search for: withcallinghandlers

Hello, I want to use withCallingHandlers(expr, warning = function(w) { ....}), that is, to use a custom warning handler. I want this handler to replicate the behavior of the usual handler. I have problems with the mode 'options(warn = 0)' where the warnings are delayed, except if calling 'warning("message", imme...

When batch processing analysis, I use tryCatch() for failure handling and to prevent unwanted interrupts. I write detailed progress to log file and conditions (warnings and errors) are written to the same log file immediately by using withCallingHandlers(..., condition=function(c) cat(c, file=logFile)). However, I would also like to write the call stack to the log file to further simplify troubleshooting; traceback() does unfortunately not work here. From ?traceback, we have "Errors which are caught _via_ 'try' or 'tryCatch...

>From https://github.com/HenrikBengtsson/Wishlist-for-R/issues/70 : ... and follow up note from 2018-03-15: Ouch... in R-devel, stopifnot() has become yet 4-5 times slower; ... which is due to a complete rewrite using tryCatch() and withCallingHandlers(). >From https://stat.ethz.ch/pipermail/r-devel/2017-May/074256.html , it seems that 'tryCatch' was used to avoid the following example from giving error message with 'eval' call and 'withCallingHandlers' was meant to handle similar case for warning. tst <- function(...

My points: - The 'withCallingHandlers' construct that is used in current 'stopifnot' code has no effect. Without it, the warning message is the same. The overridden warning is not raised. The original warning stays. - Overriding call in error and warning to 'cl.i' doesn't always give better outcome. The original...

...inally = { cat("Trying to finalize. Press Ctrl+C...\n"); Sys.sleep(5); cat("...and this line will not be evaluated.\n"); }) Additional tryCatch() inside 'finally' will have the same problem and so. One idea I had was to wrap up the 'finally' statement in a withCallingHandlers(, interrupt=...), but it seems that withCallingHandlers() does not catch interrupts. For example, I tried to replace 'tryCatch' with 'withCallingHandlers' in the above code. So, what I basically need is a way to turn off interrupts during the evaluation of 'finally' or a wa...

Hello, I would like to establish top level condition handlers and restarts, so that I don't explicit calls to withCallingHandlers and withRestarts in many places: For example : > customError function( message ){ err <- simpleError( message ) class( err ) <- c( "customError", class( err) ) err } > withCallingHandlers( { signalCondition(customError( "ouch")) } , customError = functio...

...o submitted this problem on SO: http://stackoverflow.com/questions/20268021/how-to-catch-warnings-sent-during-s4-method-selection Example code: setGeneric('my_method', function(x) standardGeneric('my_method') ) setMethod('my_method', 'ANY', function(x) invisible()) withCallingHandlers(my_method(warning('argh')), warning = function(w) { stop('got warning:', w) }) # this does not catch the warning It seems that the warnings emitted during the evaluation of the arguments of S4 methods can not get caught using withCallingHandlers(). Is this expected ? Is there a wo...

Hi, I am facing one problem of fetching R warning messages in Java Code using Rserve. It is easier to trap R Error messages by using catching RSrvException. I came to know one way of fetching R Warning messages, i.e. using "withCallingHandlers", below is my Java Program, which uses withCallingHandlers of R : import org.rosuda.JRclient.*; ---------------------------RWarning.java----------------------- class RWarning { public static void main(String args[]) { try { String hostName = null; hostName = args[...

...ormal output b) a warning c) an error Since the function is called several (thousand) times in a loop, I would like to proceed "quietly" and collect the warnings and errors [to deal with them at a later point]. I have seen constructs with tryCatch (which can deal with errors) and with withCallingHandlers (which can deal with warnings), but I cannot figure out how to catch *both* warnings and errors. Below is a minimal example of the function that is called several times in a large loop. The function should catch warnings and errors; the former work fine, but with the latter I do not know how to p...

...or all its heavy lifting but includes a wrapper shell script, I was hoping to find a way to capture all warnings (and, in fact, errors too), and handle them in my own way. I realise I can do this for a single expression using something like: > f <- function(w) print(w$message) > withCallingHandlers(warning("Test"),warning=f) [1] "Test" Warning message: In withCallingHandlers(warning("Test"), warning = f) : Test But I would like to capture all warnings, globally. The "warning.expression" option doesn't seem to allow an argument, and I can't...

