Orca function not working (in R)

[dplazas]

Hi, I installed Orca via Nodejs and when running "$ /Users/danplaza/.npm-global/bin/orca" , got:

Usage: orca [--version] [--help] []

Available commands:

• graph [or plotly-graph, plotly_graph] Generates an image of plotly graph from inputted plotly.js JSON attributes. For more info, run orca graph --help.
• serve [or server] Boots up a server with one route per available export component For more info, run orca serve --help. Then, when did this " $ which -a orca", got

/Users/danplaza/.npm-global/bin/orca /Users/danplaza/.npm-global/bin/orca /Users/danplaza/.npm-global/bin/orca /Users/danplaza/.npm-global/bin/orca /Users/danplaza/.npm-global/bin/orca /Users/danplaza/.npm-global/bin/orca /Users/danplaza/.npm-global/bin/orca /Users/danplaza/.npm-global/bin/orca /Users/danplaza/.npm-global/bin/orca /Users/danplaza/.npm-global/bin/orca

Finally, when tried to plot by " > orca(fig, file = "plot.pdf")" got this:

"Error: The orca command-line utility is required for this functionality." Any ideas on how to solve it? thanks

[antoinerg]

@rpkyle are you aware of any problems with Orca in R?

[dplazas]

I restarted both R and computer and nothing worked.... re did all over again, and got same

[antoinerg]

@dplazas considering that Orca runs fine from the command-line, it does not seem like Orca itself has any problem. You should probably open an issue on the Plotly for R repo at https://github.com/ropensci/plotly

The logic responsible for calling Orca is in this file: https://github.com/ropensci/plotly/blob/2368c0c05a161db37b3e0afed7a4b81430bd7832/R/orca.R

[rpkyle]

@rpkyle are you aware of any problems with Orca in R?

I haven't had issues when running the plotly visual baseline tests in the past, but it does look like it's running an older version of orca -- maybe something has changed within the R package since then? I think the server is installed in the Dockerfile here:

https://github.com/ropensci/plotly/blob/master/inst/docker/Dockerfile.vtest

I second @antoinerg's suggestion about opening the issue to continue discussion, since this is likely unrelated to orca.

[dplazas]

Hi, thank you guys for helping out! sadly I cant keep trying orca , spent too much time on it... could you please help me with this issue? I am back to ggplot and need to quickly "translate" what I did in plotly.

I have a dataset where "strain" column has data of "w" and "mut1", and made a plot firstly only with "w" (in "g"), then I added the "mut1" to the plot by using "g <- g %>% add_trace("

Q: what is the equivalent way to do exactly the same (add the "mut1" to graph containing "w") with ggplot? thanks!

g <- plot_ly(data = data[which(data$strain == 'w'),], x = ~time, y = ~length, type = 'scatter', mode = 'lines+markers', name = 'WT', marker = list(color = 'rgba(169, 169, 169, 0.3)', size = 8, line = list(color = 'rgb(169, 169, 169)',

                  width = 0.3)),
         line = list(color = 'rgb(169, 169, 169)',
                     width = 1.4, dash = 'dash'),
         error_y = ~list(array = sd,
                         color = 'w', thickness = 1.3, width = 3))

g #Shows the "w" column

g <- g %>% add_trace(data = data[which(data$strain == 'mut1'),], name = 'rsmB', marker = list(color = 'rgba(255,166,0, 0.3)'), line = list(color = 'rgb(255,166,0)', width = 1.4, dash = 'dash'), error_y = ~list(array = sd, color = 'mut1', thickness = 1.3, width = 3)) g

El sáb., 4 abr. 2020 a las 17:58, Ryan Patrick Kyle (< notifications@github.com>) escribió:

@rpkyle https://github.com/rpkyle are you aware of any problems with Orca in R?

I haven't had issues when running the plotly visual baseline tests in the past, but it does look like it's running an older version of orca -- maybe something has changed within the R package since then? I think the server is installed in the Dockerfile here:

https://github.com/ropensci/plotly/blob/master/inst/docker/Dockerfile.vtest

I second @antoinerg https://github.com/antoinerg's suggestion about opening the issue to continue discussion, since this is likely unrelated to orca.

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[antoinerg]

I second @antoinerg's suggestion about opening the issue to continue discussion, since this is likely unrelated to orca.

I will close the current issue since it's more relevant to Plotly R rather than Orca itself. Sorry for your trouble @dplazas