I'm sending a curlPerform with curl.opts set to
curl.opts = curlOptions(
httpheader = c(
'Content-Type' = "application/x-www-form-urlencoded; charset=UTF-8",
'Accept' = "application/json"
),
verbose = FALSE,
header = TRUE,
useragent = "RCurl"
)
and I eventually get the error "failed to connect to 192.168.141.136: no buffer space".
I need to run this program constantly for days but this happens after about 6 minutes.
Is there a way to set the buffer maximum higher?
Alternatively, is there a way to view how much "buffer space" is remaining? If so I can set it to restart R and resume the program.
Note that this happens if the program runs for a while, stops, and I manually restart it. The "buffer" is never being cleared. The only way to clear it that I've found is to restart R.
If it helps, I also lose my "connection" with Rstudio, even if I'm just doing this with a separate R window, and I also lose my connection to the internet after getting this error until I close R
edit: here is a partial result of traceback() (the rest isn't a problem)
11: fun(structure(list(message = msg, call = sys.call()), class = c(typeName,
"GenericCurlError", "error", "condition")))
10: function (type, msg, asError = TRUE)
{
if (!is.character(type)) {
i = match(type, CURLcodeValues)
typeName = if (is.na(i))
character()
else names(CURLcodeValues)[i]
}
typeName = gsub("^CURLE_", "", typeName)
fun = (if (asError)
stop
else warning)
fun(structure(list(message = msg, call = sys.call()), class = c(typeName,
"GenericCurlError", "error", "condition")))
}(7L, "Failed to connect to 192.168.141.136: No buffer space",
TRUE)
9: .Call("R_curl_easy_perform", curl, .opts, isProtected, .encoding,
PACKAGE = "RCurl")
8: curlPerform(url = "http://gt-tradeview/House/TradeView/ajax/varys",
postfields = mkURL(parameters), .opts = curl.opts, writefunction = r$update,
post = 1L, curl = r$curl()) at functiondefinitionsLive.R#211
7: value[[3L]](cond)
6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
5: tryCatchList(expr, classes, parentenv, handlers)
The problem was that handles were being reserved with every call, and never closed. To prevent this, get a curl handle with getCurlHandle() then pass that with the curl argument in dynCurlReader()
I was having the same issues with the getURL command. I tried CloseAllConnections() but that did not seem to work.
When I restarted the R session then the issue was resolved automatically. However, I have to admit that I got the issue when my RStudio ( R Session ) was opened for a long time. Might be some memory usage that an empty R Session does
Related
I have code that includes several initial checks of different parameter values. The code is part of a larger project involving several R scripts as well as calls from other environments. If a parameter value does not pass one of the checks, I want to
Generate a customizable result code
Skip the remaining code (which is not going to work anyhow if the parameters are wrong)
Create a log entry with the line where the error was thrown (which tells me which test was not passed by the parameters)
Print my customizable result code to the console (without a more detailed explanation / trace back from the error)
Otherwise, the remaining code should be run. If there are other errors (not thrown by me), I also need an error handling resulting in a customizable general result code (signalling that there was an error, but that it was not one thrown by me) and a more detailled log.
The result codes are part of the communication with a larger environment and just distinguishes between wrong parameter values (i.e., errors thrown by me) and other internal problems (that might occur later in the script).
I would like to use tryCatchLog because it allows me to log a detailed traceback including the script name (I am sourcing my own code) and the line number. I have not figured out, however, how to generate my own error code (currently I am doing this via the base function stop()) and pass this along using tryCatchLog (while also writing a log).
Example
In the following example, my parameter_check() throws an error via stop() with my result code "400". Using tryCatchLog I can catch the error and get a detailed error message including a traceback. However, I want to seperate my own error code (just "400"), which should be printed to the console, and a more detailed error message, which should go to a log file.
library(tryCatchLog)
parameter_check <- function(error) {
if (error){
stop("400")
print("This line should not appear")
}
}
print("Beginning")
tryCatchLog(parameter_check(error = TRUE),
error = function(e) {print(e)}
)
print("End")
Currently, the result is:
[1] "Beginn"
ERROR [2021-12-08 11:43:38] 400
Compact call stack:
1 tryCatchLog(parameter_check(0), error = function(e) {
2 #3: stop("400")
Full call stack:
1 tryCatchLog(parameter_check(0), error = function(e) {
print(e)
2 tryCatch(withCallingHandlers(expr, condition =
cond.handler), ..., finall
3 tryCatchList(expr, classes, parentenv, handlers)
4 tryCatchOne(expr, names, parentenv, handlers[[1]])
5 doTryCatch(return(expr), name, parentenv, handler)
6 withCallingHandlers(expr, condition = cond.handler)
7 parameter_check(0)
8 #3: stop("400")
9 .handleSimpleError(function (c)
{
if (inherits(c, "condition")
<simpleError in parameter_check(0): 400>
I would like to get my own result code ("400") so that I can print it to the console while logging the complete error message in a file. Is there a way of doing it without writing code parsing the error message, etc.?
Solution with tryCatch
Based on the hint by R Yoda and this answers this is a solution with tryCatch and calling handlers.
