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I am using R with readxl package. I try to import an Excel file with the following command:
library(readxl)
city_codes <- read_excel("./data/file.xlsx", sheet = "city_codes")
It says it is a zip file and cannot be opened:
Error in sheets_fun(path) :
Evaluation error: zip file './data/file.xlsx' cannot be opened.
Any ideas?
I had this error, but for me, it was just that I had the sheet open in Excel while trying to read it into R. I guess the package wrongly perceives it as a zip file when it's trying to read it while Excel has partial ownership of it (and this blocks the read).
The error message is readxl's funny way of saying "file not found". That exact line of code gives me the exact same error, and the file doesn't even exist for me.
Note: I'm on version 1.0.0 of readxl
For me the "Evaluation error: zip file" error message also appeared when the excel spreadsheet was still opened in MSExcel.
You can specify a path to a file, only if it is nested on the working directory.
For example: If your working directory is MyWD and there is a folder in it, named MyData and another folder within MyData named MyNestedData, and finally myExcelFile.xlsx
read_excel("MyData/MyNestedData/myExcelFile.xlsx",sheet = "Sheet2") #will work
read_excel("MyWD/MyData/MyNestedData/myExcelFile.xlsx",sheet = "Sheet2") #will not work
If your excel worksheet is password protected, read_excel won't be able to access it and will give you this error.
If it needs protection, I would suggest p/w protecting the folder it's in, and then unprotecting the worksheet.
You may also get this error if you are using the wrong read function.
For example, read_xlsx("file.xls" ...) will throw the error.
This can happen if you forget to do the following before you use the read_excel function
setwd("C:\\map\\map_in_map\\map_in_map_in_map_where_the_file_is")
Try to change file restrictions if you are working on company's computer. This worked for me to solve this issue.
You may try to specify the full path instead of ./path/to/file
Try to make a new file. click "save as" and make a new name. Run again your code. it worked well to me :)
Although the solution was already given, but for the sake of documentation I will leave my situation here:
I ran into the same problem and couldn't figure out why. It seems that my excel file had closed with an error or something similar. I had to open the excel file, and save it again. When I ran R, everything worked smoothly.
The issue was that there was hidden files inside my working directory. I copied them to outside and exclude all directories. Now it works when I run the code.
In my case the xlsx was created using Excel 2007, which caused this issue. Xlsx files from newer Excel versions work.
In my case the file was not visible in the directory although I had deleted it. I had to search for the file using a software called "Everyting" and I deleted it. After that it worked.
For me, I was downloading a file from Google Drive into a tempfile with extension .xlsx... Realised the file in Google Drive was .xls so I changed it to that and it worked. Kinda rare situation though.
I got the same error message.
In my case the line that worked properly specified the sheet by a string (copied from excel). Suddenly, it did not work anymore (with the mentioned error message). I tried several things explained here. Ended up specifying the sheet by its number in the excel file - worked!
read_xlsx("table.xlsx", sheet="name_of_sheet") # suddently corrupt
read_xlsx("table.xlsx", sheet=4) # works
Why? No update of the package or something. I dislike to have to use a less specific line.
UPDATE: Restarting the R session made the initial line work again (although, I HAD checked the wd before...)
I am using R with readxl package. I try to import an Excel file with the following command:
library(readxl)
city_codes <- read_excel("./data/file.xlsx", sheet = "city_codes")
It says it is a zip file and cannot be opened:
Error in sheets_fun(path) :
Evaluation error: zip file './data/file.xlsx' cannot be opened.
Any ideas?
I had this error, but for me, it was just that I had the sheet open in Excel while trying to read it into R. I guess the package wrongly perceives it as a zip file when it's trying to read it while Excel has partial ownership of it (and this blocks the read).
The error message is readxl's funny way of saying "file not found". That exact line of code gives me the exact same error, and the file doesn't even exist for me.
Note: I'm on version 1.0.0 of readxl
For me the "Evaluation error: zip file" error message also appeared when the excel spreadsheet was still opened in MSExcel.
You can specify a path to a file, only if it is nested on the working directory.
For example: If your working directory is MyWD and there is a folder in it, named MyData and another folder within MyData named MyNestedData, and finally myExcelFile.xlsx
read_excel("MyData/MyNestedData/myExcelFile.xlsx",sheet = "Sheet2") #will work
read_excel("MyWD/MyData/MyNestedData/myExcelFile.xlsx",sheet = "Sheet2") #will not work
If your excel worksheet is password protected, read_excel won't be able to access it and will give you this error.
If it needs protection, I would suggest p/w protecting the folder it's in, and then unprotecting the worksheet.
You may also get this error if you are using the wrong read function.
For example, read_xlsx("file.xls" ...) will throw the error.
This can happen if you forget to do the following before you use the read_excel function
setwd("C:\\map\\map_in_map\\map_in_map_in_map_where_the_file_is")
Try to change file restrictions if you are working on company's computer. This worked for me to solve this issue.
You may try to specify the full path instead of ./path/to/file
Try to make a new file. click "save as" and make a new name. Run again your code. it worked well to me :)
Although the solution was already given, but for the sake of documentation I will leave my situation here:
I ran into the same problem and couldn't figure out why. It seems that my excel file had closed with an error or something similar. I had to open the excel file, and save it again. When I ran R, everything worked smoothly.
The issue was that there was hidden files inside my working directory. I copied them to outside and exclude all directories. Now it works when I run the code.
