similar to: R CMD in batch mode/trycatch() keeps hold on resources

Recently on stackoverflow following problem came up : http://stackoverflow.com/questions/7103429/all-the-connections-are-in-use-execution-halted/7108799#7108799 A reproducible example: When trying replicate(200,tryCatch(read.table("this.is.no.file"), warning=function(w){print(showConnections());print("warning")})) No connections are shown, but after a number of

Hello, I cannot reproduce this behavior and, as documented, the posted code doesn't issue warnings due to a wrong timezone but I'm running sessionInfo() R version 4.0.3 (2020-10-10) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Ubuntu 20.04.1 LTS Matrix products: default BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0 LAPACK:

Dear list members, I have come about a peculiar behavior in R (4.0.2) which I would describe as a bug. On macOS, where `strptime()` raises a warning for invalid timezone identifiers, the following code will continue to raise the original warning with every subsequent call to `strptime()`: ``` # attach a handler for warnings for this call only: tryCatch(strptime('2020-10-31 18:30', format

The following example involves a function whose on.exit() expression both generates an error and catches the error. The body of the function also generates an error. When calling the function wrapped in a tryCatch, should that tryCatch's error function be given the error from the body of the function, since the one from the on.exit has already been dealt with? Currently the outer tryCatch

G'day Federico, On Wed, 17 May 2023 10:42:17 +0000 "Calboli Federico (LUKE)" <federico.calboli at luke.fi> wrote: > sexsnp = rep(NA, 1750) > for(i in 1:1750){tryCatch(sexsnp[i] = fisher.test(table(data[,3], > data[,i + 38]))$p, error = function(e) print(NA))} Error: unexpected > '=' in "for(i in 1:1750){tryCatch(sexsnp[i] =" Try: R> for(i in

Having a hard time understanding the help files for tryCatch. Looking for a little help with the following statement which sits inside a for loop zest[i] <- tryCatch(sapply(getNodeSet(zdoc, "//zestimate/amount"), xmlValue), error=function() zest[i] <-"NA") zest is a numeric vector If the sapply statement evaluates to an error, I'd like to set the value of zest[i]

Dear all, I am not sure I understand fully the functionality of "tryCatch" and "try" commands and how these are used to continue a for/next loop if an error occurs within the loop. Can somebody point me to material (or share some code) with more extensive examples than the ones in the help/FAQ pages? Do explain my problem in more detail: for (i in 100:1000) { ## do

Buenos días, Quiero hacer una función con un "if", que si devuelve un error dentro de él se pare la ejecución de la función devolviendo un valor. El código que tengo, para las pruebas, es el siguiente: prueba<-function(a){ b<-"no ha hecho stop" c<-"hago el stop" if(a<3){ variable<-"hola" tryCatch({ write("entro en el

With tryCatch() it is possible to catch interrupts with tryCatch(). Then you can use a 'finally' statement to clean up, release resources etc. However, how can I "protect" against additional interrupts? This is a concern when the hold down Ctrl+C and generates a sequence of interrupts. Example: tryCatch({ cat("Press Ctrl+C...\n"); Sys.sleep(5); }, interrupt =

Because `<-` and `=` do different things (and I am one of the old fossils that wish they had not been confounded). `fun(x <- expr)` Assigns the value of `expr` to the variable `x` in the frame/environment that `fun` is called from. `fun(x = expr)` Assigns the value of `expr`to the variable `x` in the frame/environment created for and used by `fun` subject to the rules of argument matching.

I would like to do inserts into a database table, but do updates in the fairly rare cases in which the inserts fail. I thought tryCatch might be the way to do it, but I honestly do not understand the help file for tryCatch at all. I thought something like this might work: for (i in seq(along = tbl$key)) { tryCatch(sqlSave(pg, tbl[i, ], "tbl", append = TRUE, rownames = FALSE),

Hello, I run a fisher.test() in a loop, with the issue that some of the data will not be useable. To protect the loop I used tryCatch but: sexsnp = rep(NA, 1750) for(i in 1:1750){tryCatch(sexsnp[i] = fisher.test(table(data[,3], data[,i + 38]))$p, error = function(e) print(NA))} Error: unexpected '=' in "for(i in 1:1750){tryCatch(sexsnp[i] =" But this works: for(i in

Hello all, I'm a beginner in R working on a script that will produce a set of models (linear, polynomial and logistic) for each location in a dataset. However, the self-starting logistic model often fails - if this happens I would like to just skip to the next iteration of the loop using tryCatch. I've looked at a few examples and read the help file, but didn't understand tryCatch

So after about 4 hours struggling with Try and TryCatch I am throwing in the towel. I have a more complicated function that used logspline through iterative distributions and at some point the logspline doesnt function correctly for some subsets but is fine with others so I need to be able to identify when the error occurs and stop curtailing the distribution and I think this Try or TryCatch

Hi, I am actually working on some auto-routine to import XML file, run some analysis on them and create graph as jpeg. The files are in different language french/english/danish even chinese. At the moment I'm focusing on the European language. I import them using the XML package and specify encoding="UTF-8" which seems to work pretty well when I write the text in the console, the

Dear R-devel community, There appears to be an inconsistency in R C API about the exceptions that can be raised from C code. Mapping of R C funs to corresponding R functions is as follows. error -> stop warning -> warning REprintf -> message Rprintf -> cat Rprint/cat is of course not an exception, I listed it just for completeness. The inconsistency I would like to report is

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

I would like to use the 'tryCatch' function but am having a hard time getting my head around it. In 'C' like languages try/catch/finally means try a block of statements and if any throw an error then do the statements in the catch block and then error or not always do the staements in the finally block. In 'R' as best as I can tell the block of staements in the try block is

Hi all, I often run a bunch of code with Run Selection, and, after it's done running, I find there have been like 20 errors, all due to an error that occurred early in my code, which caused problems from there on. (I must then scroll up through lots of code to find it.) What I would like is for R to stop executing when an error occurs. I am aware of a few solutions: 1. Put all the code in a

Folks: I've replaced an outer for-loop with lapply and it works great. But, I can't seem to do the following type of exception handling: tryCatch(dlmMLE(x)$value==Inf,error = function(e) NULL) which basically says if the likelihood is Inf, throw an error. But what I want it to do is just go to the next index in the list. When I was using a for-loop I used: