Tiny plot output from sankeyNetwork (NetworkD3) in Firefox - r

Question

As per object, I get a very small plot in Firefox when using sankeyNetwork() from networkd3 in shiny but not in Chrome or RStudio.
I have not included any CSS or JS in the script - the code below produces this result for me.
Is there any CSS property I have missed?
I am using R 3.4.1, shiny 1.1.0, networkD3 0.4 and Firefox 52.9.0.
Firefox:
Chrome:
library(shiny)
library(magrittr)
library(shinydashboard)
library(networkD3)
labels = as.character(1:9)
ui <- tagList(
dashboardPage(
dashboardHeader(
title = "appName"
),
##### dasboardSidebar #####
dashboardSidebar(
sidebarMenu(
id = "sidebar",
menuItem("plots",
tabName = "sPlots")
)
),
##### dashboardBody #####
dashboardBody(
tabItems(
##### tab #####
tabItem(
tabName = "sPlots",
tabsetPanel(
tabPanel(
"Sankey plot",
fluidRow(
box(title = "title",
solidHeader = TRUE, collapsible = TRUE, status = "primary",
sankeyNetworkOutput("sankeyHSM1")
)
)
)
)
)
)
)
)
)
server <- function(input, output, session) {
HSM = matrix(rep(c(10000, 700, 10000-700, 200, 500, 50, 20, 10, 2,40,10,10,10,10),4),ncol = 4)
sankeyHSMNetworkFun = function(x,ndx) {
nodes = data.frame("name" = factor(labels, levels = labels),
"group" = as.character(c(1,2,2,3,3,4,4,4,4)))
links = as.data.frame(matrix(byrow=T,ncol=3,c(
0, 1, NA,
0, 2, NA,
1, 3, NA,
1, 4, NA,
3, 5, NA,
3, 6, NA,
3, 7, NA,
3, 8, NA
)))
links[,3] = HSM[2:(nrow(links)+1),] %>% {rowSums(.[,(ndx-1)*2+c(1,2)])}
names(links) = c("source","target","value")
sankeyNetwork(Links = links, Nodes = nodes, Source = "source", Target = "target", Value = "value", NodeID = "name",NodeGroup = "group",
fontSize=12,sinksRight = FALSE)
}
output$sankeyHSM1 = renderSankeyNetwork({
sankeyHSMNetworkFun(values$HSM,1)
})
}
# Run the application
shinyApp(ui = ui, server = server)
------------------ EDIT --------------------
Thanks to #CJYetman for indicating onRender() as a possible solution - however this fails when there are two plots generated side by side as in the MRE below (note in addition to the second sankey plot I have also added javascript code to re-draw the figures when the window size changes as the plot does not appear to do it automatically).
library(shiny)
library(magrittr)
library(shinydashboard)
library(networkD3)
library(htmlwidgets)
labels = as.character(1:9)
ui <- tagList(
tags$head(
tags$script('
var dimension = [0, 0];
$(document).on("shiny:connected", function(e) {
dimension[0] = window.innerWidth;
dimension[1] = window.innerHeight;
Shiny.onInputChange("dimension", dimension);
});
$(window).resize(function(e) {
dimension[0] = window.innerWidth;
dimension[1] = window.innerHeight;
Shiny.onInputChange("dimension", dimension);
});
')
),
dashboardPage(
dashboardHeader(
title = "appName"
),
##### dasboardSidebar #####
dashboardSidebar(
sidebarMenu(
id = "sidebar",
menuItem("plots",
tabName = "sPlots")
)
),
##### dashboardBody #####
dashboardBody(
tabItems(
##### tab #####
tabItem(
tabName = "sPlots",
tabsetPanel(
tabPanel(
"Sankey plot",
fluidRow(
box(title = "title",
solidHeader = TRUE, collapsible = TRUE, status = "primary",
sankeyNetworkOutput("sankeyHSM1")
),
box(title = "plot2",
solidHeader = TRUE, collapsible = TRUE, status = "primary",
sankeyNetworkOutput("sankeyHSM2"))
)
)
)
)
)
)
)
)
server <- function(input, output, session) {
HSM = matrix(rep(c(10000, 700, 10000-700, 200, 500, 50, 20, 10, 2,40,10,10,10,10),4),ncol = 4)
sankeyHSMNetworkFun = function(x,ndx) {
nodes = data.frame("name" = factor(labels, levels = labels),
"group" = as.character(c(1,2,2,3,3,4,4,4,4)))
links = as.data.frame(matrix(byrow=T,ncol=3,c(
0, 1, NA,
0, 2, NA,
1, 3, NA,
1, 4, NA,
3, 5, NA,
3, 6, NA,
3, 7, NA,
3, 8, NA
)))
links[,3] = HSM[2:(nrow(links)+1),] %>% {rowSums(.[,(ndx-1)*2+c(1,2)])}
names(links) = c("source","target","value")
sankeyNetwork(Links = links, Nodes = nodes, Source = "source", Target = "target", Value = "value", NodeID = "name",NodeGroup = "group",
fontSize=12,sinksRight = FALSE)
}
output$sankeyHSM1 = renderSankeyNetwork({
req(input$dimension)
sankeyHSMNetworkFun(values$HSM,1) %>%
onRender('document.getElementsByTagName("svg")[0].setAttribute("viewBox", "")')
})
output$sankeyHSM2 = renderSankeyNetwork({
req(input$dimension)
sankeyHSMNetworkFun(values$HSM,2) %>%
onRender('document.getElementsByTagName("svg")[0].setAttribute("viewBox", "")')
})
}
# Run the application
shinyApp(ui = ui, server = server)
------------------ EDIT2 --------------------
Second problem above solved - either by referring to the second svg item on the page as per #CJYetman's comment below using document.getElementsByTagName("svg")[1].setAttribute("viewBox",""), or by going into the objects themselves selecting their first svg element with document.getElementById("sankeyHSM2").getElementsByTagName("svg")[0].setAttribute("viewBox","").

