From 47b6bd887c050898322978cc6b3c1a17563c1ea5 Mon Sep 17 00:00:00 2001 From: Andree Valle Campos Date: Tue, 19 Aug 2025 15:55:00 +0300 Subject: [PATCH 1/2] replace argument to exclude vaccination in new_infections() sync up with https://github.com/epiverse-trace/epidemics/issues/256 --- episodes/modelling-interventions.Rmd | 6 ++--- episodes/vaccine-comparisons.Rmd | 38 ++++++++++++++-------------- learners/BF_measles.Rmd | 2 +- 3 files changed, 23 insertions(+), 23 deletions(-) diff --git a/episodes/modelling-interventions.Rmd b/episodes/modelling-interventions.Rmd index 2b7597e1..9a5bb842 100644 --- a/episodes/modelling-interventions.Rmd +++ b/episodes/modelling-interventions.Rmd @@ -440,7 +440,7 @@ From the plot, we see that the peak number of total number of infectious individ :::::::::::::::::::::::::::::::::::::::::::::::: Lastly, if you want to plot new infections from an `epidemics::model_default()` that includes a `vaccination` intervention, you need to add one argument to `epidemics::new_infections()`: -Set `compartments_from_susceptible = "vaccinated"` to tell the function that people moving from "susceptible" to "vaccinated" are not becoming infected. This ensures vaccinated individuals aren't counted as infections. +Set `exclude_compartments = "vaccinated"` to tell the function that people moving from "susceptible" to "vaccinated" are not becoming infected. This ensures vaccinated individuals aren't counted as infections. ::::::::::::::::::::: spoiler @@ -449,13 +449,13 @@ Note that if we add `by_group = FALSE` in `epidemics::new_infections()`, we get ```{r} infections_baseline <- epidemics::new_infections( data = output_baseline, - compartments_from_susceptible = "vaccinated", # if vaccination + exclude_compartments = "vaccinated", # if vaccination by_group = FALSE ) infections_intervention <- epidemics::new_infections( data = output_vaccinate, - compartments_from_susceptible = "vaccinated", # if vaccination + exclude_compartments = "vaccinated", # if vaccination by_group = FALSE ) diff --git a/episodes/vaccine-comparisons.Rmd b/episodes/vaccine-comparisons.Rmd index 65fe7ab0..7750d408 100644 --- a/episodes/vaccine-comparisons.Rmd +++ b/episodes/vaccine-comparisons.Rmd @@ -304,14 +304,14 @@ To understand the **indirect** effect of vaccinations, we want to know the effec The inputs required are : + `data` : the model output, -+ `compartments_from_susceptible` : this is an optional input, but in our case needed. We don't want the number of people vaccinated to be counted as new infections, so we need to specify the name of the model compartment where individuals transition out from `susceptible` (in this example `vaccinated`), ++ `exclude_compartments` : this is an optional input, but in our case needed. We don't want the number of people vaccinated to be counted as new infections, so we need to specify the name of the model compartment where individuals transition out from `susceptible` (in this example `vaccinated`), + `by_group` : should the results be calculated for each demographic group separately. ```{r} vaccinate_01_infections <- epidemics::new_infections( output_vaccinate_01, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) ``` @@ -325,17 +325,17 @@ vaccinate_01_infections <- epidemics::new_infections( # calculate new infections baseline_infections <- epidemics::new_infections( output_baseline, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) vaccinate_01_infections <- epidemics::new_infections( output_vaccinate_01, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) vaccinate_02_infections <- epidemics::new_infections( output_vaccinate_02, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) @@ -385,17 +385,17 @@ infections %>% # calculate new infections baseline_infections <- epidemics::new_infections( output_baseline, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) vaccinate_01_infections <- epidemics::new_infections( output_vaccinate_01, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) vaccinate_02_infections <- epidemics::new_infections( output_vaccinate_02, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) @@ -578,17 +578,17 @@ output_vaccinate_group_3 <- epidemics::model_default( vaccinate_group_1_infections <- epidemics::new_infections( output_vaccinate_group_1, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) vaccinate_group_2_infections <- epidemics::new_infections( output_vaccinate_group_2, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) vaccinate_group_3_infections <- epidemics::new_infections( output_vaccinate_group_3, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) @@ -702,17 +702,17 @@ output_vaccinate_group_3 <- epidemics::model_default( vaccinate_group_1_infections <- epidemics::new_infections( output_vaccinate_group_1, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) vaccinate_group_2_infections <- epidemics::new_infections( output_vaccinate_group_2, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) vaccinate_group_3_infections <- epidemics::new_infections( output_vaccinate_group_3, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = FALSE ) @@ -789,7 +789,7 @@ To convert infections to deaths, we will need new infections by age group, so we ```{r} vaccinate_group_1_age <- epidemics::new_infections( output_vaccinate_group_1, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = TRUE ) @@ -808,7 +808,7 @@ vaccinate_group_1_deaths <- vaccinate_01_age <- epidemics::new_infections( output_vaccinate_01, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = TRUE ) @@ -823,7 +823,7 @@ vaccinate_01_deaths <- vaccinate_group_2_age <- epidemics::new_infections( output_vaccinate_group_2, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = TRUE ) @@ -838,7 +838,7 @@ vaccinate_group_2_deaths <- vaccinate_group_3_age <- epidemics::new_infections( output_vaccinate_group_3, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = TRUE ) @@ -854,7 +854,7 @@ vaccinate_group_3_deaths <- baseline_age <- epidemics::new_infections( output_baseline, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = TRUE ) diff --git a/learners/BF_measles.Rmd b/learners/BF_measles.Rmd index 0892683c..7b6440bd 100644 --- a/learners/BF_measles.Rmd +++ b/learners/BF_measles.Rmd @@ -769,7 +769,7 @@ controlling the epidemic. # Load new infections data for each scenario data_vaccine <- epidemics::new_infections( output3, - compartments_from_susceptible = "vaccinated", + exclude_compartments = "vaccinated", by_group = TRUE ) From 1daee9c48d6208a7f9a2908f035a5132887bd898 Mon Sep 17 00:00:00 2001 From: Andree Valle Campos Date: Tue, 19 Aug 2025 16:19:51 +0300 Subject: [PATCH 2/2] update to latest epidemics version in github --- renv/profiles/lesson-requirements/renv.lock | 113 ++++++++------------ 1 file changed, 47 insertions(+), 66 deletions(-) diff --git a/renv/profiles/lesson-requirements/renv.lock b/renv/profiles/lesson-requirements/renv.lock index 3babacbc..9e594f57 100644 --- a/renv/profiles/lesson-requirements/renv.lock +++ b/renv/profiles/lesson-requirements/renv.lock @@ -24,8 +24,7 @@ "NeedsCompilation": "no", "Author": "Dirk Eddelbuettel [aut, cre] (), John W. Emerson [aut], Michael J. Kane [aut] ()", "Maintainer": "Dirk Eddelbuettel ", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "DBI": { "Package": "DBI", @@ -250,15 +249,14 @@ "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": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "Rcpp": { "Package": "Rcpp", - "Version": "1.1.0", + "Version": "1.0.14", "Source": "Repository", "Title": "Seamless R and C++ Integration", - "Date": "2025-07-01", + "Date": "2025-01-11", "Authors@R": "c(person(\"Dirk\", \"Eddelbuettel\", role = c(\"aut\", \"cre\"), email = \"edd@debian.org\", comment = c(ORCID = \"0000-0001-6419-907X\")), person(\"Romain\", \"Francois\", role = \"aut\", comment = c(ORCID = \"0000-0002-2444-4226\")), person(\"JJ\", \"Allaire\", role = \"aut\", comment = c(ORCID = \"0000-0003-0174-9868\")), person(\"Kevin\", \"Ushey\", role = \"aut\", comment = c(ORCID = \"0000-0003-2880-7407\")), person(\"Qiang\", \"Kou\", role = \"aut\", comment = c(ORCID = \"0000-0001-6786-5453\")), person(\"Nathan\", \"Russell\", role = \"aut\"), person(\"Iñaki\", \"Ucar\", role = \"aut\", comment = c(ORCID = \"0000-0001-6403-5550\")), person(\"Doug\", \"Bates\", role = \"aut\", comment = c(ORCID = \"0000-0001-8316-9503\")), person(\"John\", \"Chambers\", role = \"aut\"))", "Description": "The 'Rcpp' package provides R functions as well as C++ classes which offer a seamless integration of R and C++. Many R data types and objects can be mapped back and forth to C++ equivalents which facilitates both writing of new code as well as easier integration of third-party libraries. Documentation about 'Rcpp' is provided by several vignettes included in this package, via the 'Rcpp Gallery' site at , the paper by Eddelbuettel and Francois (2011, ), the book by Eddelbuettel (2013, ) and the paper by Eddelbuettel and Balamuta (2018, ); see 'citation(\"Rcpp\")' for details.", "Imports": [ @@ -278,7 +276,7 @@ "RoxygenNote": "6.1.1", "Encoding": "UTF-8", "NeedsCompilation": "yes", - "Author": "Dirk Eddelbuettel [aut, cre] (ORCID: ), Romain Francois [aut] (ORCID: ), JJ Allaire [aut] (ORCID: ), Kevin Ushey [aut] (ORCID: ), Qiang Kou [aut] (ORCID: ), Nathan Russell [aut], Iñaki Ucar [aut] (ORCID: ), Doug Bates [aut] (ORCID: ), John Chambers [aut]", + "Author": "Dirk Eddelbuettel [aut, cre] (), Romain Francois [aut] (), JJ Allaire [aut] (), Kevin Ushey [aut] (), Qiang Kou [aut] (), Nathan Russell [aut], Iñaki Ucar [aut] (), Doug Bates [aut] (), John Chambers [aut]", "Maintainer": "Dirk Eddelbuettel ", "Repository": "CRAN" }, @@ -317,12 +315,11 @@ "NeedsCompilation": "yes", "Author": "Doug Bates [aut] (), Dirk Eddelbuettel [aut, cre] (), Romain Francois [aut] (), Yixuan Qiu [aut] (), Authors of Eigen [cph] (Authorship and copyright in included Eigen library as detailed in inst/COPYRIGHTS)", "Maintainer": "Dirk Eddelbuettel ", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "V8": { "Package": "V8", - "Version": "6.0.5", + "Version": "6.0.4", "Source": "Repository", "Type": "Package", "Title": "Embedded JavaScript and WebAssembly Engine for R", @@ -420,8 +417,7 @@ "License": "GPL-2 | GPL-3", "URL": "http://www.rforge.net/base64enc", "NeedsCompilation": "yes", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "bit": { "Package": "bit", @@ -523,17 +519,17 @@ }, "broom": { "Package": "broom", - "Version": "1.0.9", + "Version": "1.0.8", "Source": "Repository", "Type": "Package", "Title": "Convert Statistical Objects into Tidy Tibbles", - "Authors@R": "c( person(\"David\", \"Robinson\", , \"admiral.david@gmail.com\", 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role = \"ctb\", comment = c(ORCID = \"0000-0001-9373-2726\")), person(\"R. Willem\", \"Vervoort\", , \"Willemvervoort@gmail.com\", role = \"ctb\"), person(\"Brenton M.