person(\"Kirill\", \"Müller\", , \"kirill@cynkra.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-1416-3412\")), person(\"R Consortium\", role = \"fnd\") )", "Description": "A database interface definition for communication between R and relational database management systems. All classes in this package are virtual and need to be extended by the various R/DBMS implementations.", "License": "LGPL (>= 2.1)", @@ -86,8 +87,9 @@ "Suggests": [ "arrow", "blob", + "callr", "covr", - "DBItest", + "DBItest (>= 1.8.2)", "dbplyr", "downlit", "dplyr", @@ -96,6 +98,8 @@ "knitr", "magrittr", "nanoarrow (>= 0.3.0.1)", + "otel", + "otelsdk", "RMariaDB", "rmarkdown", "rprojroot", @@ -108,12 +112,12 @@ "Config/autostyle/scope": "line_breaks", "Config/autostyle/strict": "false", "Config/Needs/check": "r-dbi/DBItest", - "Encoding": "UTF-8", - "RoxygenNote": "7.3.1", "Config/Needs/website": "r-dbi/DBItest, r-dbi/dbitemplate, adbi, AzureKusto, bigrquery, DatabaseConnector, dittodb, duckdb, implyr, lazysf, odbc, pool, RAthena, IMSMWU/RClickhouse, RH2, RJDBC, RMariaDB, RMySQL, RPostgres, RPostgreSQL, RPresto, RSQLite, sergeant, sparklyr, withr", "Config/testthat/edition": "3", + "Encoding": "UTF-8", + "RoxygenNote": "7.3.3.9000", "NeedsCompilation": "no", - "Author": "R Special Interest Group on Databases (R-SIG-DB) [aut], Hadley Wickham [aut], Kirill Müller [aut, cre] (), R Consortium [fnd]", + "Author": "R Special Interest Group on Databases (R-SIG-DB) [aut], Hadley Wickham [aut], Kirill Müller [aut, cre] (ORCID: ), R Consortium [fnd]", "Maintainer": "Kirill Müller ", "Repository": "CRAN" }, @@ -218,10 +222,10 @@ }, "Matrix": { "Package": "Matrix", - "Version": "1.7-3", + "Version": "1.7-4", "Source": "Repository", "VersionNote": "do also bump src/version.h, inst/include/Matrix/version.h", - "Date": "2025-03-05", + "Date": "2025-08-27", "Priority": "recommended", "Title": "Sparse and Dense Matrix Classes and Methods", "Description": "A rich hierarchy of sparse and dense matrix classes, including general, symmetric, triangular, and diagonal matrices with numeric, logical, or pattern entries. Efficient methods for operating on such matrices, often wrapping the 'BLAS', 'LAPACK', and 'SuiteSparse' libraries.", @@ -257,7 +261,7 @@ "BuildResaveData": "no", "Encoding": "UTF-8", "NeedsCompilation": "yes", - "Author": "Douglas Bates [aut] (), Martin Maechler [aut, cre] (), Mikael Jagan [aut] (), Timothy A. Davis [ctb] (, SuiteSparse libraries, collaborators listed in dir(system.file(\"doc\", \"SuiteSparse\", package=\"Matrix\"), pattern=\"License\", full.names=TRUE, recursive=TRUE)), George Karypis [ctb] (, METIS library, Copyright: Regents of the University of Minnesota), Jason Riedy [ctb] (, GNU Octave's condest() and onenormest(), Copyright: Regents of the University of California), Jens Oehlschlägel [ctb] (initial nearPD()), R Core Team [ctb] (02zz1nj61, base R's matrix implementation)", + "Author": "Douglas Bates [aut] (ORCID: ), Martin Maechler [aut, cre] (ORCID: ), Mikael Jagan [aut] (ORCID: ), Timothy A. Davis [ctb] (ORCID: , SuiteSparse libraries, collaborators listed in dir(system.file(\"doc\", \"SuiteSparse\", package=\"Matrix\"), pattern=\"License\", full.names=TRUE, recursive=TRUE)), George Karypis [ctb] (ORCID: , METIS library, Copyright: Regents of the University of Minnesota), Jason Riedy [ctb] (ORCID: , GNU Octave's condest() and onenormest(), Copyright: Regents of the University of California), Jens Oehlschlägel [ctb] (initial nearPD()), R Core Team [ctb] (ROR: , base R's matrix implementation)", "Maintainer": "Martin Maechler ", "Repository": "CRAN" }, @@ -285,7 +289,7 @@ "NeedsCompilation": "no", "Author": "Winston Chang [aut, cre], Posit Software, PBC [cph, fnd]", "Maintainer": "Winston Chang ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "RColorBrewer": { "Package": "RColorBrewer", @@ -302,8 +306,7 @@ "Description": "Provides color schemes for maps (and other graphics) designed by Cynthia Brewer as described at http://colorbrewer2.org.", "License": "Apache License 2.0", "NeedsCompilation": "no", - "Repository": "https://packagemanager.posit.co/cran/latest", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "RSQLite": { "Package": "RSQLite", @@ -545,8 +548,7 @@ "NeedsCompilation": "yes", "Author": "Milan Bouchet-Valat [aut, cre]", "Maintainer": "Milan Bouchet-Valat ", - "Repository": "https://packagemanager.posit.co/cran/latest", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "UpSetR": { "Package": "UpSetR", @@ -667,7 +669,7 @@ "NeedsCompilation": "yes", "Author": "Jeroen Ooms [aut, cre] ()", "Maintainer": "Jeroen Ooms ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "backports": { "Package": "backports", @@ -883,7 +885,7 @@ "NeedsCompilation": "yes", "Author": "Michael Chirico [aut, cre], Jens Oehlschlägel [aut], Brian Ripley [ctb]", "Maintainer": "Michael Chirico ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "bit64": { "Package": "bit64", @@ -917,7 +919,7 @@ "NeedsCompilation": "yes", "Author": "Michael Chirico [aut, cre], Jens Oehlschlägel [aut], Leonardo Silvestri [ctb], Ofek Shilon [ctb]", "Maintainer": "Michael Chirico ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "bitops": { "Package": "bitops", @@ -1102,7 +1104,7 @@ "NeedsCompilation": "yes", "Author": "Winston Chang [aut, cre], Posit Software, PBC [cph, fnd]", "Maintainer": "Winston Chang ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "callr": { "Package": "callr", @@ -1140,7 +1142,7 @@ "NeedsCompilation": "no", "Author": "Gábor Csárdi [aut, cre, cph] (), Winston Chang [aut], Posit Software, PBC [cph, fnd], Ascent Digital Services [cph, fnd]", "Maintainer": "Gábor Csárdi ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "cellranger": { "Package": "cellranger", @@ -1243,7 +1245,7 @@ "NeedsCompilation": "yes", "Author": "Gábor Csárdi [aut, cre], Hadley Wickham [ctb], Kirill Müller [ctb], Salim Brüggemann [ctb] (), Posit Software, PBC [cph, fnd]", "Maintainer": "Gábor Csárdi ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "clipr": { "Package": "clipr", @@ -1274,7 +1276,7 @@ "NeedsCompilation": "no", "Author": "Matthew Lincoln [aut, cre] (), Louis Maddox [ctb], Steve Simpson [ctb], Jennifer Bryan [ctb]", "Maintainer": "Matthew Lincoln ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "codetools": { "Package": "codetools", @@ -1315,7 +1317,7 @@ "NeedsCompilation": "yes", "Author": "Jeroen Ooms [aut, cre] (ORCID: ), John MacFarlane [cph] (Author of cmark)", "Maintainer": "Jeroen Ooms ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "contentanalysis": { "Package": "contentanalysis", @@ -1440,7 +1442,7 @@ "NeedsCompilation": "no", "Author": "Gábor Csárdi [aut, cre], Brodie Gaslam [ctb], Posit Software, PBC [cph, fnd]", "Maintainer": "Gábor Csárdi ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "crosstalk": { "Package": "crosstalk", @@ -1578,7 +1580,7 @@ "Collate": "'assertions.R' 'authors-at-r.R' 'built.R' 'classes.R' 'collate.R' 'constants.R' 'deps.R' 'desc-package.R' 'description.R' 'encoding.R' 'find-package-root.R' 'latex.R' 'non-oo-api.R' 'package-archives.R' 'read.R' 'remotes.R' 'str.R' 'syntax_checks.R' 'urls.R' 'utils.R' 'validate.R' 'version.R'", "NeedsCompilation": "no", "Author": "Gábor Csárdi [aut, cre], Kirill Müller [aut], Jim Hester [aut], Maëlle Salmon [ctb] (), Posit Software, PBC [cph, fnd]", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "RSPM" }, "diagram": { "Package": "diagram", @@ -1662,7 +1664,7 @@ "NeedsCompilation": "yes", "Author": "Dirk Eddelbuettel [aut, cre] (ORCID: ), Antoine Lucas [ctb] (ORCID: ), Jarek Tuszynski [ctb], Henrik Bengtsson [ctb] (ORCID: ), Simon Urbanek [ctb] (ORCID: ), Mario Frasca [ctb], Bryan Lewis [ctb], Murray Stokely [ctb], Hannes Muehleisen [ctb] (ORCID: ), Duncan Murdoch [ctb], Jim Hester [ctb] (ORCID: ), Wush Wu [ctb] (ORCID: ), Qiang Kou [ctb] (ORCID: ), Thierry Onkelinx [ctb] (ORCID: ), Michel Lang [ctb] (ORCID: ), Viliam Simko [ctb], Kurt Hornik [ctb] (ORCID: ), Radford Neal [ctb] (ORCID: ), Kendon Bell [ctb] (ORCID: ), Matthew de Queljoe [ctb], Dmitry Selivanov [ctb] (ORCID: ), Ion Suruceanu [ctb] (ORCID: ), Bill Denney [ctb] (ORCID: ), Dirk Schumacher [ctb], András Svraka [ctb] (ORCID: ), Sergey Fedorov [ctb] (ORCID: ), Will Landau [ctb] (ORCID: ), Floris Vanderhaeghe [ctb] (ORCID: ), Kevin Tappe [ctb], Harris McGehee [ctb], Tim Mastny [ctb], Aaron Peikert [ctb] (ORCID: ), Mark van der Loo [ctb] (ORCID: ), Chris Muir [ctb] (ORCID: ), Moritz Beller [ctb] (ORCID: ), Sebastian Campbell [ctb] (ORCID: ), Winston Chang [ctb] (ORCID: ), Dean Attali [ctb] (ORCID: ), Michael Chirico [ctb] (ORCID: ), Kevin Ushey [ctb] (ORCID: ), Carl Pearson [ctb] (ORCID: )", "Maintainer": "Dirk Eddelbuettel ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "dimensionsR": { "Package": "dimensionsR", @@ -1943,7 +1945,7 @@ "NeedsCompilation": "yes", "Author": "Thomas Lin Pedersen [cre, aut] (), Berendea Nicolae [aut] (Author of the ColorSpace C++ library), Romain François [aut] (), Posit, PBC [cph, fnd]", "Maintainer": "Thomas Lin Pedersen ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "fastmap": { "Package": "fastmap", @@ -1963,7 +1965,7 @@ "NeedsCompilation": "yes", "Author": "Winston Chang [aut, cre], Posit Software, PBC [cph, fnd], Tessil [cph] (hopscotch_map library)", "Maintainer": "Winston Chang ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "ff": { "Package": "ff", @@ -2026,7 +2028,7 @@ "NeedsCompilation": "no", "Author": "Richard Iannone [aut, cre] (), Christophe Dervieux [ctb] (), Winston Chang [ctb], Dave Gandy [ctb, cph] (Font-Awesome font), Posit Software, PBC [cph, fnd]", "Maintainer": "Richard Iannone ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "forcats": { "Package": "forcats", @@ -2110,7 +2112,7 @@ "NeedsCompilation": "yes", "Author": "Jim Hester [aut], Hadley Wickham [aut], Gábor Csárdi [aut, cre], libuv project contributors [cph] (libuv library), Joyent, Inc. and other Node contributors [cph] (libuv library), Posit Software, PBC [cph, fnd]", "Maintainer": "Gábor Csárdi ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "future": { "Package": "future", @@ -2153,7 +2155,7 @@ }, "future.apply": { "Package": "future.apply", - "Version": "1.20.1", + "Version": "1.20.2", "Source": "Repository", "Title": "Apply Function to Elements in Parallel using Futures", "Depends": [ @@ -2218,7 +2220,7 @@ "NeedsCompilation": "no", "Author": "Hadley Wickham [aut, cre] (ORCID: ), Max Kuhn [aut], Davis Vaughan [aut], Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Hadley Wickham ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "ggnewscale": { "Package": "ggnewscale", @@ -2321,21 +2323,22 @@ }, "ggrepel": { "Package": "ggrepel", - "Version": "0.9.6", + "Version": "0.9.7", "Source": "Repository", - "Authors@R": "c( person(\"Kamil\", \"Slowikowski\", email = \"kslowikowski@gmail.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-2843-6370\")), person(\"Alicia\", \"Schep\", role = \"ctb\", comment = c(ORCID = \"0000-0002-3915-0618\")), person(\"Sean\", \"Hughes\", role = \"ctb\", comment = c(ORCID = \"0000-0002-9409-9405\")), person(\"Trung Kien\", \"Dang\", role = \"ctb\", comment = c(ORCID = \"0000-0001-7562-6495\")), person(\"Saulius\", \"Lukauskas\", role = \"ctb\"), person(\"Jean-Olivier\", \"Irisson\", role = \"ctb\", comment = c(ORCID = \"0000-0003-4920-3880\")), person(\"Zhian N\", \"Kamvar\", role = \"ctb\", comment = c(ORCID = \"0000-0003-1458-7108\")), person(\"Thompson\", \"Ryan\", role = \"ctb\", comment = c(ORCID = \"0000-0002-0450-8181\")), person(\"Dervieux\", \"Christophe\", role = \"ctb\", comment = c(ORCID = \"0000-0003-4474-2498\")), person(\"Yutani\", \"Hiroaki\", role = \"ctb\"), person(\"Pierre\", \"Gramme\", role = \"ctb\"), person(\"Amir Masoud\", \"Abdol\", role = \"ctb\"), person(\"Malcolm\", \"Barrett\", role = \"ctb\", comment = c(ORCID = \"0000-0003-0299-5825\")), person(\"Robrecht\", \"Cannoodt\", role = \"ctb\", comment = c(ORCID = \"0000-0003-3641-729X\")), person(\"Michał\", \"Krassowski\", role = \"ctb\", comment = c(ORCID = \"0000-0002-9638-7785\")), person(\"Michael\", \"Chirico\", role = \"ctb\", comment = c(ORCID = \"0000-0003-0787-087X\")), person(\"Pedro\", \"Aphalo\", role = \"ctb\", comment = c(ORCID = \"0000-0003-3385-972X\")), person(\"Francis\", \"Barton\", role = \"ctb\") )", + "Authors@R": "c( person(\"Kamil\", \"Slowikowski\", email = \"kslowikowski@gmail.