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2
CITATION.cff
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@ -8,7 +8,7 @@ message: 'To cite package "FreesearchR" in publications use:'
type: software
license: AGPL-3.0-or-later
title: 'FreesearchR: Easy data analysis for clinicians'
version: 26.3.3
version: 26.3.4
doi: 10.5281/zenodo.14527429
identifiers:
- type: url

2
DESCRIPTION
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@ -1,6 +1,6 @@
Package: FreesearchR
Title: Easy data analysis for clinicians
Version: 26.3.3
Version: 26.3.4
Authors@R: c(
person("Andreas Gammelgaard", "Damsbo",email="agdamsbo@clin.au.dk", role = c("aut", "cre"),
comment = c(ORCID = "0000-0002-7559-1154")),

4
NEWS.md
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@ -1,3 +1,7 @@
# FreesearchR 26.3.4
# FreesearchR 26.3.3
*NEW* option to pass global settings when running as docker or launching from R. Support for INCLUDE_GLOBALENV, DATA_LIMIT_DEFAULT, DATA_LIMIT_UPPER and DATA_LIMIT_LOWER. Described in the README.

2
R/app_version.R
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@ -1 +1 @@
app_version <- function()'26.3.3'
app_version <- function()'26.3.4'

2
R/hosted_version.R
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@ -1 +1 @@
hosted_version <- function()'v26.3.3-260312'
hosted_version <- function()'v26.3.4-260312'

