From 2a20186a17181ac5dbc1a4cc6d1003da0d5bb164 Mon Sep 17 00:00:00 2001 From: John Blischak Date: Tue, 6 Jan 2026 12:10:50 -0500 Subject: [PATCH 1/3] Replace existing instances of "dynacem" with "dynamicpv" --- LICENSES-THIRD-PARTY.md | 6 +++--- R/data.R | 6 +++--- R/dynamic.R | 4 ++-- R/extract.R | 4 ++-- R/future.R | 4 ++-- R/oop.R | 4 ++-- README.Rmd | 2 +- README.md | 2 +- _pkgdown.yml | 2 +- data-raw/oncpsm.R | 4 ++-- vignettes/bibliography.bib | 6 +++--- 11 files changed, 22 insertions(+), 22 deletions(-) diff --git a/LICENSES-THIRD-PARTY.md b/LICENSES-THIRD-PARTY.md index a55aa70..c00ea4a 100644 --- a/LICENSES-THIRD-PARTY.md +++ b/LICENSES-THIRD-PARTY.md @@ -1,9 +1,9 @@ -dynacem uses third-party R packages which may be distributed under different +dynamicpv uses third-party R packages which may be distributed under different licenses. We have listed all of these third party packages and their licenses below. However, the most up-to-date information can be found via inspecting the Imports field in the DESCRIPTION file. -You must agree to the terms of these licenses, in addition to the dynacem +You must agree to the terms of these licenses, in addition to the dynamicpv source code license, in order to use this software. -------------------------------------------------- @@ -16,4 +16,4 @@ source code license, in order to use this software. * purrr - https://purrr.tidyverse.org/LICENSE.html * readr - https://readr.tidyverse.org/LICENSE.html * rlang - https://rlang.r-lib.org/LICENSE.html -* tidyr - https://tidyr.tidyverse.org/LICENSE.html \ No newline at end of file +* tidyr - https://tidyr.tidyverse.org/LICENSE.html diff --git a/R/data.R b/R/data.R index 28d7bd9..9819bdc 100644 --- a/R/data.R +++ b/R/data.R @@ -1,9 +1,9 @@ # Copyright (c) 2025 Merck & Co., Inc., Rahway, NJ, USA and its affiliates. # All rights reserved. # -# This file is part of the dynacem program. +# This file is part of the dynamicpv program. # -# dynacem is free software: you can redistribute it and/or modify +# dynamicpv is free software: you can redistribute it and/or modify # it under the terms of the GNU General Public License as published by # the Free Software Foundation, either version 3 of the License, or # (at your option) any later version. @@ -25,4 +25,4 @@ #' @format ## `oncpsm` #' A heemod object #' @source Created based on assumptions. -"oncpsm" \ No newline at end of file +"oncpsm" diff --git a/R/dynamic.R b/R/dynamic.R index 4e5d701..95184bd 100644 --- a/R/dynamic.R +++ b/R/dynamic.R @@ -1,9 +1,9 @@ # Copyright (c) 2025 Merck & Co., Inc., Rahway, NJ, USA and its affiliates. # All rights reserved. # -# This file is part of the dynacem program. +# This file is part of the dynamicpv program. # -# dynacem is free software: you can redistribute it and/or modify +# dynamicpv is free software: you can redistribute it and/or modify # it under the terms of the GNU General Public License as published by # the Free Software Foundation, either version 3 of the License, or # (at your option) any later version. diff --git a/R/extract.R b/R/extract.R index de844b7..0f04101 100644 --- a/R/extract.R +++ b/R/extract.R @@ -1,9 +1,9 @@ # Copyright (c) 2025 Merck & Co., Inc., Rahway, NJ, USA and its affiliates. # All rights reserved. # -# This file is part of the dynacem program. +# This file is part of the dynamicpv program. # -# dynacem is free software: you can redistribute it and/or modify +# dynamicpv is free software: you can redistribute it and/or modify # it under the terms of the GNU General Public License as