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-2843-6370\")), person(\"Teun\", \"van den Brand\", role = \"ctb\", comment = c(ORCID = \"0000-0002-9335-7468\")), person(\"Alicia\", \"Schep\", role = \"ctb\", comment = c(ORCID = \"0000-0002-3915-0618\")), person(\"Sean\", \"Hughes\", role = \"ctb\", comment = c(ORCID = \"0000-0002-9409-9405\")), person(\"Trung Kien\", \"Dang\", role = \"ctb\", comment = c(ORCID = \"0000-0001-7562-6495\")), person(\"Saulius\", \"Lukauskas\", role = \"ctb\"), person(\"Jean-Olivier\", \"Irisson\", role = \"ctb\", comment = c(ORCID = \"0000-0003-4920-3880\")), person(\"Zhian N\", \"Kamvar\", role = \"ctb\", comment = c(ORCID = \"0000-0003-1458-7108\")), person(\"Thompson\", \"Ryan\", role = \"ctb\", comment = c(ORCID = \"0000-0002-0450-8181\")), person(\"Dervieux\", \"Christophe\", role = \"ctb\", comment = c(ORCID = \"0000-0003-4474-2498\")), person(\"Yutani\", \"Hiroaki\", role = \"ctb\"), person(\"Pierre\", \"Gramme\", role = \"ctb\"), person(\"Amir Masoud\", \"Abdol\", role = \"ctb\"), person(\"Malcolm\", \"Barrett\", role = \"ctb\", comment = c(ORCID = \"0000-0003-0299-5825\")), person(\"Robrecht\", \"Cannoodt\", role = \"ctb\", comment = c(ORCID = \"0000-0003-3641-729X\")), person(\"Michał\", \"Krassowski\", role = \"ctb\", comment = c(ORCID = \"0000-0002-9638-7785\")), person(\"Michael\", \"Chirico\", role = \"ctb\", comment = c(ORCID = \"0000-0003-0787-087X\")), person(\"Pedro\", \"Aphalo\", role = \"ctb\", comment = c(ORCID = \"0000-0003-3385-972X\")), person(\"Francis\", \"Barton\", role = \"ctb\") )", "Title": "Automatically Position Non-Overlapping Text Labels with 'ggplot2'", "Description": "Provides text and label geoms for 'ggplot2' that help to avoid overlapping text labels. Labels repel away from each other and away from the data points.", "Depends": [ - "R (>= 3.0.0)", - "ggplot2 (>= 2.2.0)" + "R (>= 4.5.0)", + "ggplot2 (>= 3.5.2)" ], "Imports": [ "grid", "Rcpp", - "rlang (>= 0.3.0)", - "scales (>= 0.5.0)", - "withr (>= 2.5.0)" + "rlang (>= 1.1.6)", + "S7", + "scales (>= 1.4.0)", + "withr (>= 3.0.2)" ], "Suggests": [ "knitr", @@ -2352,19 +2355,22 @@ "dplyr", "magrittr", "readr", - "stringr" + "stringr", + "marquee", + "rsvg", + "sf" ], "VignetteBuilder": "knitr", "License": "GPL-3 | file LICENSE", "URL": "https://ggrepel.slowkow.com/, https://github.com/slowkow/ggrepel", "BugReports": "https://github.com/slowkow/ggrepel/issues", - "RoxygenNote": "7.3.1", + "RoxygenNote": "7.3.3", "LinkingTo": [ "Rcpp" ], "Encoding": "UTF-8", "NeedsCompilation": "yes", - "Author": "Kamil Slowikowski [aut, cre] (), Alicia Schep [ctb] (), Sean Hughes [ctb] (), Trung Kien Dang [ctb] (), Saulius Lukauskas [ctb], Jean-Olivier Irisson [ctb] (), Zhian N Kamvar [ctb] (), Thompson Ryan [ctb] (), Dervieux Christophe [ctb] (), Yutani Hiroaki [ctb], Pierre Gramme [ctb], Amir Masoud Abdol [ctb], Malcolm Barrett [ctb] (), Robrecht Cannoodt [ctb] (), Michał Krassowski [ctb] (), Michael Chirico [ctb] (), Pedro Aphalo [ctb] (), Francis Barton [ctb]", + "Author": "Kamil Slowikowski [aut, cre] (ORCID: ), Teun van den Brand [ctb] (ORCID: ), Alicia Schep [ctb] (ORCID: ), Sean Hughes [ctb] (ORCID: ), Trung Kien Dang [ctb] (ORCID: ), Saulius Lukauskas [ctb], Jean-Olivier Irisson [ctb] (ORCID: ), Zhian N Kamvar [ctb] (ORCID: ), Thompson Ryan [ctb] (ORCID: ), Dervieux Christophe [ctb] (ORCID: ), Yutani Hiroaki [ctb], Pierre Gramme [ctb], Amir Masoud Abdol [ctb], Malcolm Barrett [ctb] (ORCID: ), Robrecht Cannoodt [ctb] (ORCID: ), Michał Krassowski [ctb] (ORCID: ), Michael Chirico [ctb] (ORCID: ), Pedro Aphalo [ctb] (ORCID: ), Francis Barton [ctb]", "Maintainer": "Kamil Slowikowski ", "Repository": "CRAN" }, @@ -2433,7 +2439,7 @@ "NeedsCompilation": "yes", "Author": "Jim Hester [aut] (), Jennifer Bryan [aut, cre] (), Posit Software, PBC [cph, fnd]", "Maintainer": "Jennifer Bryan ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "gridExtra": { "Package": "gridExtra", @@ -2574,7 +2580,7 @@ "NeedsCompilation": "no", "Author": "Hadley Wickham [aut], Thomas Lin Pedersen [aut, cre], Posit Software, PBC [cph, fnd]", "Maintainer": "Thomas Lin Pedersen ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "highr": { "Package": "highr", @@ -2604,7 +2610,7 @@ "NeedsCompilation": "no", "Author": "Yihui Xie [aut, cre] (), Yixuan Qiu [aut], Christopher Gandrud [ctb], Qiang Li [ctb]", "Maintainer": "Yihui Xie ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "hms": { "Package": "hms", @@ -2681,7 +2687,7 @@ "NeedsCompilation": "yes", "Author": "Joe Cheng [aut], Carson Sievert [aut, cre] (ORCID: ), Barret Schloerke [aut] (ORCID: ), Winston Chang [aut] (ORCID: ), Yihui Xie [aut], Jeff Allen [aut], Posit Software, PBC [cph, fnd]", "Maintainer": "Carson Sievert ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "htmlwidgets": { "Package": "htmlwidgets", @@ -2714,7 +2720,7 @@ "NeedsCompilation": "no", "Author": "Ramnath Vaidyanathan [aut, cph], Yihui Xie [aut], JJ Allaire [aut], Joe Cheng [aut], Carson Sievert [aut, cre] (), Kenton Russell [aut, cph], Ellis Hughes [ctb], Posit Software, PBC [cph, fnd]", "Maintainer": "Carson Sievert ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "httpuv": { "Package": "httpuv", @@ -2755,7 +2761,7 @@ "NeedsCompilation": "yes", "Author": "Joe Cheng [aut], Winston Chang [aut, cre], Posit, PBC fnd [cph], Hector Corrada Bravo [ctb], Jeroen Ooms [ctb], Andrzej Krzemienski [cph] (optional.hpp), libuv project contributors [cph] (libuv library, see src/libuv/AUTHORS file), Joyent, Inc. and other Node contributors [cph] (libuv library, see src/libuv/AUTHORS file; and http-parser library, see