I was working with baby names data set and encountered below error while using transform function. Any guidance/suggestion would be highly appreciated. I did reinstalled the packages but of no avail.
Mac OS X (Mountain Lion)
R version 3.1.2 (2014-10-31) -- "Pumpkin Helmet"
library(stringr)
require(stringr)
bnames1 <- transform(bnames1,
first = tolower(str_sub(name,1,1)),
last = tolower(str_sub(name,-1,1)),
vowels = vowels(name),
length= nchar(name),
per1000 = 10000 * prop,
one_par = 1/prop
)
Error in tolower(str_sub(name, 1, 1)) :
lazy-load database '/Library/Frameworks/R.framework/Versions/3.1/Resources/library/stringr/R/stringr.rdb' is corrupt
In addition: Warning messages:
1: In tolower(str_sub(name, 1, 1)) :
restarting interrupted promise evaluation
2: In tolower(str_sub(name, 1, 1)) : internal error -3 in R_decompress1
internal error -3 is often a functioning of installing on top of a loaded package. Restart R and restart your application. There may be other issues, but until you do this you won't be going much further.
Try
remove.packages("stringr")
install.packages("stringr")
Related
I have a function in my package that uses tryCatch for condition handling.
f <- function(){
tryCatch(expr = warning("?!"), error = function(c) {message(c); 3},
warning = function(c) {message(c); 4})
}
When I try to write a unit test for this with testthat, I always get an error related to restart or muffleWarning. Any idea how to solve this? I want to match output to 4 during warning, in this case.
test_that("test_f", {
suppressWarnings(output <- f())
expect_equal(output, 4)
})
> devtools::test()
error: test_f
no 'restart' 'muffleWarning' found
Backtrace:
1. base::suppressWarnings(output <- f()) tests/testthat/test_file.R:27:2
14. base::invokeRestart("muffleWarning")
version R version 3.6.3 (2020-02-29)
os Ubuntu 16.04.6 LTS
system x86_64, linux-gnu
testthat * 2.3.2
Does anybody have an idea for what I need to reconfigure?
I'm on Mac OS X Version 9.0 (10601.1.56.2) and R version 3.2.2
The edit() function seems to work for simple objects and functions
R segfaults if I try editing a data frame however
R version 3.2.2 (2015-08-14) -- "Fire Safety"
Copyright (C) 2015 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin13.4.0 (64-bit)
[R.app GUI 1.66 (6996) x86_64-apple-darwin13.4.0]
> x <- rnorm(10)
> edit(x)
[1] 0.96793711 0.46449359 0.05136297 0.38438847 0.73942230 -1.12691486 -0.84414357 -3.67522840 -1.03864446
[10] -0.37159107
> x <- data.frame(x)
> edit(x)
*** caught segfault ***
address 0x10db0, cause 'memory not mapped'
Traceback:
1: as.matrix.data.frame(format.data.frame(x, digits = digits, na.encode = FALSE))
2: as.matrix(format.data.frame(x, digits = digits, na.encode = FALSE))
3: print.data.frame(x)
4: function (x, ...) UseMethod("print")(x)
Possible actions:
1: abort (with core dump, if enabled)
2: normal R exit
3: exit R without saving workspace
4: exit R saving workspace
Selection:
I am new to R. I have just installed R 3.2.2, and RStudio 0.99, under Windows 8.
As per section 3.2 Testing an Installation of Help contents,
I meant to execute the following 5 lines of commands.
Sys.setenv(LC_COLLATE = "C", LANGUAGE = "en")
library("tools")
testInstalledBasic("both")
testInstalledPackages(scope = "base", errorsAreFatal = FALSE)
testInstalledPackages(scope = "recommended", errorsAreFatal = FALSE)
The first 2 worked fine. The third threw an error, as shown here
> Sys.setenv(LC_COLLATE = "C", LANGUAGE = "en")
> library("tools")
> testInstalledBasic("both")
running strict specific tests
running code in ‘eval-etc.R’
unable to open output file
FAILED
[1] 1
Warning message:
running command '"C:/PROGRA~1/R/R-32~1.2/bin/x64/R" CMD BATCH --vanilla --no-timing "eval-etc.R" "eval-etc.Rout"' had status 2
>
What is the problem?
Could it be related to setting directories/permissions?
You seem to be missing the diff file from Rtools in the test folder. Simply copying/pasting should do the trick.
I'm running into an issue where plyr consistently crashes when an error is thrown from the supplied function
> require(plyr)
Loading required package: plyr
Warning message:
package ‘plyr’ was built under R version 3.0.2
> df <- data.frame(group=c("A","A","B","B"), num=c(11,22,33,44))
> ddply(df, .(group), function(x) {x})
group num
1 A 11
2 A 22
3 B 33
4 B 44
> ddply(df, .(group), function(x) {stop("badness")})
called from: (function ()
{
.rs.breakOnError(TRUE)
})()
Error in .fun(piece, ...) : badness
Browse[1]>
# Crashes immediately
Is anyone aware of why this may be occuring and how to prevent it (other than avoiding errors of course)?
(I'm running R 3.0.1 on platform: i386-w64-mingw32/i386 (32-bit) through RStudio 0.98.274 under Windows 7)
EDIT
As a workaround, I am redirecting any errors as warnings which avoids the crashes
ddply(df, .(group), function(x) tryCatch(stop("badness"), error = function(e) warning(e)) )
Will report what happens here if I manage to align the plyr and R versions.
I got the same issue on R 3.1.1 and plyr 1.8.1.
To fix it, I just reinstalled the package from source.
install.packages("plyr", type = "source")
I am trying to run the example for doSMP posted here:
require(plyr) # make sure you have 1.2 or later installed
x <- seq_len(20)
wait <- function(i) Sys.sleep(0.1)
system.time(llply(x, wait))
require(doSMP)
workers <- startWorkers(2) # My computer has 2 cores
registerDoSMP(workers)
system.time(llply(x, wait, .parallel = TRUE))
and I get the following warnings:
Warning messages:
1: <anonymous>: ... may be used in an incorrect context: ‘.fun(piece, ...)’
2: <anonymous>: ... may be used in an incorrect context: ‘.fun(piece, ...)’
What do these warnings mean, and should I worry about them?
edit:
getRversion() = 2.12.2
packageDescription("plyr", fields="Version") = 1.4
packageDescription("doSMP", fields="Version") = 1.0-1
Are you using windows?
I get the same error on linux.
And also the same error with doSNOW.
Then I tried with doMC instead of doSMP and it worked fine.