re-added the report download option

inst/apps/data_analysis_modules/app.R

@@ -2065,10 +2065,35 @@ ui_elements <- list(
               class = "fa-spin",
               "aria-hidden" = "true"
             ),
-            type = "primary",
+            type = "secondary",
             auto_reset = TRUE
           ),
-          shiny::helpText("If you change the parameters, press 'Analyse' again to update the tables")
+          shiny::helpText("If you change the parameters, press 'Analyse' again to update the tables"),
+          # shiny::conditionalPanel(
+          #   condition = "output.ready=='yes'",
+            shiny::tags$hr(),
+            shiny::h4("Download results"),
+            shiny::helpText("Choose your favourite output file format for further work, and download, when the analyses are done."),
+            shiny::selectInput(
+              inputId = "output_type",
+              label = "Output format",
+              selected = NULL,
+              choices = list(
+                "Word" = "docx",
+                "LibreOffice" = "odt"
+                # ,
+                # "PDF" = "pdf",
+                # "All the above" = "all"
+              )
+            ),
+            shiny::br(),
+            # Button
+            shiny::downloadButton(
+              outputId = "report",
+              label = "Download",
+              icon = shiny::icon("download")
+            )
+          # )
           # )
         ),
         bslib::nav_panel(
@@ -2100,8 +2125,10 @@ ui_elements <- list(
 
 # Initial attempt at creating light and dark versions
 light <- custom_theme()
-dark <- custom_theme(bg = "#000",
+dark <- custom_theme(
-                     fg="#fff")
+  bg = "#000",
+  fg = "#fff"
+)
 
 # Fonts to consider:
 # https://webdesignerdepot.com/17-open-source-fonts-youll-actually-love/
@@ -2190,7 +2217,7 @@ server <- function(input, output, session) {
     ds = NULL,
     input = exists("webResearch_data"),
     local_temp = NULL,
-    quarto = NULL,
+    ready = NULL,
     test = "no",
     data_original = NULL,
     data = NULL,
@@ -2562,6 +2589,8 @@ server <- function(input, output, session) {
 
         # patchwork::wrap_plots(ncol=1) +
         # patchwork::plot_annotation(title = 'Multivariable regression model checks')
+
+        rv$ready <- "ready"
       })
     }
   )
@@ -2588,6 +2617,15 @@ server <- function(input, output, session) {
 
   shiny::outputOptions(output, "uploaded", suspendWhenHidden = FALSE)
 
+  output$ready <- shiny::reactive({
+    if (is.null(rv$ready)) {
+      "no"
+    } else {
+      "yes"
+    }
+  })
+
+  shiny::outputOptions(output, "ready", suspendWhenHidden = FALSE)
 
   # Reimplement from environment at later time
   # output$has_input <- shiny::reactive({
@@ -2610,7 +2648,7 @@ server <- function(input, output, session) {
     content = function(file, type = input$output_type) {
       ## Notification is not progressing
       ## Presumably due to missing
-      shiny::withProgress(message = "Generating report. Hold on for a moment..", {
+      shiny::withProgress(message = "Generating the report. Hold on for a moment..", {
         rv$list |>
           write_quarto(
             output_format = type,

inst/apps/data_analysis_modules/rsconnect/shinyapps.io/agdamsbo/freesearcheR.dcf

@@ -5,6 +5,6 @@ account: agdamsbo
 server: shinyapps.io
 hostUrl: https://api.shinyapps.io/v1
 appId: 13611288
-bundleId: 9533633
+bundleId:
 url: https://agdamsbo.shinyapps.io/freesearcheR/
 version: 1

inst/apps/data_analysis_modules/server.R

@@ -64,7 +64,7 @@ server <- function(input, output, session) {
     ds = NULL,
     input = exists("webResearch_data"),
     local_temp = NULL,
-    quarto = NULL,
+    ready = NULL,
     test = "no",
     data_original = NULL,
     data = NULL,
@@ -436,6 +436,8 @@ server <- function(input, output, session) {
 
