g3lollipops are stacked instead of replaced inside a Shiny g3LollipopOutput() element

[diegollarrull]

HTML widgets don't get recycled when rendering g3viz plots inside a Shiny application. Please run the attached code snippet to verify its behaviour.

library(g3viz)

mutation.csv <- system.file("extdata", "ccle.csv", package = "g3viz")
selectize_values <- function(){
    return(levels(read.csv(mutation.csv, header = T)$Hugo_Symbol))
}


ui <- fluidPage(
    titlePanel("g3lollipop test"),
    sidebarLayout(
        sidebarPanel(
            selectizeInput("gene", "Elija un gen de la muestra", selectize_values())
        ),
        mainPanel(
            g3LollipopOutput("distPlot",width = "800px")
        )
    )
)

server <- function(input, output, session) {

    
    output$distPlot <- renderG3Lollipop({
    
        mutation.dat <- readMAF(mutation.csv,
                                gene.symbol.col = "Hugo_Symbol",
                                variant.class.col = "Variant_Classification",
                                protein.change.col = "amino_acid_change",
                                sep = ",")  # column-separator of csv file
        
        gene <- input$gene
        theme <- g3Lollipop.theme(theme.name = "cbioportal",
                         title.text = paste0(gene, " gene"),
                         y.axis.label = paste0("# of ", gene, " Mutations"))
        theme[['chartWidth']] <- "1600"
        
        g3Lollipop(mutation.dat,
                   gene.symbol = gene,
                   protein.change.col = "amino_acid_change",
                   plot.options = theme,
                   btn.style = "gray", 
                   output.filename = "customized_plot")
        
    })
}
shinyApp(ui = ui, server = server)

In this screenshot the unexpected behaviour is shown: after selecting two times a different gene, the second plot is created below the first one, instead of replacing it.

My current sessionInfo() is as follows:

R version 3.6.0 (2019-04-26)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Linux Mint 19.1

Matrix products: default
BLAS:   /usr/lib/x86_64-linux-gnu/openblas/libblas.so.3
LAPACK: /usr/lib/x86_64-linux-gnu/libopenblasp-r0.2.20.so

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C               LC_TIME=en_US.UTF-8       
 [4] LC_COLLATE=en_US.UTF-8     LC_MONETARY=es_AR.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=es_AR.UTF-8       LC_NAME=C                  LC_ADDRESS=C              
[10] LC_TELEPHONE=C             LC_MEASUREMENT=es_AR.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] g3viz_1.1.1 shiny_1.3.1

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.1        rstudioapi_0.10   magrittr_1.5      xtable_1.8-3      R6_2.4.0         
 [6] rlang_0.3.4       stringr_1.4.0     tools_3.6.0       packrat_0.5.0     R.oo_1.22.0      
[11] htmltools_0.3.6   yaml_2.2.0        digest_0.6.18     crayon_1.3.4      cgdsr_1.2.10     
[16] later_0.8.0       htmlwidgets_1.4   promises_1.0.1    mime_0.6          stringi_1.4.3    
[21] compiler_3.6.0    R.methodsS3_1.7.1 jsonlite_1.6      httpuv_1.5.1

[phoeguo]

Fixed on Github, and it will be available on CRAN >= version 1.1.2.

Meanwhile, please use the development version from GItHub.

# install from github
devtools::install_github("g3viz/g3viz")

thanks