\", \"Wiernik\", , \"brenton@wiernik.org\", role = \"ctb\"), person(\"Josh\", \"Yamamoto\", , \"joshuayamamoto5@gmail.com\", role = \"ctb\"), person(\"Jasme\", \"Lee\", role = \"ctb\"), person(\"Taren\", \"Sanders\", , \"taren.sanders@acu.edu.au\", role = \"ctb\", comment = c(ORCID = \"0000-0002-4504-6008\")), person(\"Ilaria\", \"Prosdocimi\", , \"prosdocimi.ilaria@gmail.com\", role = \"ctb\", comment = c(ORCID = \"0000-0001-8565-094X\")), person(\"Daniel D.\", \"Sjoberg\", , \"danield.sjoberg@gmail.com\", role = \"ctb\", comment = c(ORCID = \"0000-0003-0862-2018\")), person(\"Alex\", \"Reinhart\", , \"areinhar@stat.cmu.edu\", role = \"ctb\", comment = c(ORCID = \"0000-0002-6658-514X\")) )", - "Description": "Summarizes key information about statistical objects in tidy tibbles. This makes it easy to report results, create plots and consistently work with large numbers of models at once. Broom provides three verbs that each provide different types of information about a model. tidy() summarizes information about model components such as coefficients of a regression. glance() reports information about an entire model, such as goodness of fit measures like AIC and BIC. augment() adds information about individual observations to a dataset, such as fitted values or influence measures.", + "Authors@R": "c(person(given = \"David\", family = \"Robinson\", role = \"aut\", email = \"admiral.david@gmail.com\"), person(given = \"Alex\", family = \"Hayes\", role = \"aut\", email = \"alexpghayes@gmail.com\", comment = c(ORCID = \"0000-0002-4985-5160\")), person(given = \"Simon\", family = \"Couch\", role = c(\"aut\", \"cre\"), email = \"simon.couch@posit.co\", comment = c(ORCID = \"0000-0001-5676-5107\")), person(given = \"Posit Software, PBC\", role = c(\"cph\", \"fnd\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"ctb\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Derek\", family = \"Chiu\", role = \"ctb\", email = \"dchiu@bccrc.ca\"), person(given = \"Matthieu\", family = \"Gomez\", role = \"ctb\", email = \"mattg@princeton.edu\"), person(given = \"Boris\", family = \"Demeshev\", role = \"ctb\", email = \"boris.demeshev@gmail.com\"), person(given = \"Dieter\", family = \"Menne\", role = \"ctb\", email = \"dieter.menne@menne-biomed.de\"), person(given = \"Benjamin\", family = \"Nutter\", role = \"ctb\", email = \"nutter@battelle.org\"), person(given = \"Luke\", family = \"Johnston\", role = \"ctb\", email = \"luke.johnston@mail.utoronto.ca\"), person(given = \"Ben\", family = \"Bolker\", role = \"ctb\", email = \"bolker@mcmaster.ca\"), person(given = \"Francois\", family = \"Briatte\", role = \"ctb\", email = \"f.briatte@gmail.com\"), person(given = \"Jeffrey\", family = \"Arnold\", role = \"ctb\", email = \"jeffrey.arnold@gmail.com\"), person(given = \"Jonah\", family = \"Gabry\", role = \"ctb\", email = \"jsg2201@columbia.edu\"), person(given = \"Luciano\", family = \"Selzer\", role = \"ctb\", email = \"luciano.selzer@gmail.com\"), person(given = \"Gavin\", family = \"Simpson\", role = \"ctb\", email = \"ucfagls@gmail.com\"), person(given = \"Jens\", family = \"Preussner\", role = \"ctb\", email = \" jens.preussner@mpi-bn.mpg.de\"), person(given = \"Jay\", family = \"Hesselberth\", role = \"ctb\", email = \"jay.hesselberth@gmail.com\"), person(given = \"Hadley\", family = \"Wickham\", role = \"ctb\", email = \"hadley@posit.co\"), person(given = \"Matthew\", family = \"Lincoln\", role = \"ctb\", email = \"matthew.d.lincoln@gmail.com\"), person(given = \"Alessandro\", family = \"Gasparini\", role = \"ctb\", email = \"ag475@leicester.ac.uk\"), person(given = \"Lukasz\", family = \"Komsta\", role = \"ctb\", email = \"lukasz.komsta@umlub.pl\"), person(given = \"Frederick\", family = \"Novometsky\", role = \"ctb\"), person(given = \"Wilson\", family = \"Freitas\", role = \"ctb\"), person(given = \"Michelle\", family = \"Evans\", role = \"ctb\"), person(given = \"Jason Cory\", family = \"Brunson\", role = \"ctb\", email = \"cornelioid@gmail.com\"), person(given = \"Simon\", family = \"Jackson\", role = \"ctb\", email = \"drsimonjackson@gmail.com\"), person(given = \"Ben\", family = \"Whalley\", role = \"ctb\", email = \"ben.whalley@plymouth.ac.uk\"), person(given = \"Karissa\", family = \"Whiting\", role = \"ctb\", email = \"karissa.whiting@gmail.com\"), person(given = \"Yves\", family = \"Rosseel\", role = \"ctb\", email = \"yrosseel@gmail.com\"), person(given = \"Michael\", family = \"Kuehn\", role = \"ctb\", email = \"mkuehn10@gmail.com\"), person(given = \"Jorge\", family = \"Cimentada\", role = \"ctb\", email = \"cimentadaj@gmail.com\"), person(given = \"Erle\", family = \"Holgersen\", role = \"ctb\", email = \"erle.holgersen@gmail.com\"), person(given = \"Karl\", family = \"Dunkle Werner\", role = \"ctb\", comment = c(ORCID = \"0000-0003-0523-7309\")), person(given = \"Ethan\", family = \"Christensen\", role = \"ctb\", email = \"christensen.ej@gmail.com\"), person(given = \"Steven\", family = \"Pav\", role = \"ctb\", email = \"shabbychef@gmail.com\"), person(given = \"Paul\", family = \"PJ\", role = \"ctb\", email = \"pjpaul.stephens@gmail.com\"), person(given = \"Ben\", family = \"Schneider\", role = \"ctb\", email = \"benjamin.julius.schneider@gmail.com\"), person(given = \"Patrick\", family = \"Kennedy\", role = \"ctb\", email = \"pkqstr@protonmail.com\"), person(given = \"Lily\", family = \"Medina\", role = \"ctb\", email = \"lilymiru@gmail.com\"), person(given = \"Brian\", family = \"Fannin\", role = \"ctb\", email = \"captain@pirategrunt.com\"), person(given = \"Jason\", family = \"Muhlenkamp\", role = \"ctb\", email = \"jason.muhlenkamp@gmail.com\"), person(given = \"Matt\", family = \"Lehman\", role = \"ctb\"), person(given = \"Bill\", family = \"Denney\", role = \"ctb\", email = \"wdenney@humanpredictions.com\", comment = c(ORCID = \"0000-0002-5759-428X\")), person(given = \"Nic\", family = \"Crane\", role = \"ctb\"), person(given = \"Andrew\", family = \"Bates\", role = \"ctb\"), person(given = \"Vincent\", family = \"Arel-Bundock\", role = \"ctb\", email = \"vincent.arel-bundock@umontreal.ca\", comment = c(ORCID = \"0000-0003-2042-7063\")), person(given = \"Hideaki\", family = \"Hayashi\", role = \"ctb\"), person(given = \"Luis\", family = \"Tobalina\", role = \"ctb\"), person(given = \"Annie\", family = \"Wang\", role = \"ctb\", email = \"anniewang.uc@gmail.com\"), person(given = \"Wei Yang\", family = \"Tham\", role = \"ctb\", email = \"weiyang.tham@gmail.com\"), person(given = \"Clara\", family = \"Wang\", role = \"ctb\", email = \"clara.wang.94@gmail.com\"), person(given = \"Abby\", family = \"Smith\", role = \"ctb\", email = \"als1@u.northwestern.edu\", comment = c(ORCID = \"0000-0002-3207-0375\")), person(given = \"Jasper\", family = \"Cooper\", role = \"ctb\", email = \"jaspercooper@gmail.com\", comment = c(ORCID = \"0000-0002-8639-3188\")), person(given = \"E Auden\", family = \"Krauska\", role = \"ctb\", email = \"krauskae@gmail.com\", comment = c(ORCID = \"0000-0002-1466-5850\")), person(given = \"Alex\", family = \"Wang\", role = \"ctb\", email = \"x249wang@uwaterloo.ca\"), person(given = \"Malcolm\", family = \"Barrett\", role = \"ctb\", email = \"malcolmbarrett@gmail.com\", comment = c(ORCID = \"0000-0003-0299-5825\")), person(given = \"Charles\", family = \"Gray\", role = \"ctb\", email = \"charlestigray@gmail.com\", comment = c(ORCID = \"0000-0002-9978-011X\")), person(given = \"Jared\", family = \"Wilber\", role = \"ctb\"), person(given = \"Vilmantas\", family = \"Gegzna\", role = \"ctb\", email = \"GegznaV@gmail.com\", comment = c(ORCID = \"0000-0002-9500-5167\")), person(given = \"Eduard\", family = \"Szoecs\", role = \"ctb\", email = \"eduardszoecs@gmail.com\"), person(given = \"Frederik\", family = \"Aust\", role = \"ctb\", email = \"frederik.aust@uni-koeln.de\", comment = c(ORCID = \"0000-0003-4900-788X\")), person(given = \"Angus\", family = \"Moore\", role = \"ctb\", email = \"angusmoore9@gmail.com\"), person(given = \"Nick\", family = \"Williams\", role = \"ctb\", email = \"ntwilliams.personal@gmail.com\"), person(given = \"Marius\", family = \"Barth\", role = \"ctb\", email = \"marius.barth.uni.koeln@gmail.com\", comment = c(ORCID = \"0000-0002-3421-6665\")), person(given = \"Bruna\", family = \"Wundervald\", role = \"ctb\", email = \"brunadaviesw@gmail.com\", comment = c(ORCID = \"0000-0001-8163-220X\")), person(given = \"Joyce\", family = \"Cahoon\", role = \"ctb\", email = \"joyceyu48@gmail.com\", comment = c(ORCID = \"0000-0001-7217-4702\")), person(given = \"Grant\", family = \"McDermott\", role = \"ctb\", email = \"grantmcd@uoregon.edu\", comment = c(ORCID = \"0000-0001-7883-8573\")), person(given = \"Kevin\", family = \"Zarca\", role = \"ctb\", email = \"kevin.zarca@gmail.com\"), person(given = \"Shiro\", family = \"Kuriwaki\", role = \"ctb\", email = \"shirokuriwaki@gmail.com\", comment = c(ORCID = \"0000-0002-5687-2647\")), person(given = \"Lukas\", family = \"Wallrich\", role = \"ctb\", email = \"lukas.wallrich@gmail.com\", comment = c(ORCID = \"0000-0003-2121-5177\")), person(given = \"James\", family = \"Martherus\", role = \"ctb\", email = \"james@martherus.com\", comment = c(ORCID = \"0000-0002-8285-3300\")), person(given = \"Chuliang\", family = \"Xiao\", role = \"ctb\", email = \"cxiao@umich.edu\", comment = c(ORCID = \"0000-0002-8466-9398\")), person(given = \"Joseph\", family = \"Larmarange\", role = \"ctb\", email = \"joseph@larmarange.net\"), person(given = \"Max\", family = \"Kuhn\", role = \"ctb\", email = \"max@posit.co\"), person(given = \"Michal\", family = \"Bojanowski\", role = \"ctb\", email = \"michal2992@gmail.com\"), person(given = \"Hakon\", family = \"Malmedal\", role = \"ctb\", email = \"hmalmedal@gmail.com\"), person(given = \"Clara\", family = \"Wang\", role = \"ctb\"), person(given = \"Sergio\", family = \"Oller\", role = \"ctb\", email = \"sergioller@gmail.com\"), person(given = \"Luke\", family = \"Sonnet\", role = \"ctb\", email = \"luke.sonnet@gmail.com\"), person(given = \"Jim\", family = \"Hester\", role = \"ctb\", email = \"jim.hester@posit.co\"), person(given = \"Ben\", family = \"Schneider\", role = \"ctb\", email = \"benjamin.julius.schneider@gmail.com\"), person(given = \"Bernie\", family = \"Gray\", role = \"ctb\", email = \"bfgray3@gmail.com\", comment = c(ORCID = \"0000-0001-9190-6032\")), person(given = \"Mara\", family = \"Averick\", role = \"ctb\", email = \"mara@posit.co\"), person(given = \"Aaron\", family = \"Jacobs\", role = \"ctb\", email = \"atheriel@gmail.com\"), person(given = \"Andreas\", family = \"Bender\", role = \"ctb\", email = \"bender.at.R@gmail.com\"), person(given = \"Sven\", family = \"Templer\", role = \"ctb\", email = \"sven.templer@gmail.com\"), person(given = \"Paul-Christian\", family = \"Buerkner\", role = \"ctb\", email = \"paul.buerkner@gmail.com\"), person(given = \"Matthew\", family = \"Kay\", role = \"ctb\", email = \"mjskay@umich.edu\"), person(given = \"Erwan\", family = \"Le Pennec\", role = \"ctb\", email = \"lepennec@gmail.com\"), person(given = \"Johan\", family = \"Junkka\", role = \"ctb\", email = \"johan.junkka@umu.se\"), person(given = \"Hao\", family = \"Zhu\", role = \"ctb\", email = \"haozhu233@gmail.com\"), person(given = \"Benjamin\", family = \"Soltoff\", role = \"ctb\", email = \"soltoffbc@uchicago.edu\"), person(given = \"Zoe\", family = \"Wilkinson Saldana\", role = \"ctb\", email = \"zoewsaldana@gmail.com\"), person(given = \"Tyler\", family = \"Littlefield\", role = \"ctb\", email = \"tylurp1@gmail.com\"), person(given = \"Charles T.\", family = \"Gray\", role = \"ctb\", email = \"charlestigray@gmail.com\"), person(given = \"Shabbh E.\", family = \"Banks\", role = \"ctb\"), person(given = \"Serina\", family = \"Robinson\", role = \"ctb\", email = \"robi0916@umn.edu\"), person(given = \"Roger\", family = \"Bivand\", role = \"ctb\", email = \"Roger.Bivand@nhh.no\"), person(given = \"Riinu\", family = \"Ots\", role = \"ctb\", email = \"riinuots@gmail.com\"), person(given = \"Nicholas\", family = \"Williams\", role = \"ctb\", email = \"ntwilliams.personal@gmail.com\"), person(given = \"Nina\", family = \"Jakobsen\", role = \"ctb\"), person(given = \"Michael\", family = \"Weylandt\", role = \"ctb\", email = \"michael.weylandt@gmail.com\"), person(given = \"Lisa\", family = \"Lendway\", role = \"ctb\", email = \"llendway@macalester.edu\"), person(given = \"Karl\", family = \"Hailperin\", role = \"ctb\", email = \"khailper@gmail.com\"), person(given = \"Josue\", family = \"Rodriguez\", role = \"ctb\", email = \"jerrodriguez@ucdavis.edu\"), person(given = \"Jenny\", family = \"Bryan\", role = \"ctb\", email = \"jenny@posit.co\"), person(given = \"Chris\", family = \"Jarvis\", role = \"ctb\", email = \"Christopher1.jarvis@gmail.com\"), person(given = \"Greg\", family = \"Macfarlane\", role = \"ctb\", email = \"gregmacfarlane@gmail.com\"), person(given = \"Brian\", family = \"Mannakee\", role = \"ctb\", email = \"bmannakee@gmail.com\"), person(given = \"Drew\", family = \"Tyre\", role = \"ctb\", email = \"atyre2@unl.edu\"), person(given = \"Shreyas\", family = \"Singh\", role = \"ctb\", email = \"shreyas.singh.298@gmail.com\"), person(given = \"Laurens\", family = \"Geffert\", role = \"ctb\", email = \"laurensgeffert@gmail.com\"), person(given = \"Hong\", family = \"Ooi\", role = \"ctb\", email = \"hongooi@microsoft.com\"), person(given = \"Henrik\", family = \"Bengtsson\", role = \"ctb\", email = \"henrikb@braju.com\"), person(given = \"Eduard\", family = \"Szocs\", role = \"ctb\", email = \"eduardszoecs@gmail.com\"), person(given = \"David\", family = \"Hugh-Jones\", role = \"ctb\", email = \"davidhughjones@gmail.com\"), person(given = \"Matthieu\", family = \"Stigler\", role = \"ctb\", email = \"Matthieu.Stigler@gmail.com\"), person(given = \"Hugo\", family = \"Tavares\", role = \"ctb\", email = \"hm533@cam.ac.uk\", comment = c(ORCID = \"0000-0001-9373-2726\")), person(given = \"R. Willem\", family = \"Vervoort\", role = \"ctb\", email = \"Willemvervoort@gmail.com\"), person(given = \"Brenton M.\", family = \"Wiernik\", role = \"ctb\", email = \"brenton@wiernik.org\"), person(given = \"Josh\", family = \"Yamamoto\", role = \"ctb\", email = \"joshuayamamoto5@gmail.com\"), person(given = \"Jasme\", family = \"Lee\", role = \"ctb\"), person(given = \"Taren\", family = \"Sanders\", role = \"ctb\", email = \"taren.sanders@acu.edu.au\", comment = c(ORCID = \"0000-0002-4504-6008\")), person(given = \"Ilaria\", family = \"Prosdocimi\", role = \"ctb\", email = \"prosdocimi.ilaria@gmail.com\", comment = c(ORCID = \"0000-0001-8565-094X\")), person(given = \"Daniel D.\", family = \"Sjoberg\", role = \"ctb\", email = \"danield.sjoberg@gmail.com\", comment = c(ORCID = \"0000-0003-0862-2018\")), person(given = \"Alex\", family = \"Reinhart\", role = \"ctb\", email = \"areinhar@stat.cmu.edu\", comment = c(ORCID = \"0000-0002-6658-514X\")))", + "Description": "Summarizes key information about statistical objects in tidy tibbles. This makes it easy to report results, create plots and consistently work with large numbers of models at once. Broom provides three verbs that each provide different types of information about a model. tidy() summarizes information about model components such as coefficients of a regression. glance() reports information about an entire model, such as goodness of fit measures like AIC and BIC. augment() adds information about individual observations to a dataset, such as fitted values or influence measures.", "License": "MIT + file LICENSE", "URL": "https://broom.tidymodels.org/, https://github.com/tidymodels/broom", "BugReports": "https://github.com/tidymodels/broom/issues", "Depends": [ - "R (>= 4.1)" + "R (>= 3.5)" ], "Imports": [ "backports", @@ -567,7 +563,7 @@ "drc", "e1071", "emmeans", - "epiR (>= 2.0.85)", + "epiR", "ergm (>= 3.10.4)", "fixest (>= 0.9.0)", "gam (>= 1.15)", @@ -578,8 +574,8 @@ "glmnetUtils", "gmm", "Hmisc", - "interp", "irlba", + "interp", "joineRML", "Kendall", "knitr", @@ -618,8 +614,8 @@ "robustbase", "rsample", "sandwich", - "spatialreg", "spdep (>= 1.1)", + "spatialreg", "speedglm", "spelling", "survey", @@ -632,14 +628,13 @@ ], "VignetteBuilder": "knitr", "Config/Needs/website": "tidyverse/tidytemplate", - "Config/testthat/edition": "3", - "Config/usethis/last-upkeep": "2025-04-25", "Encoding": "UTF-8", - "Language": "en-US", "RoxygenNote": "7.3.2", + "Language": "en-US", "Collate": "'aaa-documentation-helper.R' 'null-and-default.R' 'aer.R' 'auc.R' 'base.R' 'bbmle.R' 'betareg.R' 'biglm.R' 'bingroup.R' 'boot.R' 'broom-package.R' 'broom.R' 'btergm.R' 'car.R' 'caret.R' 'cluster.R' 'cmprsk.R' 'data-frame.R' 'deprecated-0-7-0.R' 'drc.R' 'emmeans.R' 'epiR.R' 'ergm.R' 'fixest.R' 'gam.R' 'geepack.R' 'glmnet-cv-glmnet.R' 'glmnet-glmnet.R' 'gmm.R' 'hmisc.R' 'import-standalone-obj-type.R' 'import-standalone-types-check.R' 'joinerml.R' 'kendall.R' 'ks.R' 'lavaan.R' 'leaps.R' 'lfe.R' 'list-irlba.R' 'list-optim.R' 'list-svd.R' 'list-xyz.R' 'list.R' 'lm-beta.R' 'lmodel2.R' 'lmtest.R' 'maps.R' 'margins.R' 'mass-fitdistr.R' 'mass-negbin.R' 'mass-polr.R' 'mass-ridgelm.R' 'stats-lm.R' 'mass-rlm.R' 'mclust.R' 'mediation.R' 'metafor.R' 'mfx.R' 'mgcv.R' 'mlogit.R' 'muhaz.R' 'multcomp.R' 'nnet.R' 'nobs.R' 'ordinal-clm.R' 'ordinal-clmm.R' 'plm.R' 'polca.R' 'psych.R' 'stats-nls.R' 'quantreg-nlrq.R' 'quantreg-rq.R' 'quantreg-rqs.R' 'robust-glmrob.R' 'robust-lmrob.R' 'robustbase-glmrob.R' 'robustbase-lmrob.R' 'sp.R' 'spdep.R' 'speedglm-speedglm.R' 'speedglm-speedlm.R' 'stats-anova.R' 'stats-arima.R' 'stats-decompose.R' 'stats-factanal.R' 'stats-glm.R' 'stats-htest.R' 'stats-kmeans.R' 'stats-loess.R' 'stats-mlm.R' 'stats-prcomp.R' 'stats-smooth.spline.R' 'stats-summary-lm.R' 'stats-time-series.R' 'survey.R' 'survival-aareg.R' 'survival-cch.R' 'survival-coxph.R' 'survival-pyears.R' 'survival-survdiff.R' 'survival-survexp.R' 'survival-survfit.R' 'survival-survreg.R' 'systemfit.R' 'tseries.R' 'utilities.R' 'vars.R' 'zoo.R' 'zzz.R'", + "Config/testthat/edition": "3", "NeedsCompilation": "no", - "Author": "David Robinson [aut], Alex Hayes [aut] (ORCID: ), Simon Couch [aut, cre] (ORCID: ), Posit Software, PBC [cph, fnd] (ROR: ), Indrajeet Patil [ctb] (ORCID: ), Derek Chiu [ctb], Matthieu Gomez [ctb], Boris Demeshev [ctb], Dieter Menne [ctb], Benjamin Nutter [ctb], Luke Johnston [ctb], Ben Bolker [ctb], Francois Briatte [ctb], Jeffrey Arnold [ctb], Jonah Gabry [ctb], Luciano Selzer [ctb], Gavin Simpson [ctb], Jens Preussner [ctb], Jay Hesselberth [ctb], Hadley Wickham [ctb], Matthew Lincoln [ctb], Alessandro Gasparini [ctb], Lukasz Komsta [ctb], Frederick Novometsky [ctb], Wilson Freitas [ctb], Michelle Evans [ctb], Jason Cory Brunson [ctb], Simon Jackson [ctb], Ben Whalley [ctb], Karissa Whiting [ctb], Yves Rosseel [ctb], Michael Kuehn [ctb], Jorge Cimentada [ctb], Erle Holgersen [ctb], Karl Dunkle Werner [ctb] (ORCID: ), Ethan Christensen [ctb], Steven Pav [ctb], Paul PJ [ctb], Ben Schneider [ctb], Patrick Kennedy [ctb], Lily Medina [ctb], Brian Fannin [ctb], Jason Muhlenkamp [ctb], Matt Lehman [ctb], Bill Denney [ctb] (ORCID: ), Nic Crane [ctb], Andrew Bates [ctb], Vincent Arel-Bundock [ctb] (ORCID: ), Hideaki Hayashi [ctb], Luis Tobalina [ctb], Annie Wang [ctb], Wei Yang Tham [ctb], Clara Wang [ctb], Abby Smith [ctb] (ORCID: ), Jasper Cooper [ctb] (ORCID: ), E Auden Krauska [ctb] (ORCID: ), Alex Wang [ctb], Malcolm Barrett [ctb] (ORCID: ), Charles Gray [ctb] (ORCID: ), Jared Wilber [ctb], Vilmantas Gegzna [ctb] (ORCID: ), Eduard Szoecs [ctb], Frederik Aust [ctb] (ORCID: ), Angus Moore [ctb], Nick Williams [ctb], Marius Barth [ctb] (ORCID: ), Bruna Wundervald [ctb] (ORCID: ), Joyce Cahoon [ctb] (ORCID: ), Grant McDermott [ctb] (ORCID: ), Kevin Zarca [ctb], Shiro Kuriwaki [ctb] (ORCID: ), Lukas Wallrich [ctb] (ORCID: ), James Martherus [ctb] (ORCID: ), Chuliang Xiao [ctb] (ORCID: ), Joseph Larmarange [ctb], Max Kuhn [ctb], Michal Bojanowski [ctb], Hakon Malmedal [ctb], Clara Wang [ctb], Sergio Oller [ctb], Luke Sonnet [ctb], Jim Hester [ctb], Ben Schneider [ctb], Bernie Gray [ctb] (ORCID: ), Mara Averick [ctb], Aaron Jacobs [ctb], Andreas Bender [ctb], Sven Templer [ctb], Paul-Christian Buerkner [ctb], Matthew Kay [ctb], Erwan Le Pennec [ctb], Johan Junkka [ctb], Hao Zhu [ctb], Benjamin Soltoff [ctb], Zoe Wilkinson Saldana [ctb], Tyler Littlefield [ctb], Charles T. Gray [ctb], Shabbh E. Banks [ctb], Serina Robinson [ctb], Roger Bivand [ctb], Riinu Ots [ctb], Nicholas Williams [ctb], Nina Jakobsen [ctb], Michael Weylandt [ctb], Lisa Lendway [ctb], Karl Hailperin [ctb], Josue Rodriguez [ctb], Jenny Bryan [ctb], Chris Jarvis [ctb], Greg Macfarlane [ctb], Brian Mannakee [ctb], Drew Tyre [ctb], Shreyas Singh [ctb], Laurens Geffert [ctb], Hong Ooi [ctb], Henrik Bengtsson [ctb], Eduard Szocs [ctb], David Hugh-Jones [ctb], Matthieu Stigler [ctb], Hugo Tavares [ctb] (ORCID: ), R. Willem Vervoort [ctb], Brenton M. Wiernik [ctb], Josh Yamamoto [ctb], Jasme Lee [ctb], Taren Sanders [ctb] (ORCID: ), Ilaria Prosdocimi [ctb] (ORCID: ), Daniel D. Sjoberg [ctb] (ORCID: ), Alex Reinhart [ctb] (ORCID: )", + "Author": "David Robinson [aut], Alex Hayes [aut] (), Simon