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R/sysdata.rda
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SESSION.md
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@ -15,7 +15,7 @@
|rstudio |2026.01.1+403 Apple Blossom (desktop) |
|pandoc |3.6.4 @ /opt/homebrew/bin/ (via rmarkdown) |
|quarto |1.7.30 @ /usr/local/bin/quarto |
|FreesearchR |26.3.3.260312 |
|FreesearchR |26.3.4.260312 |
--------------------------------------------------------------------------------
@ -32,7 +32,7 @@
|bit |4.6.0 |2025-03-06 |CRAN (R 4.5.0) |
|bit64 |4.6.0-1 |2025-01-16 |CRAN (R 4.5.0) |
|bitops |1.0-9 |2024-10-03 |CRAN (R 4.5.0) |
|boot |1.3-32 |2025-08-29 |CRAN (R 4.5.2) |
|boot |1.3-32 |2025-08-29 |CRAN (R 4.5.0) |
|broom |1.0.12 |2026-01-27 |CRAN (R 4.5.2) |
|broom.helpers |1.22.0 |2025-09-17 |CRAN (R 4.5.0) |
|bsicons |0.1.2 |2023-11-04 |CRAN (R 4.5.0) |
@ -44,11 +44,11 @@
|caTools |1.18.3 |2024-09-04 |CRAN (R 4.5.0) |
|cellranger |1.1.0 |2016-07-27 |CRAN (R 4.5.0) |
|checkmate |2.3.4 |2026-02-03 |CRAN (R 4.5.2) |
|class |7.3-23 |2025-01-01 |CRAN (R 4.5.2) |
|class |7.3-23 |2025-01-01 |CRAN (R 4.5.0) |
|classInt |0.4-11 |2025-01-08 |CRAN (R 4.5.0) |
|cli |3.6.5 |2025-04-23 |CRAN (R 4.5.0) |
|cluster |2.1.8.2 |2026-02-05 |CRAN (R 4.5.2) |
|codetools |0.2-20 |2024-03-31 |CRAN (R 4.5.2) |
|codetools |0.2-20 |2024-03-31 |CRAN (R 4.5.0) |
|colorspace |2.1-2 |2025-09-22 |CRAN (R 4.5.0) |
|commonmark |2.0.0 |2025-07-07 |CRAN (R 4.5.0) |
|crayon |1.5.3 |2024-06-20 |CRAN (R 4.5.0) |
@ -79,9 +79,9 @@
|fontquiver |0.2.1 |2017-02-01 |CRAN (R 4.5.0) |
|forcats |1.0.1 |2025-09-25 |CRAN (R 4.5.0) |
|foreach |1.5.2 |2022-02-02 |CRAN (R 4.5.0) |
|foreign |0.8-90 |2025-03-31 |CRAN (R 4.5.2) |
|foreign |0.8-91 |2026-01-29 |CRAN (R 4.5.2) |
|Formula |1.2-5 |2023-02-24 |CRAN (R 4.5.0) |
|FreesearchR |26.3.3 |NA |NA |
|FreesearchR |26.3.4 |NA |NA |
|fs |1.6.7 |2026-03-06 |CRAN (R 4.5.2) |
|gdtools |0.5.0 |2026-02-09 |CRAN (R 4.5.2) |
|generics |0.1.4 |2025-05-09 |CRAN (R 4.5.0) |
@ -109,25 +109,25 @@
|iterators |1.0.14 |2022-02-05 |CRAN (R 4.5.0) |
|jquerylib |0.1.4 |2021-04-26 |CRAN (R 4.5.0) |
|jsonlite |2.0.0 |2025-03-27 |CRAN (R 4.5.0) |
|KernSmooth |2.23-26 |2025-01-01 |CRAN (R 4.5.2) |
|KernSmooth |2.23-26 |2025-01-01 |CRAN (R 4.5.0) |
|keyring |1.4.1 |2025-06-15 |CRAN (R 4.5.0) |
|knitr |1.51 |2025-12-20 |CRAN (R 4.5.2) |
|later |1.4.6 |2026-03-05 |CRAN (R 4.5.2) |
|later |1.4.8 |2026-03-05 |CRAN (R 4.5.2) |
|lattice |0.22-7 |2025-04-02 |CRAN (R 4.5.2) |
|lifecycle |1.0.5 |2026-01-08 |CRAN (R 4.5.2) |
|lme4 |2.0-1 |2026-03-05 |CRAN (R 4.5.2) |
|lubridate |1.9.5 |2026-02-04 |CRAN (R 4.5.2) |
|magrittr |2.0.4 |2025-09-12 |CRAN (R 4.5.0) |
|MASS |7.3-65 |2025-02-28 |CRAN (R 4.5.0) |
|Matrix |1.7-4 |2025-08-28 |CRAN (R 4.5.2) |
|Matrix |1.7-4 |2025-08-28 |CRAN (R 4.5.0) |
|memoise |2.0.1 |2021-11-26 |CRAN (R 4.5.0) |
|mime |0.13 |2025-03-17 |CRAN (R 4.5.0) |
|minqa |1.2.8 |2024-08-17 |CRAN (R 4.5.0) |
|mvtnorm |1.3-5 |2026-03-11 |CRAN (R 4.5.2) |
|NHANES |2.1.0 |2015-07-02 |CRAN (R 4.5.0) |
|nlme |3.1-168 |2025-03-31 |CRAN (R 4.5.2) |
|nlme |3.1-168 |2025-03-31 |CRAN (R 4.5.0) |
|nloptr |2.2.1 |2025-03-17 |CRAN (R 4.5.0) |
|nnet |7.3-20 |2025-01-01 |CRAN (R 4.5.2) |
|nnet |7.3-20 |2025-01-01 |CRAN (R 4.5.0) |
|officer |0.7.3 |2026-01-16 |CRAN (R 4.5.2) |
|opdisDownsampling |1.0.1 |2024-04-15 |CRAN (R 4.5.0) |
|openssl |2.3.5 |2026-02-26 |CRAN (R 4.5.2) |
@ -170,14 +170,14 @@
|reformulas |0.4.4 |2026-02-02 |CRAN (R 4.5.2) |
|remotes |2.5.0 |2024-03-17 |CRAN (R 4.5.0) |
|rempsyc |0.2.0 |2025-09-15 |CRAN (R 4.5.0) |
|renv |1.1.7 |2026-03-05 |CRAN (R 4.5.2) |
|renv |1.1.8 |2026-03-05 |CRAN (R 4.5.2) |
|reshape2 |1.4.5 |2025-11-12 |CRAN (R 4.5.0) |
|rio |1.2.4 |2025-09-26 |CRAN (R 4.5.0) |
|rlang |1.1.7 |2026-01-09 |CRAN (R 4.5.2) |
|rmarkdown |2.30 |2025-09-28 |CRAN (R 4.5.0) |
|robustbase |0.99-7 |2026-02-05 |CRAN (R 4.5.2) |
|roxygen2 |7.3.3 |2025-09-03 |CRAN (R 4.5.0) |
|rpart |4.1.24 |2025-01-07 |CRAN (R 4.5.2) |
|rpart |4.1.24 |2025-01-07 |CRAN (R 4.5.0) |
|rprojroot |2.1.1 |2025-08-26 |CRAN (R 4.5.0) |
|rsconnect |1.7.0 |2025-12-06 |CRAN (R 4.5.2) |
|rstudioapi |0.18.0 |2026-01-16 |CRAN (R 4.5.2) |
@ -217,6 +217,6 @@
|writexl |1.5.4 |2025-04-15 |CRAN (R 4.5.0) |
|xfun |0.56 |2026-01-18 |CRAN (R 4.5.2) |
|xml2 |1.5.2 |2026-01-17 |CRAN (R 4.5.2) |
|xtable |1.8-4 |2026-02-22 |CRAN (R 4.5.2) |
|xtable |1.8-8 |2026-02-22 |CRAN (R 4.5.2) |
|yaml |2.3.12 |2025-12-10 |CRAN (R 4.5.2) |
|zip |2.3.3 |2025-05-13 |CRAN (R 4.5.0) |