published by # the Free Software Foundation, either version 3 of the License, or # (at your option) any later version. diff --git a/R/future.R b/R/future.R index 1a8eccf..773bc6c 100644 --- a/R/future.R +++ b/R/future.R @@ -1,9 +1,9 @@ # Copyright (c) 2025 Merck & Co., Inc., Rahway, NJ, USA and its affiliates. # All rights reserved. # -# This file is part of the dynacem program. +# This file is part of the dynamicpv program. # -# dynacem is free software: you can redistribute it and/or modify +# dynamicpv is free software: you can redistribute it and/or modify # it under the terms of the GNU General Public License as published by # the Free Software Foundation, either version 3 of the License, or # (at your option) any later version. diff --git a/R/oop.R b/R/oop.R index 30d3b16..f04ec7d 100644 --- a/R/oop.R +++ b/R/oop.R @@ -1,9 +1,9 @@ # Copyright (c) 2025 Merck & Co., Inc., Rahway, NJ, USA and its affiliates. # All rights reserved. # -# This file is part of the dynacem program. +# This file is part of the dynamicpv program. # -# dynacem is free software: you can redistribute it and/or modify +# dynamicpv is free software: you can redistribute it and/or modify # it under the terms of the GNU General Public License as published by # the Free Software Foundation, either version 3 of the License, or # (at your option) any later version. diff --git a/README.Rmd b/README.Rmd index 9d8af85..c1c0893 100644 --- a/README.Rmd +++ b/README.Rmd @@ -38,7 +38,7 @@ install.packages("devtools") pak::pak("MSDLLCpapers/dynamicpv") ``` -Note that the above does not install vignettes. Vignettes may be viewed on the [package website](https://msdllcpapers.github.io/dynacem) or by instead running the following. +Note that the above does not install vignettes. Vignettes may be viewed on the [package website](https://msdllcpapers.github.io/dynamicpv) or by instead running the following. ```{r instal2} #| eval: false diff --git a/README.md b/README.md index b9fe483..2464d2c 100644 --- a/README.md +++ b/README.md @@ -40,7 +40,7 @@ pak::pak("MSDLLCpapers/dynamicpv") ``` Note that the above does not install vignettes. Vignettes may be viewed -on the [package website](https://msdllcpapers.github.io/dynacem) or by +on the [package website](https://msdllcpapers.github.io/dynamicpv) or by instead running the following. ``` r diff --git a/_pkgdown.yml b/_pkgdown.yml index 90a3d77..d3556a6 100644 --- a/_pkgdown.yml +++ b/_pkgdown.yml @@ -1,4 +1,4 @@ -url: https://MSDLLCpapers.github.io/dynacem/ +url: https://MSDLLCpapers.github.io/dynamicpv/ template: bootstrap: 5 math-rendering: mathjax diff --git a/data-raw/oncpsm.R b/data-raw/oncpsm.R index fc57290..3289ad6 100644 --- a/data-raw/oncpsm.R +++ b/data-raw/oncpsm.R @@ -1,9 +1,9 @@ # Copyright (c) 2025 Merck & Co., Inc., Rahway, NJ, USA and its affiliates. # All rights reserved. # -# This file is part of the dynacem program. +# This file is part of the dynamicpv program. # -# dynacem is free software: you can redistribute it and/or modify +# dynamicpv is free software: you can redistribute it and/or modify # it under the terms of the GNU General Public License as published by # the Free Software Foundation, either version 3 of the License, or # (at your option) any later version. diff --git a/vignettes/bibliography.bib b/vignettes/bibliography.bib index 34af796..3880de2 100644 --- a/vignettes/bibliography.bib +++ b/vignettes/bibliography.bib @@ -150,10 +150,10 @@ @article{espinosa_2024 pages = {797--804}, } -@misc{dynacem, +@misc{dynamicpv, title = {{dynamcem} - A package for {R} to evaluate cost-effectiveness models with dynamic pricing and uptake.