I'm trying to write a csv file in RStudio on a MacOS, but I'm getting this error:
Error: Failed to open '/Users/some.one/Documents/data'
and this is my code:
write_csv(dat, path_dat, na = "NA", append = FALSE, col_names = TRUE)
can someone maybe tell me what might cause such an error?
Edit:
dat ........... is a data frame
path_dat ...... is the path in the error : /Users/some.one/Documents/data
I would check that you have access to this directory. You can do via getwd()
If you don't, you can change the directory you're writing to via setwd(path_to_directory) and then run your write.csv function.
Related
I am trying to load a .RData file into my R Notebook in DSX. I have followed the instructions in this notebook (https://apsportal.ibm.com/exchange/public/entry/view/90a34943032a7fde0ced0530d976ca82) but am still unable to load my data. So far, I have been successful in the following steps:
I have loaded my dataset into object storage.
I inserted my credentials using the Insert to code -> Insert Credentials button. This seemed to work as expected.
In the next cell, I chose the Insert to code -> Insert textConnection object option. This seemed to work as expected also.
The output of step # 3 was as follows:
Your data file was loaded into a textConnection object and you can process the data with your package of choice.
data.1 <- getObjectStorageFileWithCredentials_xxxxxxxxxx("projectname", "file.RData")
After this, since my file is a .RData file, I typed the following command:
data <- load("file.RDA")
When I ran this cell, I got the following output:
Warning message in readChar(con, 5L, useBytes = TRUE):
“cannot open compressed file 'file.RDA', probable reason 'No such file or directory'”
Error in readChar(con, 5L, useBytes = TRUE): cannot open the connection
Traceback:
load("file.RDA")
readChar(con, 5L, useBytes = TRUE)
When I type in the following command to print the dataset:
data
I get the following output:
X.html..h1.Forbidden..h1..p.Access.was.denied.to.this.resource...p...html.
Please can someone help?
Thanks,
Venky
Here is a workaround given that load can't read from a response object since to read objects from Object storage, only way is the REST api.
I tried to use rawConnection instead of textConnection but it seems to be not helping.
So instead of passing the read object from OS directly to load or readRDS function.You can write it to GPFS of spark service attached and read it from there same as reading from local.
Change this lines from generated code:-
rawdata <- content(httr::GET(url = access_url, add_headers ("Content-Type" = "application/json", "X-Auth-Token" = x_subject_token)), as="raw")
rawdata
Basically instead of returning text , return raw object and then write that as binary object to local GPFS.
data.3 <- getObjectStorageFileWithCredentials_216c032f3f574763ae975c6a83a0d523("testObjectStorage", "sample.rdata")
writeBin(data.3,"sample.rdata")
Now read it back using readRDS or load.
load("sample.rdata")
To see loaded dataframe.
ls()
I hope it helps.
Thanks,
Charles.
I got a very strange problem when trying to read via read.table a txt file in a folder. It recognizes the existence of the file (I debugged via print method) but it is not able to read the file into a table.
Anybody has an idea of what is going wrong?
I already looked at the other related topics but I didn't find any answer which fits my problem.
Here is my code:
path1 = "/home/yoda/Desktop/thesis/TullyFisher/Galac.RC_Dwarfs/TFRCHI/bins_29_04/7bins_TF/datasets/TFR/"
out.file<-""
file.names1 <- dir(path1, pattern =".txt")
listofdfs<-list()
for(i in 1:length(file.names1))
{
print(file.names1[i])
file <- read.table(file.names1[i])
df<-data.frame(as.numeric(file[[1]]),as.numeric(file[[2]]),as.numeric(file[[3]]),as.numeric(file[[4]]))
listofdfs[[i]]<-df
#write.table(listofdfs[[i]],file=paste0("outliers_",file.names1[i],quote=F,row.names = F, col.names = F))
}
It returns :
[1] "toplot1_normalTF.txt"
Error in file(file, "rt") : cannot open the connection
In addition: Warning message:
In file(file, "rt") :
cannot open file 'toplot1_normalTF.txt': No such file or directory
It must be the file path. That directory is not the working directory and dir() is only returning the filenames and not the full path . Using full.names argument should solve this. For example
dir("~/Desktop", full.names = T)
Error is because the files you are trying to read are not in current directory.
