R package ggplot2

[Robert Beezer]

Hellping a colleague with R in a Sage Cell, so I've chosen R as the language and used the main site for the Sage Cell.  i don't know R very well and she doesn't know Sage very well.  ;-)

Code:

age <- c(25, 30, 56)
gender <- c("male", "female", "male")
weight <- c(160, 110, 220)
mydata <- data.frame(age,gender,weight)
ggplot(mydata, aes(age,weight))+ geom_point()

yields a traceback that ends in

RRuntimeError: Error in ggplot(mydata, aes(age, weight)) : could not find function "ggplot"

I understood that the "ggplot2" library was pre-installed.

https://github.com/sagemath/sagecell/blob/master/contrib/vm/container_manager.py#L260

Can anybody see what I've got wrong?

Thanks,

Rob

[Andrey Novoseltsev]

Has anybody ever used any extra packages for R installed in SageMathCell? I've tried to figure out how to use them and it seems that non of them are actually installed at the moment. Not sure if something has changed recently and they are not actually installed anymore or maybe something is off with permissions.

[William Stein]

You would also have to load the library you're going to use i.e., put this,

library("ggplot2")

Of course, ggplot2 isn't installed on sage cell server, as Andrey
mentioned. It is installed on cocalc though:

https://cocalc.com/share/public_paths/47a78e5c181266337438c057b4f07e758413c2b5

On Tue, May 31, 2022 at 9:35 AM Robert Beezer

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[Rob Beezer]

On 5/31/22 10:40, William Stein wrote:
> You would also have to load the library you're going to use i.e., put this,
>
> library("ggplot2")

Thanks, William. We tried the library() function as well, it also throws an error.

[William Stein]

That's because "Of course, ggplot2 isn't installed on sage cell
server, as Andrey mentioned."

>

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William (http://wstein.org)

[Andrey Novoseltsev]

On Tuesday, 31 May 2022 at 11:52:15 UTC-6 wst...@gmail.com wrote:

That's because "Of course, ggplot2 isn't installed on sage cell
server, as Andrey mentioned."

It is supposed to be installed, however, there are commands to do it, but apparently they didn't work this time, which made me wonder if they ever did ;-) I think they used too... I will look closer into it when I get a chance. 

[Andrey Novoseltsev]

So - it seems that there was some network glitch when I was upgrading to Sage-9.6 and R packages didn't get installed without breaking the build. I couldn't see the actual problem, but each installation command was taking about 3 seconds, while usually it is longer and different for different packages. I've rebuilt the containers and now ggplot2 is working as expected:

https://sagecell.sagemath.org/?z=eJw1jt0KwjAMhe8F3yH0qsUoa2W78l0kuqwW2nXUguzt7Y_e5IR8Jznx7pEo7dLazcds1PFAluF2hqc0I8J1QBinMrW8zpw6EIE8CwSx8L9rWmwfdvaVu01PZVnrUowZCgv7TJkqq3pZEgWWJQ37bey7Nav9IrsfgfjdbD-uTmA5hvsW3Zql-gLEODmZ&lang=r&interacts=eJyLjgUAARUAuQ==

If somebody has some tips on how to detect in `r.eval("install.package(...)")` that the package was not actually installed well, feel free to share ;-)

[Rob Beezer]

Thanks very much, Andrey, for your work on this! Great to see it working. I'll
let my colleague know she can experiment somemore.

On 6/1/22 16:04, Andrey Novoseltsev wrote:
> If somebody has some tips on how to detect in `r.eval("install.package(...)")`
> that the package was not actually installed well, feel free to share ;-)

If we can get more people dependent on R via the Sage Cell, then you will hear
about it quite quickly when it goes missing. ;-)

Thanks again,
Rob

[Rob Beezer]

Dear Andrey,

Looking good now, try the cell just below this paragraph.

https://pretextbook.org/examples/sample-article/html/section-sage-cells.html#p-24

Might be more likely to see this go missing now... ;-)

Thanks once again,
Rob

[Andrey Novoseltsev]

Thank you! By the way, there is a comment on that page

(The linking seems a bit buggy, as it repeats the boxplot in the output, as of 2016-06-13).

and it didn't show the extra plot for me now ;-)

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[Rob Beezer]

Thanks, Andrey. Comment removed, and it'll go live in the next day or two.

Rob

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