cleaning and minor code export polish

CITATION.cff

@@ -1259,6 +1259,19 @@ references:
     orcid: https://orcid.org/0000-0001-8457-4658
   year: '2025'
   doi: 10.32614/CRAN.package.cffr
+- type: software
+  title: shiny2docker
+  abstract: 'shiny2docker: Generate Dockerfiles for ''Shiny'' Applications'
+  notes: Suggests
+  url: https://github.com/VincentGuyader/shiny2docker
+  repository: https://CRAN.R-project.org/package=shiny2docker
+  authors:
+  - family-names: Guyader
+    given-names: Vincent
+    email: vincent@thinkr.fr
+    orcid: https://orcid.org/0000-0003-0671-9270
+  year: '2025'
+  doi: 10.32614/CRAN.package.shiny2docker
 - type: software
   title: 'R: A Language and Environment for Statistical Computing'
   notes: Depends

R/data_plots.R

@@ -340,7 +340,7 @@ data_visuals_server <- function(id,
                   rv$plot <- rlang::exec(create_plot, !!!append_list(data(), parameters, "data"))
                 })
 
-                rv$code <- glue::glue("FreesearchR::create_plot(data,{list2str(parameters)})")
+                rv$code <- glue::glue("FreesearchR::create_plot(df,{list2str(parameters)})")
               },
               # warning = function(warn) {
               #   showNotification(paste0(warn), type = "warning")

README.md

@@ -27,7 +27,13 @@ This app has the following simple goals:
 
 ## Run locally on your own machine
 
-The ***FreesearchR*** app can also run on your own machine with no data transmitted anywhere. Any data.frame available in the global environment will be accessible from the interface. Just follow the below steps:
+The ***FreesearchR*** app can also run on your own machine with no data transmitted anywhere. Blow are the available options.
+
+### Run from R (or RStduio)
+
+Working with data in R, FreesearchR is a quick and easy tool to get overview and perform the first explorative analyses to get you going.
+
+Any data available in the your R session will be available to the FreesearchR app. Just follow the below steps to get going:
 
 1.   **Requirement:** You need to have [*R* installed](https://www.r-project.org/) and possibly an editor like [RStudio](https://posit.co/download/rstudio-desktop/). 
 
@@ -43,6 +49,21 @@ The ***FreesearchR*** app can also run on your own machine with no data transmit
      launch_FreesearchR()
      ```
 
+### Running with docker compose
+
+For advanced users, wanting to deploy the FreesearchR app to run anywhere, a docker image is available.
+
+Below is the minimal `docker_compose.yml` file:
+
+```
+services:
+  freesearchr: 
+    image: ghcr.io/agdamsbo/freesearchr:latest 
+    ports: 
+      - '3838:3838'
+    restart: on-failure
+```
+
 ## Code of Conduct
 
 Please note that the ***FreesearchR*** project is published with a [Contributor Code of Conduct](https://contributor-covenant.org/version/2/1/CODE_OF_CONDUCT.html). By contributing to this project, you agree to abide by its terms.