}, author = {Merck {\& Co.}, {Inc.}}, - url = {https://github.com/MSDLLCpapers/dynacem}, + url = {https://github.com/MSDLLCpapers/dynamicpv}, urldate = {Accessed: 1 July 2025} } @@ -464,4 +464,4 @@ @article{woods_2024 month = Jan, year = {2024}, pages = {804--819}, -} \ No newline at end of file +} From 09f137d2cbde7d115cb4cb12852af09e676580bd Mon Sep 17 00:00:00 2001 From: John Blischak Date: Tue, 6 Jan 2026 12:12:53 -0500 Subject: [PATCH 2/3] Rebuild docs --- man/dynamicpv-package.Rd | 1 + 1 file changed, 1 insertion(+) diff --git a/man/dynamicpv-package.Rd b/man/dynamicpv-package.Rd index 9ecfdbc..e08bfc7 100644 --- a/man/dynamicpv-package.Rd +++ b/man/dynamicpv-package.Rd @@ -24,6 +24,7 @@ Useful links: Other contributors: \itemize{ + \item John Blischak (\href{https://orcid.org/0000-0003-2634-9879}{ORCID}) [contributor] \item Merck & Co., Inc., Rahway, NJ, USA and its affiliates [copyright holder, funder] } From 880627b949b4b99230ee4a25c00145538b988819 Mon Sep 17 00:00:00 2001 From: John Blischak Date: Tue, 6 Jan 2026 14:46:16 -0500 Subject: [PATCH 3/3] Address NOTEs from winbuilder with R-devel Found the following (possibly) invalid URLs: URL: https://doi.org/10.1001/jamahealthforum.2024.446 From: inst/doc/cost-effectiveness-applications.html Status: 404 Message: Not Found URL: https://doi.org/10.18553/jmcp.2025.31.3.289 From: inst/doc/cost-effectiveness-applications.html Status: 404 Message: Not Found URL: https://msdllcpapers.github.io/dynamicpv (moved to https://msdllcpapers.github.io/dynamicpv/) From: README.md Status: 301 Message: Moved Permanently For content that is 'Moved Permanently', please change http to https, add trailing slashes, or replace the old by the new URL. The Title field should be in title case. Current version is: 'Evaluates Present Values and Cost-Effectiveness With Dynamic Pricing And Uptake' In title case that is: 'Evaluates Present Values and Cost-Effectiveness with Dynamic Pricing and Uptake' * checking DESCRIPTION meta-information ... NOTE Missing dependency on R >= 4.1.0 because package code uses the pipe |> or function shorthand \(...) syntax added in R 4.1.0. File(s) using such syntax: 'dynamic.R' 'dynpv.Rd' 'extract.R' 'futurepv.Rd' 'oop.R' --- DESCRIPTION | 10 +++++----- README.Rmd | 2 +- README.md | 4 ++-- man/dynamicpv-package.Rd | 2 +- vignettes/bibliography.bib | 4 ++-- 5 files changed, 11 insertions(+), 11 deletions(-) diff --git a/DESCRIPTION b/DESCRIPTION index 4fa07da..ae81b71 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,11 +1,11 @@ Package: dynamicpv -Title: Evaluates Present Values and Cost-Effectiveness With Dynamic Pricing And Uptake +Title: Evaluates Present Values and Cost-Effectiveness with Dynamic Pricing and Uptake Version: 0.4.0 Authors@R: c( person("Dominic", "Muston", , "dominic.muston@msd.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-4876-7940")), - person("John", "Blischak", role = c("ctb"), - comment = c(ORCID = "0000-0003-2634-9879")), + person("John", "Blischak", role = c("ctb"), + comment = c(ORCID = "0000-0003-2634-9879")), person("Merck & Co., Inc., Rahway, NJ, USA and its affiliates", role = c("cph", "fnd")) ) Description: Evaluates present values and cost-effectiveness with dynamic pricing and uptake. @@ -15,6 +15,8 @@ BugReports: https://github.com/MSDLLCpapers/dynamicpv/issues Encoding: UTF-8 Roxygen: list(markdown = TRUE) RoxygenNote: 7.3.3 +Depends: + R (>= 4.1.0) Imports: dplyr, readr, @@ -32,7 +34,5 @@ Suggests: testthat (>= 3.0.0), usethis Config/testthat/edition: 3 -Depends: - R (>= 3.5) LazyData: true VignetteBuilder: knitr diff --git a/README.Rmd b/README.Rmd index c1c0893..bf146e8 100644 --- a/README.Rmd +++ b/README.Rmd @@ -38,7 +38,7 @@ install.packages("devtools") pak::pak("MSDLLCpapers/dynamicpv") ``` -Note that the above does not install vignettes. Vignettes may be viewed on the [package website](https://msdllcpapers.github.io/dynamicpv) or by instead running the following. +Note that the above does not install vignettes. Vignettes may be viewed on the [package website](https://msdllcpapers.github.io/dynamicpv/) or by instead running the following. ```{r instal2} #| eval: false diff --git a/README.md b/README.md index 2464d2c..02bad94 100644 --- a/README.md +++ b/README.md @@ -40,8 +40,8 @@ pak::pak("MSDLLCpapers/dynamicpv") ``` Note that the above does not install vignettes. Vignettes may be viewed -on the [package website](https://msdllcpapers.github.io/dynamicpv) or by -instead running the following. +on the [package website](https://msdllcpapers.github.io/dynamicpv/) or +by instead running the following. ``` r devtools::install_github("MSDLLCpapers/dynamicpv", build_vignettes=TRUE) diff --git a/man/dynamicpv-package.Rd b/man/dynamicpv-package.Rd index e08bfc7..090aa87 100644 --- a/man/dynamicpv-package.Rd +++ b/man/dynamicpv-package.Rd @@ -4,7 +4,7 @@ \name{dynamicpv-package} \alias{dynamicpv} \alias{dynamicpv-package} -\title{dynamicpv: Evaluates Present Values and Cost-Effectiveness With Dynamic Pricing And Uptake} +\title{dynamicpv: Evaluates Present Values and Cost-Effectiveness with Dynamic Pricing and Uptake} \description{ \if{html}{\figure{logo.png}{options: style='float: right' alt='logo' width='120'}} diff --git a/vignettes/bibliography.bib b/vignettes/bibliography.bib index 3880de2..347e95d 100644 --- a/vignettes/bibliography.bib +++ b/vignettes/bibliography.bib @@ -115,7 +115,7 @@ @article{enright_2025 title = {Use of health technology assessments in specialty drug coverage decisions by {US} commercial health plans}, volume = {31}, issn = {2376-1032}, - doi = {10.18553/jmcp.2025.31.3.289}, + url = {https://www.jmcp.org/doi/10.18553/jmcp.2025.31.3.289}, abstract = {BACKGROUND: Health technology assessment (HTA) involves a formal review of the clinical, economic, and societal implications of health technologies. Internationally, HTA supports decisions regarding access to novel therapeutics. However, the role of HTA in the decision-making processes of US-based health care payers remains unclear. OBJECTIVE: To assess how frequently US commercial health plans reference HTAs in their specialty drug coverage policies. METHODS: Using the Tufts Medical Center Specialty Drug Evidence and Coverage database, we reviewed the evidence cited in the publicly available specialty drug coverage policies of 17 US commercial health plans. We assessed the frequency of HTA citations and characterized them by (1) country of origin, (2) publishing organization, (3) whether it addressed a treatment's cost-effectiveness, (4) disease category addressed, and (5) whether it assessed orphan or nonorphan treatments. @@ -240,7 +240,7 @@ @article{ispor_value_flower @article{laube_2024, title = {Launch and Postlaunch Price Developments of New Drugs in the US, Germany, and Switzerland}, - doi = {10.1001/jamahealthforum.2024.446}, + doi = {10.1001/jamahealthforum.2024.4461}, language = {en}, journal = {JAMA Health Forum}, author = {Laube, Y. and Serra-Burriel, M. and Glaus, C. C. E. G. and Vokinger, K. N.},