### Parameters
log_file_location <- "./logs/log.txt"
### Defining functions
parameter_check_1 <- function(error) {
if (error){
stop("400")
}
}
parameter_check_2 <- function(error) {
if (error){
stop("400")
}
}
write_to_log <- function(file_location, message) {
if (file.exists(file_location))
{write(message, file_location, append = TRUE)}
else
{write(message, file_location, append = FALSE)}
}
parameter_check <- function(){
print("Beginning of parameter check")
print("First check")
parameter_check_1(error = TRUE)
print("Second check")
parameter_check_2(error = FALSE)
print("End of parameter check")
}
main<- function() {
print("Beginning of main function")
log(-1) # throws warning
log("error") # throws error
print("End of main function")
}
### Setting parameters
result_code_no_error <- "200"
result_code_bad_request <- "400"
result_code_internal_error <- "500"
# initial value for result_code
result_code <- result_code_no_error
print("Beginning of program")
### Execute parameter check with tryCatch and calling handlers
# Error in parameter checking functions should result in result_code_bad_request
tryCatch(withCallingHandlers(parameter_check(),
error = function(condition){},
warning = function(condition){
write_to_log(log_file_location, condition$message)
invokeRestart("muffleWarning")
}
),
error = function(condition) {
write_to_log(log_file_location, condition$message)
result_code <<- result_code_bad_request
}
)
### Execute main section with tryCatch and calling handlers
# Error in main section should result in result_code_internal_error
# main section should only be excecuted if there is no error (internal or bad request) in the previous section
if (result_code == result_code_no_error) {
tryCatch(withCallingHandlers(main(),
error = function(condition){},
warning = function(condition){
write_to_log(log_file_location, condition$message)
invokeRestart("muffleWarning")
}
),
error = function(condition) {
write_to_log(log_file_location, condition$message)
result_code <<- result_code_internal_error
}
)
}
print("End of program")
print(result_code)
As explained in the vignette for tryCatchLog this has the disadvantage of not logging the precise location of the error. I am not passing on the error message from stop("400"), because all parameter checking functions are in one function call now, but this could be done using condition$message.
The solution is (totally independent of using tryCatchLog or standard R tryCatch):
...
error = function(e) {print(e$message)}
..
Background (how R errors work): They create an object of type (error) condition:
e <- simpleError("400") # same "condition" object as created by stop("400")
str(e)
# List of 2
# $ message: chr "400"
# $ call : NULL
# - attr(*, "class")= chr [1:3] "simpleError" "error" "condition"
print(e$message)
[1] "400"
When I try to install a package from github I am gettin the following error:
devtools::install_github("<DeveloperName>/<PackageName>")
Error: HTTP error 404.
Not Found
Rate limit remaining: 24/60
Rate limit reset at: 2019-01-07 21:36:52 UTC
This doesn't make sense to me as the "/" are correctly entered and till take me to the repo when entered into my browser when entered after github.com. (Apologies that the repo is private to my company or I would share the actual developer and repo names.)
My traceback reads:
8.stop(github_error(res))
7.github_commit(username = remote$username, repo = remote$repo, host = remote$host, ref = remote$ref, pat = remote$auth_token %||% github_pat(), use_curl = use_curl)
6.remote_sha.github_remote(remote, local_sha)
5.remote_sha(remote, local_sha)
4.FUN(X[[i]], ...)
3.vapply(remotes, install_remote, ..., FUN.VALUE = character(1))
2.install_remotes(remotes, auth_token = auth_token, host = host, dependencies = dependencies, upgrade = upgrade, force = force, quiet = quiet, build = build, build_opts = build_opts, repos = repos, type = type, ...)
1.devtools::install_github("<DeveloperName>/<PackageName>")
I cannot find documentation to explain my final traceback error: "stop(github_error(res))". I have updated to latest version of devtools, but the problem persists.
I am trying to convert a text from French to English using translate
function in translateR package. I am using MS translator. Could
anybody help me to solve this? I am new to R language and don't have
much expertise into this.
This code:
library(translateR)
res <- translate(content.vec = c("Hello world.", "This is a test."),
microsoft.client.id = "143bc77b-80fd-4a71-ae9d-7e37373fd84c",
microsoft.client.secret = "biAW515)[jpbulULGTK11$+",
source.lang = "en",
target.lang = "de")
res
Throws error:
Error in function (type, msg, asError = TRUE) :
Could not resolve host: datamarket.accesscontrol.windows.net
In addition: Warning message:
The content appears to be in MIDDLE_FRISIAN. However, the language code you provided suggests that
the text is in ENGLISH. If you entered the wrong language code, stop the process. Otherwise,
translateR will treat the text as ENGLISH.