         # patchwork::wrap_plots(ncol=1) +
         # patchwork::plot_annotation(title = 'Multivariable regression model checks')
+
+        rv$ready <- "ready"
       })
     }
   )
@@ -462,6 +464,15 @@ server <- function(input, output, session) {
 
   shiny::outputOptions(output, "uploaded", suspendWhenHidden = FALSE)
 
+  output$ready <- shiny::reactive({
+    if (is.null(rv$ready)) {
+      "no"
+    } else {
+      "yes"
+    }
+  })
+
+  shiny::outputOptions(output, "ready", suspendWhenHidden = FALSE)
 
   # Reimplement from environment at later time
   # output$has_input <- shiny::reactive({
@@ -484,7 +495,7 @@ server <- function(input, output, session) {
     content = function(file, type = input$output_type) {
       ## Notification is not progressing
       ## Presumably due to missing
-      shiny::withProgress(message = "Generating report. Hold on for a moment..", {
+      shiny::withProgress(message = "Generating the report. Hold on for a moment..", {
         rv$list |>
           write_quarto(
             output_format = type,

inst/apps/data_analysis_modules/ui.R

@@ -225,10 +225,35 @@ ui_elements <- list(
               class = "fa-spin",
               "aria-hidden" = "true"
             ),
-            type = "primary",
+            type = "secondary",
             auto_reset = TRUE
           ),
-          shiny::helpText("If you change the parameters, press 'Analyse' again to update the tables")
+          shiny::helpText("If you change the parameters, press 'Analyse' again to update the tables"),
+          # shiny::conditionalPanel(
+          #   condition = "output.ready=='yes'",
+            shiny::tags$hr(),
+            shiny::h4("Download results"),
+            shiny::helpText("Choose your favourite output file format for further work, and download, when the analyses are done."),
+            shiny::selectInput(
+              inputId = "output_type",
+              label = "Output format",
+              selected = NULL,
+              choices = list(
+                "Word" = "docx",
+                "LibreOffice" = "odt"
+                # ,
+                # "PDF" = "pdf",
+                # "All the above" = "all"
+              )
+            ),
+            shiny::br(),
+            # Button
+            shiny::downloadButton(
+              outputId = "report",
+              label = "Download",
+              icon = shiny::icon("download")
+            )
+          # )
           # )
         ),
         bslib::nav_panel(
@@ -260,8 +285,10 @@ ui_elements <- list(
 
 # Initial attempt at creating light and dark versions
 light <- custom_theme()
-dark <- custom_theme(bg = "#000",
+dark <- custom_theme(
-                     fg="#fff")
+  bg = "#000",
+  fg = "#fff"
+)
 
 # Fonts to consider:
 # https://webdesignerdepot.com/17-open-source-fonts-youll-actually-love/

inst/apps/data_analysis_modules/www/report.qmd

@@ -16,6 +16,7 @@ params:
 web_data <- readr::read_rds(file = params$data.file)
 library(gtsummary)
 library(gt)
+library(flextable)
 library(easystats)
 library(patchwork)
 # library(webResearch)
@@ -36,7 +37,9 @@ Below is the baseline characteristics plotted.
 ```{r}
 #| label: tbl-baseline
 #| tbl-cap: Baseline characteristics of included data
-web_data$table1
+web_data$table1 |> 
+  gtsummary::as_flex_table() |> 
+  flextable::set_table_properties(width = 1, layout = "autofit")
 ```
 
 Here are the regression results.
@@ -44,9 +47,12 @@ Here are the regression results.
 ```{r}
 #| label: tbl-regression
 #| tbl-cap: Regression analysis results
-web_data$table2
+web_data$table2|> 
+  gtsummary::as_flex_table() |> 
+  flextable::set_table_properties(width = 1, layout = "autofit")
 ```
 
+
 ## Discussion
 
 Good luck on your further work!