Couch [aut, cre] (), Posit Software, PBC [cph, fnd], Indrajeet Patil [ctb] (), Derek Chiu [ctb], Matthieu Gomez [ctb], Boris Demeshev [ctb], Dieter Menne [ctb], Benjamin Nutter [ctb], Luke Johnston [ctb], Ben Bolker [ctb], Francois Briatte [ctb], Jeffrey Arnold [ctb], Jonah Gabry [ctb], Luciano Selzer [ctb], Gavin Simpson [ctb], Jens Preussner [ctb], Jay Hesselberth [ctb], Hadley Wickham [ctb], Matthew Lincoln [ctb], Alessandro Gasparini [ctb], Lukasz Komsta [ctb], Frederick Novometsky [ctb], Wilson Freitas [ctb], Michelle Evans [ctb], Jason Cory Brunson [ctb], Simon Jackson [ctb], Ben Whalley [ctb], Karissa Whiting [ctb], Yves Rosseel [ctb], Michael Kuehn [ctb], Jorge Cimentada [ctb], Erle Holgersen [ctb], Karl Dunkle Werner [ctb] (), Ethan Christensen [ctb], Steven Pav [ctb], Paul PJ [ctb], Ben Schneider [ctb], Patrick Kennedy [ctb], Lily Medina [ctb], Brian Fannin [ctb], Jason Muhlenkamp [ctb], Matt Lehman [ctb], Bill Denney [ctb] (), Nic Crane [ctb], Andrew Bates [ctb], Vincent Arel-Bundock [ctb] (), Hideaki Hayashi [ctb], Luis Tobalina [ctb], Annie Wang [ctb], Wei Yang Tham [ctb], Clara Wang [ctb], Abby Smith [ctb] (), Jasper Cooper [ctb] (), E Auden Krauska [ctb] (), Alex Wang [ctb], Malcolm Barrett [ctb] (), Charles Gray [ctb] (), Jared Wilber [ctb], Vilmantas Gegzna [ctb] (), Eduard Szoecs [ctb], Frederik Aust [ctb] (), Angus Moore [ctb], Nick Williams [ctb], Marius Barth [ctb] (), Bruna Wundervald [ctb] (), Joyce Cahoon [ctb] (), Grant McDermott [ctb] (), Kevin Zarca [ctb], Shiro Kuriwaki [ctb] (), Lukas Wallrich [ctb] (), James Martherus [ctb] (), Chuliang Xiao [ctb] (), Joseph Larmarange [ctb], Max Kuhn [ctb], Michal Bojanowski [ctb], Hakon Malmedal [ctb], Clara Wang [ctb], Sergio Oller [ctb], Luke Sonnet [ctb], Jim Hester [ctb], Ben Schneider [ctb], Bernie Gray [ctb] (), Mara Averick [ctb], Aaron Jacobs [ctb], Andreas Bender [ctb], Sven Templer [ctb], Paul-Christian Buerkner [ctb], Matthew Kay [ctb], Erwan Le Pennec [ctb], Johan Junkka [ctb], Hao Zhu [ctb], Benjamin Soltoff [ctb], Zoe Wilkinson Saldana [ctb], Tyler Littlefield [ctb], Charles T. Gray [ctb], Shabbh E. Banks [ctb], Serina Robinson [ctb], Roger Bivand [ctb], Riinu Ots [ctb], Nicholas Williams [ctb], Nina Jakobsen [ctb], Michael Weylandt [ctb], Lisa Lendway [ctb], Karl Hailperin [ctb], Josue Rodriguez [ctb], Jenny Bryan [ctb], Chris Jarvis [ctb], Greg Macfarlane [ctb], Brian Mannakee [ctb], Drew Tyre [ctb], Shreyas Singh [ctb], Laurens Geffert [ctb], Hong Ooi [ctb], Henrik Bengtsson [ctb], Eduard Szocs [ctb], David Hugh-Jones [ctb], Matthieu Stigler [ctb], Hugo Tavares [ctb] (), R. Willem Vervoort [ctb], Brenton M. Wiernik [ctb], Josh Yamamoto [ctb], Jasme Lee [ctb], Taren Sanders [ctb] (), Ilaria Prosdocimi [ctb] (), Daniel D. Sjoberg [ctb] (), Alex Reinhart [ctb] ()", "Maintainer": "Simon Couch ", "Repository": "CRAN" }, @@ -795,8 +790,7 @@ "NeedsCompilation": "no", "Author": "Jennifer Bryan [cre, aut], Hadley Wickham [ctb]", "Maintainer": "Jennifer Bryan ", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "cffr": { "Package": "cffr", @@ -1166,7 +1160,7 @@ }, "data.table": { "Package": "data.table", - "Version": "1.17.8", + "Version": "1.17.6", "Source": "Repository", "Title": "Extension of `data.frame`", "Depends": [ @@ -1285,8 +1279,7 @@ "URL": "http://desolve.r-forge.r-project.org/", "LazyData": "yes", "NeedsCompilation": "yes", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "desc": { "Package": "desc", @@ -1375,8 +1368,7 @@ "NeedsCompilation": "no", "Author": "Steph Locke [cre], Rich FitzJohn [aut], Anne Cori [aut], Thibaut Jombart [aut]", "Maintainer": "Steph Locke ", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "distributional": { "Package": "distributional", @@ -1574,14 +1566,16 @@ "Language": "en-GB", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.2", - "Author": "Pratik Gupte [aut, cph] (ORCID: ), Rosalind Eggo [aut, cph, cre] (ORCID: ), Edwin Van Leeuwen [aut, cph] (ORCID: ), Adam Kucharski [ctb, rev] (ORCID: ), Tim Taylor [ctb, rev] (ORCID: ), Banky Ahadzie [ctb], Alexis Robert [ctb] (ORCID: ), Hugo Gruson [rev] (ORCID: ), Joshua W. Lambert [rev] (ORCID: ), James M. Azam [rev] (ORCID: ), Alexis Robert [rev] (ORCID: )", - "Maintainer": "Rosalind Eggo ", "RemoteType": "github", - "RemoteUsername": "epiverse-trace", + "RemoteHost": "api.github.com", "RemoteRepo": "epidemics", + "RemoteUsername": "epiverse-trace", + "RemotePkgRef": "epiverse-trace/epidemics", "RemoteRef": "HEAD", - "RemoteSha": "d19bbd931ba7a488847497b5b819fe8f58937a9f", - "RemoteHost": "api.github.com" + "RemoteSha": "376ac8fa2602f2d3c75f947e874476fd16dedd5b", + "NeedsCompilation": "yes", + "Author": "Pratik Gupte [aut, cph] (ORCID: ), Rosalind Eggo [aut, cph, cre] (ORCID: ), Edwin Van Leeuwen [aut, cph] (ORCID: ), Adam Kucharski [ctb, rev] (ORCID: ), Tim Taylor [ctb, rev] (ORCID: ), Banky Ahadzie [ctb], Alexis Robert [ctb] (ORCID: ), Hugo Gruson [rev] (ORCID: ), Joshua W. Lambert [rev] (ORCID: ), James M. Azam [rev] (ORCID: ), Alexis Robert [rev] (ORCID: )", + "Maintainer": "Rosalind Eggo " }, "epiparameter": { "Package": "epiparameter", @@ -2505,8 +2499,7 @@ "NeedsCompilation": "no", "Author": "Rich FitzJohn [aut, cre]", "Maintainer": "Rich FitzJohn ", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "igraph": { "Package": "igraph", @@ -2772,8 +2765,7 @@ "stats", "graphics" ], - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "lattice": { "Package": "lattice", @@ -2812,8 +2804,7 @@ "NeedsCompilation": "yes", "Author": "Deepayan Sarkar [aut, cre] (), Felix Andrews [ctb], Kevin Wright [ctb] (documentation), Neil Klepeis [ctb], Johan Larsson [ctb] (miscellaneous improvements), Zhijian (Jason) Wen [cph] (filled contour code), Paul Murrell [ctb], Stefan Eng [ctb] (violin plot improvements), Achim Zeileis [ctb] (modern colors), Alexandre Courtiol [ctb] (generics for larrows, lpolygon, lrect and lsegments)", "Maintainer": "Deepayan Sarkar ", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "lifecycle": { "Package": "lifecycle", @@ -2994,8 +2985,7 @@ "NeedsCompilation": "yes", "Author": "Simon Wood [aut, cre]", "Maintainer": "Simon Wood ", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "mime": { "Package": "mime", @@ -3108,8 +3098,7 @@ "Maintainer": "Paul Gilbert ", "URL": "http://optimizer.r-forge.r-project.org/", "NeedsCompilation": "no", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "oai": { "Package": "oai", @@ -3221,7 +3210,7 @@ }, "pillar": { "Package": "pillar", - "Version": "1.11.0", + "Version": "1.10.2", "Source": "Repository", "Title": "Coloured Formatting for Columns", "Authors@R": "c(person(given = \"Kirill\", family = \"M\\u00fcller\", role = c(\"aut\", \"cre\"), email = \"kirill@cynkra.com\", comment = c(ORCID = \"0000-0002-1416-3412\")), person(given = \"Hadley\", family = \"Wickham\", role = \"aut\"), person(given = \"RStudio\", role = \"cph\"))", @@ -3272,7 +3261,7 @@ "Config/gha/extra-packages": "units=?ignore-before-r=4.3.0", "Config/Needs/website": "tidyverse/tidytemplate", "NeedsCompilation": "no", - "Author": "Kirill Müller [aut, cre] (ORCID: ), Hadley Wickham [aut], RStudio [cph]", + "Author": "Kirill Müller [aut, cre] (), Hadley Wickham [aut], RStudio [cph]", "Maintainer": "Kirill Müller ", "Repository": "CRAN" }, @@ -3476,16 +3465,16 @@ }, "purrr": { "Package": "purrr", - "Version": "1.1.0", + "Version": "1.0.4", "Source": "Repository", "Title": "Functional Programming Tools", - "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-4757-117X\")), person(\"Lionel\", \"Henry\", , \"lionel@posit.co\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"https://ror.org/03wc8by49\")) )", + "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-4757-117X\")), person(\"Lionel\", \"Henry\", , \"lionel@posit.co\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", "Description": "A complete and consistent functional programming toolkit for R.", "License": "MIT + file LICENSE", "URL": "https://purrr.tidyverse.org/, https://github.com/tidyverse/purrr", "BugReports": "https://github.com/tidyverse/purrr/issues", "Depends": [ - "R (>= 4.1)" + "R (>= 4.0)" ], "Imports": [ "cli (>= 3.6.1)", @@ -3495,13 +3484,11 @@ "vctrs (>= 0.6.3)" ], "Suggests": [ - "carrier (>= 0.2.0)", "covr", "dplyr (>= 0.7.8)", "httr", "knitr", "lubridate", - "mirai (>= 2.4.0)", "rmarkdown", "testthat (>= 3.0.0)", "tibble", @@ -3519,7 +3506,7 @@ "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "NeedsCompilation": "yes", - "Author": "Hadley Wickham [aut, cre] (ORCID: ), Lionel Henry [aut], Posit Software, PBC [cph, fnd] (ROR: )", + "Author": "Hadley Wickham [aut, cre] (), Lionel Henry [aut], Posit Software, PBC [cph, fnd] (03wc8by49)", "Maintainer": "Hadley Wickham ", "Repository": "CRAN" }, @@ -3731,7 +3718,7 @@ }, "renv": { "Package": "renv", - "Version": "1.1.5", + "Version": "1.1.4", "Source": "Repository", "Type": "Package", "Title": "Project Environments", @@ -3750,7 +3737,6 @@ "covr", "cpp11", "devtools", - "generics", "gitcreds", "jsonlite", "jsonvalidate", @@ -3779,7 +3765,7 @@ "Config/testthat/parallel": "true", "Config/testthat/start-first": "bioconductor,python,install,restore,snapshot,retrieve,remotes", "NeedsCompilation": "no", - "Author": "Kevin Ushey [aut, cre] (ORCID: ), Hadley Wickham [aut] (ORCID: ), Posit Software, PBC [cph, fnd]", + "Author": "Kevin Ushey [aut, cre] (), Hadley Wickham [aut] (), Posit Software, PBC [cph, fnd]", "Maintainer": "Kevin Ushey ", "Repository": "CRAN" }, @@ -4151,8 +4137,7 @@ "NeedsCompilation": "no", "Author": "Simon Potter [aut, trl, cre], Simon Sapin [aut], Ian Bicking [aut]", "Maintainer": "Simon Potter ", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "socialmixr": { "Package": "socialmixr", @@ -4737,8 +4722,7 @@ "URL": "https://www.rforge.net/uuid", "BugReports": "https://github.com/s-u/uuid/issues", "NeedsCompilation": "yes", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "vctrs": { "Package": "vctrs", @@ -4857,8 +4841,7 @@ "RoxygenNote": "7.1.2", "NeedsCompilation": "no", "Author": "Almende B.V. and Contributors [aut, cph] (vis.js library in htmlwidgets/lib, https://visjs.org/, https://github.com/visjs/vis-network), Benoit Thieurmel [aut, cre] (R interface)", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "vroom": { "Package": "vroom", @@ -5020,8 +5003,7 @@ "License": "GPL (>= 2)", "URL": "http://population.un.org/wpp", "NeedsCompilation": "no", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" }, "xfun": { "Package": "xfun", @@ -5128,8 +5110,7 @@ "URL": "https://github.com/vubiostat/r-yaml/", "BugReports": "https://github.com/vubiostat/r-yaml/issues", "NeedsCompilation": "yes", - "Repository": "RSPM", - "Encoding": "UTF-8" + "Repository": "CRAN" } } }