Answer 1

This seems to be the result of Firefox reacting to the viewbox svg property differently than other browsers. It might be worthwhile to submit this as an issue here https://github.com/christophergandrud/networkD3/issues
In the meantime, you could work around this by resetting the viewbox attribute using some JavaScript and htmlwidgets::onRender(). Here's an example using a minimized version of your example. (Resetting the viewbox attribute may have other consequences)
library(htmlwidgets)
library(networkD3)
library(magrittr)
nodes = data.frame("name" = factor(as.character(1:9)),
"group" = as.character(c(1,2,2,3,3,4,4,4,4)))
links = as.data.frame(matrix(byrow = T, ncol = 3, c(
0, 1, 1400,
0, 2, 18600,
1, 3, 400,
1, 4, 1000,
3, 5, 100,
3, 6, 40,
3, 7, 20,
3, 8, 4
)))
names(links) = c("source","target","value")
sn <- sankeyNetwork(Links = links, Nodes = nodes, Source = "source",
Target = "target", Value = "value", NodeID = "name",
NodeGroup = "group", fontSize = 12, sinksRight = FALSE)
htmlwidgets::onRender(sn, 'document.getElementsByTagName("svg")[0].setAttribute("viewBox", "")')
UPDATE (2019.10.26)
This is probably a safer implementation of removing the viewBox...
htmlwidgets::onRender(sn, 'function(el) { el.getElementsByTagName("svg")[0].removeAttribute("viewBox") }')
UPDATE 2020.04.02
My currently preferred method to do this is to use htmlwidgets::onRender to target specifically the SVG contained by the passed htmlwidget, like this...
onRender(sn, 'function(el) { el.querySelector("svg").removeAttribute("viewBox") }')
That can then be done specifically to as many htmlwidgets on your page as necessary, for instance...
onRender(sn, 'function(el) { el.querySelector("svg").removeAttribute("viewBox") }')
onRender(sn2, 'function(el) { el.querySelector("svg").removeAttribute("viewBox") }')