Merge branch 'master' of https://gitlab.gwdg.de/loosolab/software/i2dash

DESCRIPTION

@@ -23,6 +23,7 @@ Imports:
     glue,
     ymlthis
 Suggests: 
+    switchr,
     highcharter,
     plotly,
     crosstalk,

R/assemble.R

@@ -24,7 +24,7 @@ setMethod("assemble", "i2dashboard", function(dashboard, pages = names(dashboard
   ymlthis::yml(date = F) %>%
     ymlthis::yml_title(dashboard@title) %>%
     ymlthis::yml_author(dashboard@author) %>%
-    ymlthis::yml_output(flexdashboard::flex_dashboard(theme = dashboard@theme)) %>%
+    ymlthis::yml_output(flexdashboard::flex_dashboard(theme = !!dashboard@theme)) %>%
     {if(dashboard@interactive) ymlthis::yml_runtime(., runtime = "shiny") else .} %>%
     ymlthis::use_rmarkdown(path = tmp_document, include_body = FALSE, quiet = TRUE, open_doc = FALSE)
 

R/vis_objects.R

@@ -29,7 +29,7 @@ add_vis_object <- function(dashboard, object, package, page = "default", title =
                                            delim = c("<%", "%>"),
                                            title = title,
                                            package = package,
-                                           class = class(object),
+                                           class = is(object),
                                            component_id = component_id,
                                            timestamp = timestamp)
 
@@ -42,61 +42,42 @@ add_vis_object <- function(dashboard, object, package, page = "default", title =
 # Methods to add common visualization objects
 #
 setMethod("add_component",
-          signature = signature(dashboard = "i2dashboard", component = "highchart"),
+          signature = signature(dashboard = "i2dashboard", component = "gg"),
           definition = function(dashboard, component, page = "default", title = NULL, ...) {
-            add_vis_object(dashboard, component, "highcharter", page, title, ...) })
+            add_vis_object(dashboard, component, "ggplot2", page, title, ...) })
 
 setMethod("add_component",
-          signature = signature(dashboard = "i2dashboard", component = "plotly"),
+          signature = signature(dashboard = "i2dashboard", component = "gt_tbl"),
           definition = function(dashboard, component, page = "default", title = NULL, ...) {
-            add_vis_object(dashboard, component, "plotly", page, title, ...) })
+            add_vis_object(dashboard, component,"gt", page, title, ...) })
 
 setMethod("add_component",
-          signature = signature(dashboard = "i2dashboard", component = "leaflet"),
+          signature = signature(dashboard = "i2dashboard", component = "knitr_kable"),
           definition = function(dashboard, component, page = "default", title = NULL, ...) {
-            add_vis_object(dashboard, component, "leaflet", page, title, ...) })
+            add_vis_object(dashboard, component, "kableExtra", page, title, ...) })
 
 setMethod("add_component",
-          signature = signature(dashboard = "i2dashboard", component = "dygraphs"),
+          signature = signature(dashboard = "i2dashboard", component = "Heatmap"),
           definition = function(dashboard, component, page = "default", title = NULL, ...) {
-            add_vis_object(dashboard, component, "dygraphs", page, title, ...) })
+            add_vis_object(dashboard, component, "ComplexHeatmap", page, title, ...) })
 
 setMethod("add_component",
-          signature = signature(dashboard = "i2dashboard", component = "rbokeh"),
+          signature = signature(dashboard = "i2dashboard", component = "ANY"),
           definition = function(dashboard, component, page = "default", title = NULL, ...) {
-            add_vis_object(dashboard, component, "rbokeh", page, title, ...) })
 
-setMethod("add_component",
-          signature = signature(dashboard = "i2dashboard", component = "visNetwork"),
-          definition = function(dashboard, component, page = "default", title = NULL, ...) {
-            add_vis_object(dashboard, component, "visNetwork", page, title, ...) })
+            # HTMLWIDGETS
+            if(inherits(component, "htmlwidget")) {
+              package <- packageSlot(component)
 
-setMethod("add_component",
-          signature = signature(dashboard = "i2dashboard", component = "d3heatmap"),
-          definition = function(dashboard, component, page = "default", title = NULL, ...) {
-            add_vis_object(dashboard, component, "d3heatmap", page, title, ...) })
+              if(is.null(package)) {
+                warning("No component added, since the package name of the HTML widget could not be determined.")
+                return(dashboard)
+              }
 
-setMethod("add_component",
-          signature = signature(dashboard = "i2dashboard", component = "metricsgraphics"),
-          definition = function(dashboard, component, page = "default", title = NULL, ...) {
-            add_vis_object(dashboard, component, "metricsgraphics", page, title, ...) })
+              return(add_vis_object(dashboard, component, package, page, title, ...))
+            }
 
-setMethod("add_component",
-          signature = signature(dashboard = "i2dashboard", component = "gg"),
-          definition = function(dashboard, component, page = "default", title = NULL, ...) {
-            add_vis_object(dashboard, component, "ggplot2", page, title, ...) })
-
-setMethod("add_component",
-          signature = signature(dashboard = "i2dashboard", component = "datatables"),
-          definition = function(dashboard, component, page = "default", title = NULL, ...) {
-            add_vis_object(dashboard, component, "DT", page, title, ...) })
-
-setMethod("add_component",
-          signature = signature(dashboard = "i2dashboard", component = "grViz"),
-          definition = function(dashboard, component, page = "default", title = NULL, ...) {
-            add_vis_object(dashboard, component, "DiagrammeR", page, title, ...) })
-
-setMethod("add_component",
-          signature = signature(dashboard = "i2dashboard", component = "gt_tbl"),
-          definition = function(dashboard, component, page = "default", title = NULL, ...) {
-            add_vis_object(dashboard, component, "gt", page, title, ...) })
+            # OTHER
+            warning("The component did not inherit from any of the currently supported classes ('htmlwidget').")
+            return(dashboard)
+            })

inst/templates/vis_object.Rmd

@@ -4,7 +4,7 @@
 
 ```{r}
 if (!requireNamespace("<% package %>", quietly = TRUE)) {
-    stop('The package <% package %> is needed to embed objects of class <% class %>.', call. = FALSE)
+    stop('The package "<% package %>" is needed to embed objects of class "<% class %>".', call. = FALSE)
 }
 
 vis_<% component_id %> <- readRDS(file.path(datadir, '<% component_id %>.rds'))