R always try to read file from current directory.
To know your current directory try :
getwd()
it is different from the path1 for you.
So as menioned above by #R.S. please use full.names. Try below:
path1 = "/home/yoda/Desktop/thesis/TullyFisher/Galac.RC_Dwarfs/TFRCHI/bins_29_04/7bins_TF/datasets/TFR/"
out.file<-""
file.names1 <- dir(path1, pattern =".txt",full.names = T)
when i loading csv file for R, i can see the error
but i don't know why this happening
i wrote following code:
setwd("C:\\Users\\규남\\Desktop\\twitter")
library(KoNLP)
useSejongDic()
txt <- readLines(file("test.csv"))
and, this error appear
txt <- readLines(file("test.csv"))
Error in readLines(file("test.csv")) : cannot open the connection
In addition: Warning message:
In readLines(file("test.csv")) :
cannot open file 'test.csv': No such file or directory
why this happening?
file directory is not wrong, and that file in the folder
[enter image description here][1]
please see this
i restart Rstudio, even notebook power
but error appear again
how to i load that csv file?
and why this happening?
here is result useing getwd() function
[1] "C:/Users/규남/Desktop/twitter"
Warning message:
closing unused connection 3 (test.csv)
[1]: http://i.stack.imgur.com/xkFkt.png
When working through these problems I like to use the file.path() function. Look at the documentation, but it makes certain that the separator characters that are used in the string are what R is expecting.
Try:
path <- file.path("C:", "Users", "규남", "Desktop", "twitter")
setwd(path)
library(KoNLP)
useSejongDic()
txt <- readLines(file("test.csv"))
I'm trying to read a SBML file (Test.xml) using the R package SBMLR. Below is the code I executed.
library(SBMLR)
file <- system.file("models","Test.xml",package = "SBMLR")
doc <- readSBML(file)
When I execute the 3rd line I get an error message saying:
Error in xmlEventParse(filename, handlers = sbmlHandler(),
ignoreBlanks = TRUE) : File does not exist
I have tried to read the file using rsbml library as well.. But still I'm getting an error saying
Error: File unreadable.
I'm following this guide at the moment. Any help regarding the issue is highly appreciated!
I have installed the required packages - gdata and ggplot2 and I have installed perl.
library(gdata)
library(ggplot2)
# Read the data from the excel spreadsheet
df = data.frame(read.xls ("AssignmentData.xlsx", sheet = "Data", header = TRUE, perl = "C:\\Strawberry\\perl\\bin\\perl.exe"))
However when I run this I get the following error:
Error in xls2sep(xls, sheet, verbose = verbose, ..., method = method, :
Intermediate file 'C:\Users\CLAIRE~1\AppData\Local\Temp\RtmpE3UYWA\file8983d8e1efc.csv' missing!
In addition: Warning message:
running command '"C:\STRAWB~1\perl\bin\perl.exe" "C:/Users/Claire1992/Documents/R/win-library/3.1/gdata/perl/xls2csv.pl" "AssignmentData.xlsx" "C:\Users\CLAIRE~1\AppData\Local\Temp\RtmpE3UYWA\file8983d8e1efc.csv" "Data"' had status 2
Error in file.exists(tfn) : invalid 'file' argument
Thanks to #Stibu I realised I had to set my work directory. This is the command you use to run in Rstudio; setwd("C/Documents..."). The file path is where the excel file is located.
I had the issue but I solved it differently.
My problem was because my file was saved as Excel (extension .xls) but it was a txt file.
I corrected the file and I did not meet any other error with the R function.