6
app_docker/app.R
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@ -1,7 +1,7 @@
########
#### Current file: /var/folders/9l/xbc19wxx0g79jdd2sf_0v291mhwh7f/T//RtmpmhqokQ/file1a1412a8be28.R
#### Current file: /var/folders/9l/xbc19wxx0g79jdd2sf_0v291mhwh7f/T//Rtmp6ipYJe/file24f61644daa6.R
########
i18n_path <- here::here("translations")
@ -64,7 +64,7 @@ i18n$set_translation_language("en")
#### Current file: /Users/au301842/FreesearchR/R//app_version.R
########
app_version <- function()'26.3.3'
app_version <- function()'26.3.4'
########
@ -4514,7 +4514,7 @@ data_types <- function() {
#### Current file: /Users/au301842/FreesearchR/R//hosted_version.R
########
hosted_version <- function()'v26.3.3-260312'
hosted_version <- function()'v26.3.4-260312'
########

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app_docker/renv.lock
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@ -3405,10 +3405,10 @@
},
"foreign": {
"Package": "foreign",
"Version": "0.8-90",
"Version": "0.8-91",
"Source": "Repository",
"Priority": "recommended",
"Date": "2025-03-31",
"Date": "2026-01-29",
"Title": "Read Data Stored by 'Minitab', 'S', 'SAS', 'SPSS', 'Stata', 'Systat', 'Weka', 'dBase', ...",
"Depends": [
"R (>= 4.0.0)"
@ -3429,7 +3429,7 @@
"MailingList": "R-help@r-project.org",
"URL": "https://svn.r-project.org/R-packages/trunk/foreign/",
"NeedsCompilation": "yes",
"Author": "R Core Team [aut, cph, cre] (02zz1nj61), Roger Bivand [ctb, cph], Vincent J. Carey [ctb, cph], Saikat DebRoy [ctb, cph], Stephen Eglen [ctb, cph], Rajarshi Guha [ctb, cph], Swetlana Herbrandt [ctb], Nicholas Lewin-Koh [ctb, cph], Mark Myatt [ctb, cph], Michael Nelson [ctb], Ben Pfaff [ctb], Brian Quistorff [ctb], Frank Warmerdam [ctb, cph], Stephen Weigand [ctb, cph], Free Software Foundation, Inc. [cph]",
"Author": "R Core Team [aut, cph, cre] (ROR: <https://ror.org/02zz1nj61>), Roger Bivand [ctb, cph], Vincent J. Carey [ctb, cph], Saikat DebRoy [ctb, cph], Stephen Eglen [ctb, cph], Rajarshi Guha [ctb, cph], Swetlana Herbrandt [ctb], Nicholas Lewin-Koh [ctb, cph], Mark Myatt [ctb, cph], Michael Nelson [ctb], Ben Pfaff [ctb], Brian Quistorff [ctb], Frank Warmerdam [ctb, cph], Stephen Weigand [ctb, cph], Free Software Foundation, Inc. [cph]",
"Maintainer": "R Core Team <R-core@R-project.org>",
"Repository": "CRAN"
},
@ -5462,14 +5462,14 @@
},
"mgcv": {
"Package": "mgcv",
"Version": "1.9-3",
"Version": "1.9-4",
"Source": "Repository",
"Authors@R": "person(given = \"Simon\", family = \"Wood\", role = c(\"aut\", \"cre\"), email = \"simon.wood@r-project.org\")",
"Title": "Mixed GAM Computation Vehicle with Automatic Smoothness Estimation",
"Description": "Generalized additive (mixed) models, some of their extensions and other generalized ridge regression with multiple smoothing parameter estimation by (Restricted) Marginal Likelihood, Generalized Cross Validation and similar, or using iterated nested Laplace approximation for fully Bayesian inference. See Wood (2017) <doi:10.1201/9781315370279> for an overview. Includes a gam() function, a wide variety of smoothers, 'JAGS' support and distributions beyond the exponential family.",
"Description": "Generalized additive (mixed) models, some of their extensions and other generalized ridge regression with multiple smoothing parameter estimation by (Restricted) Marginal Likelihood, Cross Validation and similar, or using iterated nested Laplace approximation for fully Bayesian inference. See Wood (2025) <doi:10.1146/annurev-statistics-112723-034249> for an overview. Includes a gam() function, a wide variety of smoothers, 'JAGS' support and distributions beyond the exponential family.",
"Priority": "recommended",
"Depends": [
"R (>= 3.6.0)",
"R (>= 4.4.0)",
"nlme (>= 3.1-64)"
],
"Imports": [

