I'm running Rstudio on a mac and my code slows down greatly when I place it between the brackets of a system.time command.
However system.time appears to report the actual time it takes to run the code without being placed in system.time(). Thus although it takes 2 or 3 minutes for the command to run within system.time(), it will report only a few seconds of elapsed time.
I'm not sure how to diagnose this behavior further.
One possible cause might be that I'm working with very large data tables and running efficient data.table commands that would take a long time to run in base r. Would this interfere with system.time()?
Try running it in the RGUI. One issue with RStudio (I have seen this same problem on my code) is that RStudio will want to update its Environment after each execution and this may take some time. I usually try to run large batch jobs in RGUI to avoid this issue.
Try it and report back.
here are my console output examples
as you see, there are no output values when using r studio console.
Actually, there are many related issues about this, but no clear solutions. Only a temporal or Adhoc solution like: restart R or using r notebook script.
Anyway, this phenomenon happens just 1 day ago, with the same code, same operations.
At the first time, console works and a few minutes later it doesn't work.
It is so annoying me to restart or run r notebook script...
Is anybody have the same issues as me?
(I cannot give reproducible data, because it works well the other's computer)
Click on the gear icon beside knit and make sure that "chunk output in console" is enabled.
Simple question but I can't figure it out in RStudio:
View(mydata) only gives me 1000 rows.
How can I increase this limit to a number of my choosing? Say, like 25,000?
It is not View() but also works in command-line R:
options(max.print=25000)
Printing is set to 25000 lines now.
RStudio preview version - Version 0.99.235 has "infinite scroll", so you can view all the data.
utils::View(df) will print everything also in Rstudio (Though this is not using the native Rstudio viewer, we will have to wait for the next version of Rstudio for that)
I don't think it's possible to view more than 1000 rows at a time. However, if your goal is to view data beyond the 1000th row, you can subset your dataset, as follows:
View(df[2000:3000,]) # will show rows 2000-3000
View(df[5000:6000,]) # will show rows 5000-6000
options(max.print=25000)
print.data.frame(<name_of_df>)
The problem is that when I run the code, there's no return in the console; I mean it does run the code, but does not return any output.
For example, if I write
v <- c(1, 2, 3, 4, 5)
v
I would expect in return
[1] 1 2 3 4 5
But it's not working.
I have version RStudio Version 0.98.1079 and R Version 3.1.1
Possibility 1 (until the + sign was mentioned): I was wondering if you had been doing a tutorial where they were demonstrating the sink function and you hadn't gotten to the point where it was reversed.
> sink('out.txt') # diverts all output to a disk file
> v <- c(1,2)
> v # output went to file
> sink() # sets the output back to the console
> v
[1] 1 2
Another way would be to call closeAllConnections:
> sink('out.txt')
> v
> v
> closeAllConnections()
> v
[1] 1 2
Possibility 2: To address the lack of response with a "+" showing at the Rstudio console ... that is a sign that the R parser "thinks" the entered text has not completed a full R command. It may indicate that you haven't typed a closing bracket or parenthesis. If typing one or two of those is unsuccessful and you keep getting mor +'s then you may be successful with typing the [esc]-key. If it is showing up immediately after a restart then you should check your code for correctness and make sure that the .Rdata file is deleted from your working directory. If you don't know what that means then you may need to search for the methods appropriate to your operating system. You could also have an error in the code of one of your .rprofile files.
In any case these two possibilities have nothing to do with Rstudio per se and everything to to with the typical behavior of an R console session in pretty much any IDE.
Do the lines still start with a "+"? It is also possible you forgot to close the brackets of a function. Try "}".
I had the same issue and none of the tips mentioned here were working.
Session > Restart R did the trick for me, possibly suggesting that I had a similar problem as andrewH but was not patient enough to wait for R to behave again.
This is a very old question, but I just had the same problem with a different cause, so I thought I would describe it here case it should be useful to someone else. I was getting the regular command prompt, with nothing more, no matter what I typed at the command line. I tried multiple returns, escape, sink, traceback, closeAllConnections (which did give me a response, "error: unexpected ) in (), but then went back to the command prompt and ignored a second traceback).
Anyway after half an hour or so of pulling my hair out, up pops "View(Mid2)". Mid2 is a tibble with 8.5 million observations of 88 numeric variables. I must have tapped it in the environment pane accidentally. I suppose it just took that long for the viewer to render it. I assume that all the other things I did hit at once, because RStudio crashed immediately thereafter.
The interesting thing about this particular version of the problem is what didn't happen. The red stop sign in the upper right of the console window, that lights when R is busy, didn't light. That is unfortunate -- but understandable, if the RStudio viewer is a different process. But also, when my computer is working hard on a really big computation or IO task, the fan usually starts, but it didn't. Don't know why. . I took its absence, incorrectly, to mean no such computation was underway.
If the lines in console are starting with "+".
Save your work and close the 'RStudio' or other tool which you are using and Start it again, it worked for me.
If you are using R Studio Cloud, refresh or re-opening won't work.
Only clue from the above posts or answers is your console will always start with '+'
In my case I tried all possibilities of closing braces.
And ")" worked for me when I typed that into the console and press enter.
sink() function did nothing in R Studio Cloud
A simple mistake might have also caused this problem:
A rather lengthy command left abandoned in the console is blocking the appearance of the result line.
Thus, the console only shows that line, but the result from any code run from the source, will not appear.
To solve this, just switch to the console, remove any remaining command and try again.
Experiencing something like that explained here as an unresponsive console to the R-Code running was just devastating for me when I experienced it. But luckly although I tried every trick explained in this page, it did not work for me. At last I clicked on the "To console" option available just below the Environment, History, Connections, Tutorial Tab on the R Studio. It solved the puzzle for me just now.
The best solution I've found is closeAllConnections and/or sink which almost always work
But as a stop gap measure, View()'ing always works. It's sort of a pain but whatever you wanted to print out, surround by View and you can see it
When I run a large R scripts (works nicely as expected, basically produces a correct PDF at the end of the script (base plotting plus beeswarm, last line of script is dev.off()), I notice that the PDF is finished after ~3 seconds and can even be opened in other applications, long before the console output (merely few integer values and echo of code ~400 lines) is finished (~20 seconds). There are no errors reported. In between, the echo stops and does nothing for seconds.
I work with R Studio V0.97.551, R version 3.0.1, on Win-7.
gc() or close and restart R did not help, and the data structures used are not big anyway (5 dataframes with up to 60 obs and 64 numeric or short character variables). The available memory should be sufficient (according to task manager, around 4 GB throughout), but CPU is busy during that time.
I agree this is not reproducible for other people w/o the script, which is however too large to post, but maybe someone has experienced the same problem or even an explanation or suggestion what to check? Thanks in advance!
EDIT:
I run exactly the same code directly in R 3.0.1 (w/o RStudio), and the problem was gone, suggesting the problem is related to RStudio. I added the tag RStudio, but I am not sure if I am now supposed to move this question somewhere else?
Recently I came across similar problem--running from RStudio becomes very slow, even when it is executing something as simple as example('plot'). After searching around, this post pointed me to the right place that eventually led to a workaround: resetting RStudio by renaming the "RStudio-Desktop Directory". The exact way to do so depends upon the OS you are using, and you could find the detail instruction here. I just tried it, and it works.