src/http-parser/AUTHORS file), Niels Provos [cph] (libuv subcomponent: tree.h), Internet Systems Consortium, Inc. [cph] (libuv subcomponent: inet_pton and inet_ntop, contained in src/libuv/src/inet.c), Alexander Chemeris [cph] (libuv subcomponent: stdint-msvc2008.h (from msinttypes)), Google, Inc. [cph] (libuv subcomponent: pthread-fixes.c), Sony Mobile Communcations AB [cph] (libuv subcomponent: pthread-fixes.c), Berkeley Software Design Inc. [cph] (libuv subcomponent: android-ifaddrs.h, android-ifaddrs.c), Kenneth MacKay [cph] (libuv subcomponent: android-ifaddrs.h, android-ifaddrs.c), Emergya (Cloud4all, FP7/2007-2013, grant agreement no 289016) [cph] (libuv subcomponent: android-ifaddrs.h, android-ifaddrs.c), Steve Reid [aut] (SHA-1 implementation), James Brown [aut] (SHA-1 implementation), Bob Trower [aut] (base64 implementation), Alexander Peslyak [aut] (MD5 implementation), Trantor Standard Systems [cph] (base64 implementation), Igor Sysoev [cph] (http-parser)", "Maintainer": "Winston Chang ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "httr": { "Package": "httr", @@ -3022,7 +3028,7 @@ "NeedsCompilation": "no", "Author": "Julia Silge [aut, cre] ()", "Maintainer": "Julia Silge ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "jquerylib": { "Package": "jquerylib", @@ -3044,7 +3050,7 @@ "NeedsCompilation": "no", "Author": "Carson Sievert [aut, cre] (), Joe Cheng [aut], RStudio [cph], jQuery Foundation [cph] (jQuery library and jQuery UI library), jQuery contributors [ctb, cph] (jQuery library; authors listed in inst/lib/jquery-AUTHORS.txt)", "Maintainer": "Carson Sievert ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "jsonlite": { "Package": "jsonlite", @@ -3074,7 +3080,7 @@ "Encoding": "UTF-8", "NeedsCompilation": "yes", "Author": "Jeroen Ooms [aut, cre] (), Duncan Temple Lang [ctb], Lloyd Hilaiel [cph] (author of bundled libyajl)", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "juicyjuice": { "Package": "juicyjuice", @@ -3209,12 +3215,11 @@ "stats", "graphics" ], - "Repository": "https://packagemanager.posit.co/cran/latest", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "later": { "Package": "later", - "Version": "1.4.6", + "Version": "1.4.8", "Source": "Repository", "Type": "Package", "Title": "Utilities for Scheduling Functions to Execute Later with Event Loops", @@ -3254,9 +3259,9 @@ }, "lattice": { "Package": "lattice", - "Version": "0.22-6", + "Version": "0.22-7", "Source": "Repository", - "Date": "2024-03-20", + "Date": "2025-03-31", "Priority": "recommended", "Title": "Trellis Graphics for R", "Authors@R": "c(person(\"Deepayan\", \"Sarkar\", role = c(\"aut\", \"cre\"), email = \"deepayan.sarkar@r-project.org\", comment = c(ORCID = \"0000-0003-4107-1553\")), person(\"Felix\", \"Andrews\", role = \"ctb\"), person(\"Kevin\", \"Wright\", role = \"ctb\", comment = \"documentation\"), person(\"Neil\", \"Klepeis\", role = \"ctb\"), person(\"Johan\", \"Larsson\", role = \"ctb\", comment = \"miscellaneous improvements\"), person(\"Zhijian (Jason)\", \"Wen\", role = \"cph\", comment = \"filled contour code\"), person(\"Paul\", \"Murrell\", role = \"ctb\", email = \"paul@stat.auckland.ac.nz\"), person(\"Stefan\", \"Eng\", role = \"ctb\", comment = \"violin plot improvements\"), person(\"Achim\", \"Zeileis\", role = \"ctb\", comment = \"modern colors\"), person(\"Alexandre\", \"Courtiol\", role = \"ctb\", comment = \"generics for larrows, lpolygon, lrect and lsegments\") )", @@ -3376,8 +3381,7 @@ "NeedsCompilation": "yes", "Author": "Hadley Wickham [aut, cre], RStudio [cph]", "Maintainer": "Hadley Wickham ", - "Repository": "https://packagemanager.posit.co/cran/latest", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "lifecycle": { "Package": "lifecycle", @@ -3614,7 +3618,7 @@ "NeedsCompilation": "no", "Author": "Hadley Wickham [aut], Jim Hester [aut], Winston Chang [aut, cre], Kirill Müller [aut], Daniel Cook [aut], Mark Edmondson [ctb]", "Maintainer": "Winston Chang ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "mime": { "Package": "mime", @@ -3635,7 +3639,7 @@ "NeedsCompilation": "yes", "Author": "Yihui Xie [aut, cre] (, https://yihui.org), Jeffrey Horner [ctb], Beilei Bian [ctb]", "Maintainer": "Yihui Xie ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "nnet": { "Package": "nnet", @@ -3726,7 +3730,7 @@ }, "openssl": { "Package": "openssl", - "Version": "2.3.4", + "Version": "2.3.5", "Source": "Repository", "Type": "Package", "Title": "Toolkit for Encryption, Signatures and Certificates Based on OpenSSL", @@ -3994,7 +3998,7 @@ "NeedsCompilation": "no", "Author": "Hadley Wickham [aut], Jim Hester [aut], Gábor Csárdi [aut, cre], Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Gábor Csárdi ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "RSPM" }, "pkgconfig": { "Package": "pkgconfig", @@ -4018,7 +4022,7 @@ "BugReports": "https://github.com/r-lib/pkgconfig/issues", "Encoding": "UTF-8", "NeedsCompilation": "no", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "pkgdown": { "Package": "pkgdown", @@ -4092,7 +4096,7 @@ }, "pkgload": { "Package": "pkgload", - "Version": "1.5.0", + "Version": "1.5.1", "Source": "Repository", "Title": "Simulate Package Installation and Attach", "Authors@R": "c( person(\"Hadley\", \"Wickham\", role = \"aut\"), person(\"Winston\", \"Chang\", role = \"aut\"), person(\"Jim\", \"Hester\", role = \"aut\"), person(\"Lionel\", \"Henry\", , \"lionel@posit.co\", role = c(\"aut\", \"cre\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")), person(\"R Core team\", role = \"ctb\", comment = \"Some namespace and vignette code extracted from base R\") )", @@ -4139,17 +4143,6 @@ "Maintainer": "Lionel Henry ", "Repository": "CRAN" }, - "plogr": { - "Package": "plogr", - "Version": "0.2.0", - "Source": "GitHub", - "RemoteType": "github", - "RemoteHost": "api.github.com", - "RemoteUsername": "krlmlr", - "RemoteRepo": "plogr", - "RemoteRef": "main", - "RemoteSha": "53a4fd487bee827bfeefd44d1418c3a2d3ac0c2a" - }, "plotly": { "Package": "plotly", "Version": "4.12.0", @@ -4262,7 +4255,7 @@ "NeedsCompilation": "yes", "Author": "Hadley Wickham [aut, cre]", "Maintainer": "Hadley Wickham ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "praise": { "Package": "praise", @@ -4281,7 +4274,8 @@ ], "Collate": "'adjective.R' 'adverb.R' 'exclamation.R' 'verb.R' 'rpackage.R' 'package.R'", "NeedsCompilation": "no", - "Repository": "CRAN" + "Repository": "RSPM", + "Encoding": "UTF-8" }, "prettyunits": { "Package": "prettyunits", @@ -4306,7 +4300,7 @@ "NeedsCompilation": "no", "Author": "Gabor Csardi [aut, cre], Bill Denney [ctb] (), Christophe Regouby [ctb]", "Maintainer": "Gabor Csardi ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "processx": { "Package": "processx", @@ -4346,7 +4340,7 @@ "NeedsCompilation": "yes", "Author": "Gábor Csárdi [aut, cre, cph] (), Winston Chang [aut], Posit Software, PBC [cph, fnd], Ascent Digital Services [cph, fnd]", "Maintainer": "Gábor Csárdi ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "prodlim": { "Package": "prodlim", @@ -4418,7 +4412,7 @@ "NeedsCompilation": "no", "Author": "Gábor Csárdi [aut, cre], Rich FitzJohn [aut], Posit Software, PBC [cph, fnd]", "Maintainer": "Gábor Csárdi ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "progressr": { "Package": "progressr", @@ -4578,7 +4572,7 @@ "NeedsCompilation": "yes", "Author": "Jay Loden [aut], Dave Daeschler [aut], Giampaolo Rodola' [aut], Gábor Csárdi [aut, cre], Posit Software, PBC [cph, fnd]", "Maintainer": "Gábor Csárdi ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "pubmedR": { "Package": "pubmedR", @@ -4833,29 +4827,31 @@ }, "readr": { "Package": "readr", - "Version": "2.1.6", + "Version": "2.2.0", "Source": "Repository", "Title": "Read Rectangular Text Data", - "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = \"aut\"), person(\"Jim\", \"Hester\", role = \"aut\"), person(\"Romain\", \"Francois\", role = \"ctb\"), person(\"Jennifer\", \"Bryan\", , \"jenny@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-6983-2759\")), person(\"Shelby\", \"Bearrows\", role = \"ctb\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")), person(\"https://github.com/mandreyel/\", role = \"cph\", comment = \"mio library\"), person(\"Jukka\", \"Jylänki\", role = c(\"ctb\", \"cph\"), comment = \"grisu3 implementation\"), person(\"Mikkel\", \"Jørgensen\", role = c(\"ctb\", \"cph\"), comment = \"grisu3 implementation\") )", + "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = \"aut\"), person(\"Jim\", \"Hester\", role = \"aut\"), person(\"Romain\", \"Francois\", role = \"ctb\"), person(\"Jennifer\", \"Bryan\", , \"jenny@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-6983-2759\")), person(\"Shelby\", \"Bearrows\", role = \"ctb\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")), person(\"https://github.com/mandreyel/\", role = \"cph\", comment = \"mio library\"), person(\"Jukka\", \"Jylänki\", role = c(\"ctb\", \"cph\"), comment = \"grisu3 implementation\"), person(\"Mikkel\", \"Jørgensen\", role = c(\"ctb\", \"cph\"), comment = \"grisu3 implementation\") )", "Description": "The goal of 'readr' is to provide a fast and friendly way to read rectangular data (like 'csv', 'tsv', and 'fwf'). It is designed to flexibly parse many types of data found in the wild, while still cleanly failing when data unexpectedly changes.", "License": "MIT + file LICENSE", "URL": "https://readr.tidyverse.org, https://github.com/tidyverse/readr", "BugReports": "https://github.com/tidyverse/readr/issues", "Depends": [ - "R (>= 3.6)" + "R (>= 4.1)" ], "Imports": [ - "cli (>= 3.2.0)", + "cli", "clipr", "crayon", + "glue", "hms (>= 0.4.1)", - "lifecycle (>= 0.2.0)", + "lifecycle", "methods", "R6", "rlang", "tibble", "utils", - "vroom (>= 1.6.0)" + "vroom (>= 1.7.0)", + "withr" ], "Suggests": [ "covr", @@ -4868,7 +4864,6 @@ "testthat (>= 3.2.0)", "tzdb (>= 0.1.1)", "waldo", - "withr", "xml2" ], "LinkingTo": [ @@ -4879,11 +4874,12 @@ "Config/Needs/website": "tidyverse, tidyverse/tidytemplate", "Config/testthat/edition": "3", "Config/testthat/parallel": "false", + "Config/usethis/last-upkeep": "2025-11-14", "Encoding": "UTF-8", "Language": "en-US", "RoxygenNote": "7.3.3", "NeedsCompilation": "yes", - "Author": "Hadley Wickham [aut], Jim Hester [aut], Romain Francois [ctb], Jennifer Bryan [aut, cre] (ORCID: ), Shelby Bearrows [ctb], Posit Software, PBC [cph, fnd], https://github.com/mandreyel/ [cph] (mio library), Jukka Jylänki [ctb, cph] (grisu3 implementation), Mikkel Jørgensen [ctb, cph] (grisu3 implementation)", + "Author": "Hadley Wickham [aut], Jim Hester [aut], Romain Francois [ctb], Jennifer Bryan [aut, cre] (ORCID: ), Shelby Bearrows [ctb], Posit Software, PBC [cph, fnd] (ROR: ), https://github.com/mandreyel/ [cph] (mio library), Jukka Jylänki [ctb, cph] (grisu3 implementation), Mikkel Jørgensen [ctb, cph] (grisu3 implementation)", "Maintainer": "Jennifer Bryan ", "Repository": "CRAN" }, @@ -4981,7 +4977,7 @@ }, "renv": { "Package": "renv", - "Version": "1.1.4", + "Version": "1.1.6", "Source": "Repository", "Type": "Package", "Title": "Project Environments", @@ -4999,7 +4995,9 @@ "compiler", "covr", "cpp11", + "curl", "devtools", + "generics", "gitcreds", "jsonlite", "jsonvalidate", @@ -5021,14 +5019,14 @@ "webfakes" ], "Encoding": "UTF-8", - "RoxygenNote": "7.3.2", + "RoxygenNote": "7.3.3", "VignetteBuilder": "knitr", "Config/Needs/website": "tidyverse/tidytemplate", "Config/testthat/edition": "3", "Config/testthat/parallel": "true", "Config/testthat/start-first": "bioconductor,python,install,restore,snapshot,retrieve,remotes", "NeedsCompilation": "no", - "Author": "Kevin Ushey [aut, cre] (), Hadley Wickham [aut] (), Posit Software, PBC [cph, fnd]", + "Author": "Kevin Ushey [aut, cre] (ORCID: ), Hadley Wickham [aut] (ORCID: ), Posit Software, PBC [cph, fnd]", "Maintainer": "Kevin Ushey ", "Repository": "CRAN" }, @@ -5199,7 +5197,7 @@ "NeedsCompilation": "no", "Author": "Kirill Müller [aut, cre] (ORCID: )", "Maintainer": "Kirill Müller ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "RSPM" }, "rscopus": { "Package": "rscopus", @@ -5280,7 +5278,7 @@ "NeedsCompilation": "yes", "Author": "Joe Cheng [aut], Timothy Mastny [aut], Richard Iannone [aut] (), Barret Schloerke [aut] (), Carson Sievert [aut, cre] (), Christophe Dervieux [ctb] (), RStudio [cph, fnd], Sass Open Source Foundation [ctb, cph] (LibSass library), Greter Marcel [ctb, cph] (LibSass library), Mifsud Michael [ctb, cph] (LibSass library), Hampton Catlin [ctb, cph] (LibSass library), Natalie Weizenbaum [ctb, cph] (LibSass library), Chris Eppstein [ctb, cph] (LibSass library), Adams Joseph [ctb, cph] (json.cpp), Trifunovic Nemanja [ctb, cph] (utf8.h)", "Maintainer": "Carson Sievert ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "scales": { "Package": "scales", @@ -5324,7 +5322,7 @@ "NeedsCompilation": "no", "Author": "Hadley Wickham [aut], Thomas Lin Pedersen [cre, aut] (), Dana Seidel [aut], Posit Software, PBC [cph, fnd] (03wc8by49)", "Maintainer": "Thomas Lin Pedersen ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "shape": { "Package": "shape", @@ -5348,18 +5346,18 @@ }, "shiny": { "Package": "shiny", - "Version": "1.12.1", + "Version": "1.13.0", "Source": "Repository", "Type": "Package", "Title": "Web Application Framework for R", "Authors@R": "c( person(\"Winston\", \"Chang\", , \"winston@posit.co\", role = \"aut\", comment = c(ORCID = \"0000-0002-1576-2126\")), person(\"Joe\", \"Cheng\", , \"joe@posit.co\", role = \"aut\"), person(\"JJ\", \"Allaire\", , \"jj@posit.co\", role = \"aut\"), person(\"Carson\", \"Sievert\", , \"carson@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-4958-2844\")), person(\"Barret\", \"Schloerke\", , \"barret@posit.co\", role = \"aut\", comment = c(ORCID = \"0000-0001-9986-114X\")), person(\"Garrick\", \"Aden-Buie\", , \"garrick@adenbuie.com\", role = \"aut\", comment = c(ORCID = \"0000-0002-7111-0077\")), person(\"Yihui\", \"Xie\", , \"yihui@posit.co\", role = \"aut\"), person(\"Jeff\", \"Allen\", role = \"aut\"), person(\"Jonathan\", \"McPherson\", , \"jonathan@posit.co\", role = \"aut\"), person(\"Alan\", \"Dipert\", role = \"aut\"), person(\"Barbara\", \"Borges\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")), person(, \"jQuery Foundation\", role = \"cph\", comment = \"jQuery library and jQuery UI library\"), person(, \"jQuery contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery library; authors listed in inst/www/shared/jquery-AUTHORS.txt\"), person(, \"jQuery UI contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery UI library; authors listed in inst/www/shared/jqueryui/AUTHORS.txt\"), person(\"Mark\", \"Otto\", role = \"ctb\", comment = \"Bootstrap library\"), person(\"Jacob\", \"Thornton\", role = \"ctb\", comment = \"Bootstrap library\"), person(, \"Bootstrap contributors\", role = \"ctb\", comment = \"Bootstrap library\"), person(, \"Twitter, Inc\", role = \"cph\", comment = \"Bootstrap library\"), person(\"Prem Nawaz\", \"Khan\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Victor\", \"Tsaran\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Dennis\", \"Lembree\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Srinivasu\", \"Chakravarthula\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Cathy\", \"O'Connor\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(, \"PayPal, Inc\", role = \"cph\", comment = \"Bootstrap accessibility plugin\"), person(\"Stefan\", \"Petre\", role = c(\"ctb\", \"cph\"), comment = \"Bootstrap-datepicker library\"), person(\"Andrew\", \"Rowls\", role = c(\"ctb\", \"cph\"), comment = \"Bootstrap-datepicker library\"), person(\"Brian\", \"Reavis\", role = c(\"ctb\", \"cph\"), comment = \"selectize.js library\"), person(\"Salmen\", \"Bejaoui\", role = c(\"ctb\", \"cph\"), comment = \"selectize-plugin-a11y library\"), person(\"Denis\", \"Ineshin\", role = c(\"ctb\", \"cph\"), comment = \"ion.rangeSlider library\"), person(\"Sami\", \"Samhuri\", role = c(\"ctb\", \"cph\"), comment = \"Javascript strftime library\"), person(, \"SpryMedia Limited\", role = c(\"ctb\", \"cph\"), comment = \"DataTables library\"), person(\"Ivan\", \"Sagalaev\", role = c(\"ctb\", \"cph\"), comment = \"highlight.js library\"), person(\"R Core Team\", role = c(\"ctb\", \"cph\"), comment = \"tar implementation from R\") )", "Description": "Makes it incredibly easy to build interactive web applications with R. Automatic \"reactive\" binding between inputs and outputs and extensive prebuilt widgets make it possible to build beautiful, responsive, and powerful applications with minimal effort.", - "License": "GPL-3 | file LICENSE", + "License": "MIT + file LICENSE", "URL": "https://shiny.posit.co/, https://github.com/rstudio/shiny", "BugReports": "https://github.com/rstudio/shiny/issues", "Depends": [ "methods", - "R (>= 3.0.2)" + "R (>= 3.1.2)" ], "Imports": [ "bslib (>= 0.6.0)", @@ -5455,7 +5453,7 @@ "NeedsCompilation": "no", "Author": "Victor Perrier [aut, cre, cph], Fanny Meyer [aut], David Granjon [aut], Ian Fellows [ctb] (Methods for mutating vertical tabs & updateMultiInput), Wil Davis [ctb] (numericRangeInput function), Spencer Matthews [ctb] (autoNumeric methods), JavaScript and CSS libraries authors [ctb, cph] (All authors are listed in LICENSE.md)", "Maintainer": "Victor Perrier ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "shinyalert": { "Package": "shinyalert", @@ -5484,7 +5482,7 @@ "NeedsCompilation": "no", "Author": "Dean Attali [aut, cre] (, R interface), Tristan Edwards [aut] (sweetalert library), Zhengjia Wang [ctb]", "Maintainer": "Dean Attali ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "shinybusy": { "Package": "shinybusy", @@ -5546,7 +5544,7 @@ "NeedsCompilation": "no", "Author": "Dean Attali [aut, cre] (Maintainer/developer of shinycssloaders since 2019, ), Andras Sali [aut] (Original creator of shinycssloaders package), Luke Hass [ctb, cph] (Author of included CSS loader code)", "Maintainer": "Dean Attali ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "shinyjs": { "Package": "shinyjs", @@ -5623,7 +5621,7 @@ "BugReports": "https://github.com/kevinushey/sourcetools/issues", "Encoding": "UTF-8", "NeedsCompilation": "yes", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "stringdist": { "Package": "stringdist", @@ -5681,7 +5679,7 @@ "Author": "Marek Gagolewski [aut, cre, cph] (), Bartek Tartanus [ctb], Unicode, Inc. and others [ctb] (ICU4C source code, Unicode Character Database)", "Maintainer": "Marek Gagolewski ", "License_is_FOSS": "yes", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "stringr": { "Package": "stringr", @@ -5810,7 +5808,7 @@ "NeedsCompilation": "yes", "Author": "Jeroen Ooms [aut, cre] (), Gábor Csárdi [ctb]", "Maintainer": "Jeroen Ooms ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "systemfonts": { "Package": "systemfonts", @@ -6123,7 +6121,7 @@ "NeedsCompilation": "yes", "Author": "Lionel Henry [aut, cre], Hadley Wickham [aut], Posit Software, PBC [cph, fnd]", "Maintainer": "Lionel Henry ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "tidytext": { "Package": "tidytext", @@ -6279,7 +6277,7 @@ "NeedsCompilation": "yes", "Author": "Lincoln Mullen [aut, cre] (), Os Keyes [ctb] (), Dmitriy Selivanov [ctb], Jeffrey Arnold [ctb] (), Kenneth Benoit [ctb] ()", "Maintainer": "Lincoln Mullen ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "tzdb": { "Package": "tzdb", @@ -6309,7 +6307,7 @@ "NeedsCompilation": "yes", "Author": "Davis Vaughan [aut, cre], Howard Hinnant [cph] (Author of the included date library), Posit Software, PBC [cph, fnd]", "Maintainer": "Davis Vaughan ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "utf8": { "Package": "utf8", @@ -6340,7 +6338,7 @@ "NeedsCompilation": "yes", "Author": "Patrick O. Perry [aut, cph], Kirill Müller [cre] (ORCID: ), Unicode, Inc. [cph, dtc] (Unicode Character Database)", "Maintainer": "Kirill Müller ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "uuid": { "Package": "uuid", @@ -6646,7 +6644,7 @@ "NeedsCompilation": "no", "Author": "Jim Hester [aut], Lionel Henry [aut, cre], Kirill Müller [aut], Kevin Ushey [aut], Hadley Wickham [aut], Winston Chang [aut], Jennifer Bryan [ctb], Richard Cotton [ctb], Posit Software, PBC [cph, fnd]", "Maintainer": "Lionel Henry ", - "Repository": "https://packagemanager.posit.co/cran/latest" + "Repository": "CRAN" }, "xfun": { "Package": "xfun", @@ -6738,21 +6736,23 @@ }, "xtable": { "Package": "xtable", - "Version": "1.8-4", + "Version": "1.8-8", "Source": "Repository", - "Date": "2019-04-08", + "Date": "2026-02-20", "Title": "Export Tables to LaTeX or HTML", "Authors@R": "c(person(\"David B.\", \"Dahl\", role=\"aut\"), person(\"David\", \"Scott\", role=c(\"aut\",\"cre\"), email=\"d.scott@auckland.ac.nz\"), person(\"Charles\", \"Roosen\", role=\"aut\"), person(\"Arni\", \"Magnusson\", role=\"aut\"), person(\"Jonathan\", \"Swinton\", role=\"aut\"), person(\"Ajay\", \"Shah\", role=\"ctb\"), person(\"Arne\", \"Henningsen\", role=\"ctb\"), person(\"Benno\", \"Puetz\", role=\"ctb\"), person(\"Bernhard\", \"Pfaff\", role=\"ctb\"), person(\"Claudio\", \"Agostinelli\", role=\"ctb\"), person(\"Claudius\", \"Loehnert\", role=\"ctb\"), person(\"David\", \"Mitchell\", role=\"ctb\"), person(\"David\", \"Whiting\", role=\"ctb\"), person(\"Fernando da\", \"Rosa\", role=\"ctb\"), person(\"Guido\", \"Gay\", role=\"ctb\"), person(\"Guido\", \"Schulz\", role=\"ctb\"), person(\"Ian\", \"Fellows\", role=\"ctb\"), person(\"Jeff\", \"Laake\", role=\"ctb\"), person(\"John\", \"Walker\", role=\"ctb\"), person(\"Jun\", \"Yan\", role=\"ctb\"), person(\"Liviu\", \"Andronic\", role=\"ctb\"), person(\"Markus\", \"Loecher\", role=\"ctb\"), person(\"Martin\", \"Gubri\", role=\"ctb\"), person(\"Matthieu\", \"Stigler\", role=\"ctb\"), person(\"Robert\", \"Castelo\", role=\"ctb\"), person(\"Seth\", \"Falcon\", role=\"ctb\"), person(\"Stefan\", \"Edwards\", role=\"ctb\"), person(\"Sven\", \"Garbade\", role=\"ctb\"), person(\"Uwe\", \"Ligges\", role=\"ctb\"))", "Maintainer": "David Scott ", "Imports": [ "stats", - "utils" + "utils", + "methods" ], "Suggests": [ "knitr", - "plm", "zoo", - "survival" + "survival", + "glue", + "tinytex" ], "VignetteBuilder": "knitr", "Description": "Coerce data to LaTeX and HTML tables.", @@ -6761,10 +6761,9 @@ "R (>= 2.10.0)" ], "License": "GPL (>= 2)", - "Repository": "https://packagemanager.posit.co/cran/latest", + "Repository": "CRAN", "NeedsCompilation": "no", - "Author": "David B. Dahl [aut], David Scott [aut, cre], Charles Roosen [aut], Arni Magnusson [aut], Jonathan Swinton [aut], Ajay Shah [ctb], Arne Henningsen [ctb], Benno Puetz [ctb], Bernhard Pfaff [ctb], Claudio Agostinelli [ctb], Claudius Loehnert [ctb], David Mitchell [ctb], David Whiting [ctb], Fernando da Rosa [ctb], Guido Gay [ctb], Guido Schulz [ctb], Ian Fellows [ctb], Jeff Laake [ctb], John Walker [ctb], Jun Yan [ctb], Liviu Andronic [ctb], Markus Loecher [ctb], Martin Gubri [ctb], Matthieu Stigler [ctb], Robert Castelo [ctb], Seth Falcon [ctb], Stefan Edwards [ctb], Sven Garbade [ctb], Uwe Ligges [ctb]", - "Encoding": "UTF-8" + "Author": "David B. Dahl [aut], David Scott [aut, cre], Charles Roosen [aut], Arni Magnusson [aut], Jonathan Swinton [aut], Ajay Shah [ctb], Arne Henningsen [ctb], Benno Puetz [ctb], Bernhard Pfaff [ctb], Claudio Agostinelli [ctb], Claudius Loehnert [ctb], David Mitchell [ctb], David Whiting [ctb], Fernando da Rosa [ctb], Guido Gay [ctb], Guido Schulz [ctb], Ian Fellows [ctb], Jeff Laake [ctb], John Walker [ctb], Jun Yan [ctb], Liviu Andronic [ctb], Markus Loecher [ctb], Martin Gubri [ctb], Matthieu Stigler [ctb], Robert Castelo [ctb], Seth Falcon [ctb], Stefan Edwards [ctb], Sven Garbade [ctb], Uwe Ligges [ctb]" }, "yaml": { "Package": "yaml", diff --git a/renv/activate.R b/renv/activate.R index 90b251c..4eba67c 100644 --- a/renv/activate.R +++ b/renv/activate.R @@ -2,7 +2,8 @@ local({ # the requested version of renv - version <- "1.1.4" + version <- "1.1.6" + attr(version, "md5") <- "3036c4b273d882c56e8cdd660ebaf6f0" attr(version, "sha") <- NULL # the project directory @@ -215,6 +216,16 @@ local({ section <- header(sprintf("Bootstrapping renv %s", friendly)) catf(section) + # try to install renv from cache + md5 <- attr(version, "md5", exact = TRUE) + if (length(md5)) { + pkgpath <- renv_bootstrap_find(version) + if (length(pkgpath) && file.exists(pkgpath)) { + file.copy(pkgpath, library, recursive = TRUE) + return(invisible()) + } + } + # attempt to download renv catf("- Downloading renv ... ", appendLF = FALSE) withCallingHandlers( @@ -240,7 +251,6 @@ local({ # add empty line to break up bootstrapping from normal output catf("") - return(invisible()) } @@ -256,14 +266,22 @@ local({ # check for repos override repos <- Sys.getenv("RENV_CONFIG_REPOS_OVERRIDE", unset = NA) if (!is.na(repos)) { - - # check for RSPM; if set, use a fallback repository for renv - rspm <- Sys.getenv("RSPM", unset = NA) - if (identical(rspm, repos)) - repos <- c(RSPM = rspm, CRAN = cran) - - return(repos) - + + # split on ';' if present + parts <- strsplit(repos, ";", fixed = TRUE)[[1L]] + + # split into named repositories if present + idx <- regexpr("=", parts, fixed = TRUE) + keys <- substring(parts, 1L, idx - 1L) + vals <- substring(parts, idx + 1L) + names(vals) <- keys + + # if we have a single unnamed repository, call it CRAN + if (length(vals) == 1L && identical(keys, "")) + names(vals) <- "CRAN" + + return(vals) + } # check for lockfile repositories @@ -511,6 +529,45 @@ local({ } + renv_bootstrap_find <- function(version) { + + path <- renv_bootstrap_find_cache(version) + if (length(path) && file.exists(path)) { + catf("- Using renv %s from global package cache", version) + return(path) + } + + } + + renv_bootstrap_find_cache <- function(version) { + + md5 <- attr(version, "md5", exact = TRUE) + if (is.null(md5)) + return() + + # infer path to renv cache + cache <- Sys.getenv("RENV_PATHS_CACHE", unset = "") + if (!nzchar(cache)) { + tools <- asNamespace("tools") + if (is.function(tools$R_user_dir)) { + root <- tools$R_user_dir("renv", "cache") + cache <- file.path(root, "cache") + } + } + + # start completing path to cache + file.path( + cache, + renv_bootstrap_cache_version(), + renv_bootstrap_platform_prefix(), + "renv", + version, + md5, + "renv" + ) + + } + renv_bootstrap_download_tarball <- function(version) { # if the user has provided the path to a tarball via @@ -1181,6 +1238,18 @@ local({ } + renv_bootstrap_cache_version <- function() { + # NOTE: users should normally not override the cache version; + # this is provided just to make testing easier + Sys.getenv("RENV_CACHE_VERSION", unset = "v5") + } + + renv_bootstrap_cache_version_previous <- function() { + version <- renv_bootstrap_cache_version() + number <- as.integer(substring(version, 2L)) + paste("v", number - 1L, sep = "") + } + renv_json_read <- function(file = NULL, text = NULL) { jlerr <- NULL From 3ad1151147c18a3f87ad33de515c63367a2f33bc Mon Sep 17 00:00:00 2001 From: Trevor Riley Date: Mon, 6 Apr 2026 09:27:07 -0400 Subject: [PATCH 08/12] update badge --- DESCRIPTION | 2 +- README.md | 1 + 2 files changed, 2 insertions(+), 1 deletion(-) diff --git a/DESCRIPTION b/DESCRIPTION index aefed3a..e216255 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -70,4 +70,4 @@ RoxygenNote: 7.2.3 Depends: R (>= 3.5.0) Remotes: - camaradesuk/ASySD, + camaradesuk/ASySD diff --git a/README.md b/README.md index a1bcef1..3bd3f88 100644 --- a/README.md +++ b/README.md @@ -6,6 +6,7 @@ [![R-CMD-check](https://github.com/ESHackathon/CiteSource/workflows/R-CMD-Check/badge.svg)](https://github.com/ESHackathon/CiteSource/actions) [![Status](https://img.shields.io/badge/Status-Active-brightgreen)](https://github.com/ESHackathon/CiteSource) [![License: GPL v3](https://img.shields.io/badge/License-GPLv3-blue.svg)](https://www.gnu.org/licenses/gpl-3.0) +[![DOI](https://img.shields.io/badge/DOI-10.1038/s41586--020--2649--2-blue)](https://doi.org/10.1017/rsm.2026.10084) ## About the Package From a1d5ec29154ce3dc8465a4e152a16819e36ae2ee Mon Sep 17 00:00:00 2001 From: Trevor Riley Date: Mon, 6 Apr 2026 09:33:49 -0400 Subject: [PATCH 09/12] test plogr remotes addition --- DESCRIPTION | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/DESCRIPTION b/DESCRIPTION index e216255..f0821df 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -70,4 +70,5 @@ RoxygenNote: 7.2.3 Depends: R (>= 3.5.0) Remotes: - camaradesuk/ASySD + camaradesuk/ASySD, + krlmlr/plogr From 8bb33afb73f1cbc214372c0de254d9183a753c69 Mon Sep 17 00:00:00 2001 From: Trevor Riley Date: Mon, 6 Apr 2026 09:37:07 -0400 Subject: [PATCH 10/12] test plogr on suggests --- DESCRIPTION | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/DESCRIPTION b/DESCRIPTION index f0821df..7817cc4 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -60,7 +60,8 @@ Suggests: progressr, shinybusy, shinyWidgets, - testthat (>= 3.0.0) + testthat (>= 3.0.0), + plogr VignetteBuilder: knitr Config/testthat/edition: 3 From 072ea81d3bc1ad88a664aebdd5f27856e72c074d Mon Sep 17 00:00:00 2001 From: Trevor Riley Date: Mon, 6 Apr 2026 09:44:16 -0400 Subject: [PATCH 11/12] plogr fix with archive tar --- DESCRIPTION | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/DESCRIPTION b/DESCRIPTION index 7817cc4..47cea2c 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -72,4 +72,4 @@ Depends: R (>= 3.5.0) Remotes: camaradesuk/ASySD, - krlmlr/plogr + url::https://cran.r-project.org/src/contrib/Archive/plogr/plogr_0.2.0.tar.gz From ec2b26c6d97c6b442026ea750124466c62051c2d Mon Sep 17 00:00:00 2001 From: Trevor Riley Date: Mon, 6 Apr 2026 09:46:23 -0400 Subject: [PATCH 12/12] plogr fix --- DESCRIPTION | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/DESCRIPTION b/DESCRIPTION index 47cea2c..7859773 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -72,4 +72,4 @@ Depends: R (>= 3.5.0) Remotes: camaradesuk/ASySD, - url::https://cran.r-project.org/src/contrib/Archive/plogr/plogr_0.2.0.tar.gz + plogr=url::https://cran.r-project.org/src/contrib/Archive/plogr/plogr_0.2.0.tar.gz