12
renv.lock
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@ -3405,10 +3405,10 @@
},
"foreign": {
"Package": "foreign",
"Version": "0.8-90",
"Version": "0.8-91",
"Source": "Repository",
"Priority": "recommended",
"Date": "2025-03-31",
"Date": "2026-01-29",
"Title": "Read Data Stored by 'Minitab', 'S', 'SAS', 'SPSS', 'Stata', 'Systat', 'Weka', 'dBase', ...",
"Depends": [
"R (>= 4.0.0)"
@ -3429,7 +3429,7 @@
"MailingList": "R-help@r-project.org",
"URL": "https://svn.r-project.org/R-packages/trunk/foreign/",
"NeedsCompilation": "yes",
"Author": "R Core Team [aut, cph, cre] (02zz1nj61), Roger Bivand [ctb, cph], Vincent J. Carey [ctb, cph], Saikat DebRoy [ctb, cph], Stephen Eglen [ctb, cph], Rajarshi Guha [ctb, cph], Swetlana Herbrandt [ctb], Nicholas Lewin-Koh [ctb, cph], Mark Myatt [ctb, cph], Michael Nelson [ctb], Ben Pfaff [ctb], Brian Quistorff [ctb], Frank Warmerdam [ctb, cph], Stephen Weigand [ctb, cph], Free Software Foundation, Inc. [cph]",
"Author": "R Core Team [aut, cph, cre] (ROR: <https://ror.org/02zz1nj61>), Roger Bivand [ctb, cph], Vincent J. Carey [ctb, cph], Saikat DebRoy [ctb, cph], Stephen Eglen [ctb, cph], Rajarshi Guha [ctb, cph], Swetlana Herbrandt [ctb], Nicholas Lewin-Koh [ctb, cph], Mark Myatt [ctb, cph], Michael Nelson [ctb], Ben Pfaff [ctb], Brian Quistorff [ctb], Frank Warmerdam [ctb, cph], Stephen Weigand [ctb, cph], Free Software Foundation, Inc. [cph]",
"Maintainer": "R Core Team <R-core@R-project.org>",
"Repository": "CRAN"
},
@ -5462,14 +5462,14 @@
},
"mgcv": {
"Package": "mgcv",
"Version": "1.9-3",
"Version": "1.9-4",
"Source": "Repository",
"Authors@R": "person(given = \"Simon\", family = \"Wood\", role = c(\"aut\", \"cre\"), email = \"simon.wood@r-project.org\")",
"Title": "Mixed GAM Computation Vehicle with Automatic Smoothness Estimation",
"Description": "Generalized additive (mixed) models, some of their extensions and other generalized ridge regression with multiple smoothing parameter estimation by (Restricted) Marginal Likelihood, Generalized Cross Validation and similar, or using iterated nested Laplace approximation for fully Bayesian inference. See Wood (2017) <doi:10.1201/9781315370279> for an overview. Includes a gam() function, a wide variety of smoothers, 'JAGS' support and distributions beyond the exponential family.",
"Description": "Generalized additive (mixed) models, some of their extensions and other generalized ridge regression with multiple smoothing parameter estimation by (Restricted) Marginal Likelihood, Cross Validation and similar, or using iterated nested Laplace approximation for fully Bayesian inference. See Wood (2025) <doi:10.1146/annurev-statistics-112723-034249> for an overview. Includes a gam() function, a wide variety of smoothers, 'JAGS' support and distributions beyond the exponential family.",
"Priority": "recommended",
"Depends": [
"R (>= 3.6.0)",
"R (>= 4.4.0)",
"nlme (>= 3.1-64)"
],
"Imports": [