SESSION.md

@@ -26,6 +26,8 @@
 |apexcharter       |0.4.4         |2024-09-06 |CRAN (R 4.4.1) |
 |askpass           |1.2.1         |2024-10-04 |CRAN (R 4.4.1) |
 |assertthat        |0.2.1         |2019-03-21 |CRAN (R 4.4.1) |
+|attachment        |0.4.5         |2025-03-14 |CRAN (R 4.4.1) |
+|attempt           |0.3.1         |2020-05-03 |CRAN (R 4.4.1) |
 |backports         |1.5.0         |2024-05-23 |CRAN (R 4.4.1) |
 |base64enc         |0.1-3         |2015-07-28 |CRAN (R 4.4.1) |
 |bayestestR        |0.15.3        |2025-04-28 |CRAN (R 4.4.1) |
@@ -62,6 +64,7 @@
 |devtools          |2.4.5         |2022-10-11 |CRAN (R 4.4.0) |
 |DHARMa            |0.4.7         |2024-10-18 |CRAN (R 4.4.1) |
 |digest            |0.6.37        |2024-08-19 |CRAN (R 4.4.1) |
+|dockerfiler       |0.2.5         |2025-05-07 |CRAN (R 4.4.1) |
 |doParallel        |1.0.17        |2022-02-07 |CRAN (R 4.4.0) |
 |dplyr             |1.1.4         |2023-11-17 |CRAN (R 4.4.0) |
 |DT                |0.33          |2024-04-04 |CRAN (R 4.4.0) |
@@ -139,6 +142,7 @@
 |opdisDownsampling |1.0.1         |2024-04-15 |CRAN (R 4.4.0) |
 |openssl           |2.3.2         |2025-02-03 |CRAN (R 4.4.1) |
 |openxlsx2         |1.15          |2025-04-25 |CRAN (R 4.4.1) |
+|pak               |0.8.0.2       |2025-04-08 |CRAN (R 4.4.1) |
 |parameters        |0.24.2        |2025-03-04 |CRAN (R 4.4.1) |
 |patchwork         |1.3.0         |2024-09-16 |CRAN (R 4.4.1) |
 |pbmcapply         |1.5.1         |2022-04-28 |CRAN (R 4.4.1) |
@@ -198,6 +202,7 @@
 |see               |0.11.0        |2025-03-11 |CRAN (R 4.4.1) |
 |sessioninfo       |1.2.3         |2025-02-05 |CRAN (R 4.4.1) |
 |shiny             |1.10.0        |2024-12-14 |CRAN (R 4.4.1) |
+|shiny2docker      |0.0.2         |2025-02-09 |CRAN (R 4.4.1) |
 |shinybusy         |0.3.3         |2024-03-09 |CRAN (R 4.4.0) |
 |shinyjs           |2.1.0         |2021-12-23 |CRAN (R 4.4.0) |
 |shinyTime         |1.0.3         |2022-08-19 |CRAN (R 4.4.0) |
@@ -231,4 +236,5 @@
 |xml2              |1.3.8         |2025-03-14 |CRAN (R 4.4.1) |
 |xtable            |1.8-4         |2019-04-21 |CRAN (R 4.4.1) |
 |yaml              |2.3.10        |2024-07-26 |CRAN (R 4.4.1) |
+|yesno             |0.1.3         |2024-07-26 |CRAN (R 4.4.1) |
 |zip               |2.3.2         |2025-02-01 |CRAN (R 4.4.1) |

app_docker/Dockerfile

@@ -1,9 +1,9 @@
 FROM rocker/geospatial:4.4.1
-RUN apt-get update -y && apt-get install -y  make pandoc zlib1g-dev libicu-dev libcurl4-openssl-dev libsecret-1-dev libxml2-dev libssl-dev libx11-dev libfontconfig1-dev libfreetype6-dev git libsodium-dev && rm -rf /var/lib/apt/lists/*
+RUN apt-get update -y && apt-get install -y  cmake make libcurl4-openssl-dev libicu-dev libssl-dev pandoc zlib1g-dev libsecret-1-dev libxml2-dev libx11-dev libcairo2-dev libfontconfig1-dev libfreetype6-dev libfribidi-dev libharfbuzz-dev libjpeg-dev libpng-dev libtiff-dev libfftw3-dev libsodium-dev && rm -rf /var/lib/apt/lists/*
 RUN mkdir -p /usr/local/lib/R/etc/ /usr/lib/R/etc/
 RUN echo "options(renv.config.pak.enabled = FALSE, repos = c(CRAN = 'https://cran.rstudio.com/'), download.file.method = 'libcurl', Ncpus = 4)" | tee /usr/local/lib/R/etc/Rprofile.site | tee /usr/lib/R/etc/Rprofile.site
 RUN R -e 'install.packages("remotes")'
-RUN R -e 'remotes::install_version("renv", version = "1.0.3")'
+RUN R -e 'remotes::install_version("renv", version = "1.1.4")'
 COPY renv.lock renv.lock
 RUN --mount=type=cache,id=renv-cache,target=/root/.cache/R/renv R -e 'renv::restore()'
 WORKDIR /srv/shiny-server/

inst/apps/FreesearchR/app.R

@@ -1940,7 +1940,7 @@ data_visuals_server <- function(id,
                   rv$plot <- rlang::exec(create_plot, !!!append_list(data(), parameters, "data"))
                 })
 
-                rv$code <- glue::glue("FreesearchR::create_plot(data,{list2str(parameters)})")
+                rv$code <- glue::glue("FreesearchR::create_plot(df,{list2str(parameters)})")
               },
               # warning = function(warn) {
               #   showNotification(paste0(warn), type = "warning")