I am building a function to connect to a specific password-protected ODBC data source that will be used many members of a team - it may be used in multiple environments. In the event that the connection is rejected, I would like to display the warning messages but mask the password that's displayed. If I use suppressWarnings() nothing gets captured as far as I can tell, and if I don't, then the message is displayed in the standard output with the password. Here's the function so far:
connectToData <- function(uid, pswd, dsn='myDSN') {
# Function to connect to myDSN data
#
# Args:
# uid: The user's ID for connecting to the database
# pswd: The user's password for connecting to the database.
# dsn: The DSN for the (already existing) ODBC connection to the 5G
# data. It must be set up on an individual Windows user's machine,
# and they could use any name for it. The default is 'myDSN'
#
# Returns:
# The 'RODBC' class object returned by the RODBC:odbcConnect() function.
#
# TODO: 1) See if you can specify the connection using odbcDriverConnect()
# so as to not rely on user's ODBC connections
# 2) Capture warnings from odbcConnect() and print them while
# disguising password using gsub, as I've attempted to do below.
library('RODBC')
db.conn <- odbcConnect(dsn,
uid=uid,
pwd=pswd)
if(class(db.conn) != 'RODBC') { # Error handling for connections that don't make it
print(gsub(pswd,'******',warnings())) # This doesn't work like I want it to
stop("ODBC connection could not be opened. See warnings()")
} else {
return(db.conn)
}
}
When I run it with the right username/password, I get the right result but when I run it with a bad password, I get this:
> db.conn <- connectTo5G(uid='myID',pswd='badpassword', dsn='myDSN')
[1] "RODBC::odbcDriverConnect(\"DSN=myDSN;UID=myID;PWD=******\")"
[2] "RODBC::odbcDriverConnect(\"DSN=myDSN;UID=myID;PWD=******\")"
Error in connectTo5G(uid = "myID", pswd = "badpassword", dsn = "myDSN") :
ODBC connection could not be opened. See warnings()
In addition: Warning messages:
1: In RODBC::odbcDriverConnect("DSN=myDSN;UID=myID;PWD=badpassword") :
[RODBC] ERROR: state 28000, code 1017, message [Oracle][ODBC][Ora]ORA-01017: invalid username/password; logon denied
2: In RODBC::odbcDriverConnect("DSN=myDSN;UID=myID;PWD=badpassword") :
ODBC connection failed
The print(gsub(...)) appears to work on the most recent warnings from before the function was invoked, and it also only prints the function call that produced the warning, not the text of the warning.
What I would like to do is capture everything after "In addition: Warning messages:" so that I can use gsub() on it, but avoid printing it before the gsub() gets a chance to work on it. I think I need to use withCallingHandlers() but I've looked through the documentation and examples and I cannot figure it out.
Some extra background: This is an Oracle database that locks users out after three attempts to connect so I want to use stop() in case someone writes code that calls this function multiple times. Different users in my group work in both Windows and Linux (sometimes going back and forth) so any solution needs to be flexible.
Catching error messages
I do not fully understand what you want to accomplish with ODBC but in terms of converting the error message, you can use tryCatch as #joran suggested
pswd = 'badpassword'
# Just as a reproducable example, a function which fails and outputs badpassword
failing <- function(){
badpassword == 1
}
# This would be the error handling part
tryCatch(failing(),
error = function(e) gsub(pswd, '******', e))
[1] "Error in failing(): object '******' not found\n"
e in this case is the error message and you could think of other ways to manipulate what is put to your screen, so it would not be as easy to guess passwords based on what was replaced. Note for example that 'object' would have been replaced as well if the password had been 'object' for some reason. Or even parts of words, which get replaced as well. At the very least, it would make sense to include word boundaries in the gsub command:
pswd = 'ling'
failing <- function(){
ling == 1
}
tryCatch(failing(),
error = function(e) gsub(paste0("\\b", pswd, "\\b"), '******', e))
[1] "Error in failing(): object '******' not found\n"
For other improvements you should look closely at the specific error messages.
Warnings
trycatch can also manipulate warning:
pswd = 'ling'
failing <- function(){
warning("ling")
ling == 1
}
tryCatch(failing(),
warning = function(w) gsub(paste0("\\b", pswd, "\\b"), '******', w),
error = function(e) gsub(paste0("\\b", pswd, "\\b"), '******', e))
[1] "simpleWarning in failing(): ******\n"
This will not show the error then, however.
withCallingHandlers
If you really want to catch all output from errors and warnings, you do indeed need withCallingHandlers, which works mostly in the same way, except that it does not terminate the rest of the evaluation.
pswd = 'ling'
failing <- function(pswd){
warning(pswd)
warning("asd")
stop(pswd)
}
withCallingHandlers(failing(),
warning = function(w) {
w <- gsub(paste0("\\b", pswd, "\\b"), '******', w)
warning(w)},
error = function(e){
e <- gsub(paste0("\\b", pswd, "\\b"), '******', e)
stop(e)
})
I need to rename a remote file once I download them. I tried to use the following command, but its not working.
input = getURL(url, userpwd="user:password", postquote=c("/inputs/", "RNFR abc.xml", "RNTO abc.xml_processed"))
This is throwing the error message
Error in function (type, msg, asError = TRUE) : Unknown SFTP command
Please somebody suggest me some insight into this.
Update
I tried with the complete paths like,
input = getURL("url/abc.xml", userpwd="user:password", postquote=c("RNFR /inputs//abc.xml", "RNTO /inputs/abc.xml_processed"))
Still same error Error in function (type, msg, asError = TRUE) : Unknown SFTP command.