...or message of fc(is.numeric(y)) shows the originating call in R 3.3.1. As I see, error message only has one line of call. If the deparsed call spans more than one line, the rest is not shown. In 'stopifnot' in R 3.5.x, each is wrapped in 'tryCatch' which is wrapped again in 'withCallingHandlers'. Just one wrapping may be enough. The 'withCallingHandlers' construct in 'stopifnot' in R 3.5.x has no effect anyway, as I said before (https://stat.ethz.ch/pipermail/r-devel/2019-February/077386.html). Also, 'tryCatch' (or 'withCallingHandlers' ...) can wrap th...

...: see ??? in expression below. Can anyone help, or suggest pointers to relevant examples/documentation (I've looked at demo(error.catching), which isn't helping me ... ?) suppressWarnings2 <- function(expr,regex=NULL) { opts <- options(warn = -1) on.exit(options(opts)) withCallingHandlers(expr, warning = function(w) { ## browser() if (is.null(regex) || grepl(w[["message"]],regex)) { invokeRestart("muffleWarning") } else { ## ? what do I here to get the warning issued? ## browser() ## computeR...

Hi, folks! I'm trying to pull in data using read.csv("my URL goes here"), and it really works fantastically. Amazing to pull in live data right off the internet, into RAM, and get busy... however... occasionally there is a server problem, or the data are not up yet, and instead of pushing through a nice CSV file, the server sends a 404 "Not Found" page... Since the

...of "base:sqrt:nan_produced". suppressMessage and suppressWarnings gain an ids arg, defaulting to NULL, which preserves existing behaviour. If it takes a character vector, messages with the IDs provided get muffled. Something like: suppressMessages <- function (expr, ids = NULL) { withCallingHandlers( expr, message = function(c) { if(is.null(ids) || (inherits(c, "simpleMessage") && c$id %in% as.character(ids))) { invokeRestart("muffleMessage") } } ) } The hard part is providing IDs for all the existing messages in R an...

Hello, 1. The Situation : ------------------------ The stack traceback is not available when error ouccured in a try(....) -- test.R -------------------------------- f<-function(a){ return ( log(a) ) } try(f("A")) traceback() ------------------------------------------- I get the following message : > try(f("A")) Error in log(x) : Non-numeric argument to mathematical

...;parallel' jobs take too much memory to store and transfer to the cluster workers. I've managed to trace it to the following: # `payload` is being written to the cluster worker. # The function FUN had been created as a closure inside my package: payload$data$args$FUN # function (l, ...) # withCallingHandlers(fun(l$x, ...), error = .wraperr(l$name)) # <bytecode: 0x5644a9f08a90> # <environment: 0x5644aa841ad8> # The function seems to bring a lot of captured data with it. e <- environment(payload$data$args$FUN) length(serialize(e, NULL)) # [1] 738202878 parent.env(e) # <environmen...

Hi, With the use of R in production, it is necessary to have a system of logs effective, and light. Package exist as to futile.logger, but it require the additional coding of logs. So it is thus impossible / very difficult to use it with all package them used in the calculation Our idea is to develop one packages global, simple, who would allow to identify all the errors, warning, message

Thanks Luke, On 10 September 2015 at 14:47, <luke-tierney at uiowa.edu> wrote: > Conditions have classes and the condition system is designed around > the idea that classes would be used for this sort of thing. That is > already how tryCatch and withCallingHandlers discriminate the > conditions to handle. That makes sense. Though with my sqrt example, it's just a plain simpleWarning, which doesn't give you the opportunity to do special handling. tryCatch(sqrt(-1), warning = function(w) class(w)) ## [1] "simpleWarning" "warning&quo...

You can capture warnings by using withCallingHandlers. Here is an example, its help file has more information. dataList <- list( A = data.frame(y=c(TRUE,TRUE,TRUE,FALSE,FALSE), x=1:5), B = data.frame(y=c(TRUE,TRUE,FALSE,TRUE,FALSE), x=1:5), C = data.frame(y=c(FALSE,FALSE,TRUE,TRUE,TRUE), x=1:5)) withWarnings <- function(expr) { ....

Hello when my code executes I receive the message that were some warnings. I want to catch warning messages at run time so to print some local variables and try to understand why this warning happens. I searched on internet and I tried withCallingHandlers( which seems to work but as I used Rkward the result is awful. I get a prompt to copy paste a value only while at the same time my background window with my code is not anymore accessible. Actually I get the warning that In f[cbind(shweights[, 1], shweights[, 2])] * shweights[,  ... :   longer o...