In my case the xlsx was created using Excel 2007, which caused this issue. Xlsx files from newer Excel versions work.
In my case the file was not visible in the directory although I had deleted it. I had to search for the file using a software called "Everyting" and I deleted it. After that it worked.
For me, I was downloading a file from Google Drive into a tempfile with extension .xlsx... Realised the file in Google Drive was .xls so I changed it to that and it worked. Kinda rare situation though.
I got the same error message.
In my case the line that worked properly specified the sheet by a string (copied from excel). Suddenly, it did not work anymore (with the mentioned error message). I tried several things explained here. Ended up specifying the sheet by its number in the excel file - worked!
read_xlsx("table.xlsx", sheet="name_of_sheet") # suddently corrupt
read_xlsx("table.xlsx", sheet=4) # works
Why? No update of the package or something. I dislike to have to use a less specific line.
UPDATE: Restarting the R session made the initial line work again (although, I HAD checked the wd before...)
Environment:
Windows 7 OS
RStudio Version 0.99.491
I have been programming in R for about 4 months via the Coursera Data Science curriculum, but I have NEVER been successful in using the unzip function.
I've looked at the forums for hours for potential solutions, syntax problems, undefined arguments, etc., but to no avail. I eventually unzip the contents manually and proceed with the assignment, but I am tired of not knowing why it is not working.
Here are a few examples of the error:
fileName <- "StormData.zip"
unzip(fileName, exdir = mainDir,subDir)
Warning message: In unzip(fileName, exdir = mainDir, subDir) : error
1 in extracting from zip file
unzip(fileName)
Warning message: In unzip(fileName) : error 1 in extracting from zip
file
unzip(fileName, "stormdata.csv")
Warning message: In unzip(fileName, "stormdata.csv") : error 1 in
extracting from zip file
unzip(fileName, "stormdata.csv", list = TRUE)
Error in unzip(fileName, "stormdata.csv", list = TRUE) : zip file
'StormData.zip' cannot be opened
Any suggestions would be greatly appreciated.
I was getting the same error.
I changed the path --
from :
uzp <- "C:\\Users\\Sharvari\\Downloads\\rprog%2Fdata%2Fspecdata"
to
uzp <- "C:\\Users\\Sharvari\\Downloads\\rprog%2Fdata%2Fspecdata.zip"
and it works fine!
setwd("C:\\Users\\Sharvari\\Downloads")
uzp <- "C:\\Users\\Sharvari\\Downloads\\rprog%2Fdata%2Fspecdata.zip"
unzip(uzp, exdir = "C:\\Users\\Sharvari\\Desktop\\specdata")
I too was getting that error 1 message when trying to unzipping a zip file. Glitch in my case was the conflict between working directory and zip file path.
My case was:
My working directory was like "C:/Users/SCOTT/Desktop/Training"
While my zip file was located in "C:/Users/SCOTT/Desktop/Training/house_consumption_data"
When I was trying to execute this:
unzip("house_data.zip")
Possibly your file is in a different folder.
I have had the same problem trying to download and unzip the same file, for the same course. And I have had problems with unzip in the past and was determined to solve it this time too.
Eventually the extension of the file turned out to be csv.bz2. And than this Extract bz2 file in R post solved my problem.
After downloading the file I was able to read it directly with
stormdata <- read.csv("stormdata.zip")
without using unzip.
This error seems to appear whenever openXLS is unable to open the specified file.
It could be a wrong name, wrong directory or the file might be encrypted or password protected
change your zip file format this error will appear while the zip format problems occur, look at your zip file it should be "rar" change it to "zip". the function works only for "zip" format files.
I faced the same issue. Make sure that, you specify the correct name of the file(get it from the properties of .zip file) in the following code.
file = read.table(unzip("file_name.csv.zip"), sep = ",", header = TRUE)
In my case, Was just mentioning file_name.zip and R was throwing the error.
Also, there are two functions for unzipping files in R
1) unz - to extract single element from zip file/s
2) unzip - to extract all the present elements from the .zip file
I usually prefer unzip.
If you will use unz in the above code, R will throw error again.
I encountered the same error using install_course_zip' with a zip file. I followed all the instructions for the command faithfully but kept getting errors relating to the 'exdir'. I moved the zip file to various directories without success.
I finally used getwd() to get the working directory and then placed the zip file in that directory. I then was able to use the zip file name without having to use any folder structure and this worked. I still have no idea why R would not accept a different directory.
I had list of files to be unzipped and processed; I was facing same error
"error 1 in extracting from zip file"
used full directory and set working directory code worked
files <- list.files(path="C:\\Users\\Tejas naik\\Documents\\land", pattern=".zip$")
out_dir<- "C:\\Users\\Tejas naik\\Documents\\input"
setwd("C:\\Users\\Tejas naik\\Documents\\land")
for (i in files) {
#nzip(paste(out_dir,i), exdir=out_dir)
unzip(i,exdir=out_dir)
}
This error was happening bit differently in my case . As there was no zip file ,the issue was file was open in excel so this error was poping up .
It's crucial to give the full name (including the path) of the zip-file to the unzip function.
So instead of file.zip, it should be C:\user\name\file.zip.
In case you're using the list.files function, one should set the full.names option to TRUE.
For me the error is fixed after I add \ backslash character to the filepath.
Example:
from
unzip("abc\aaa.zip")
to
unzip("abc\\aaa.zip")
I have an Excel file (.xls extension) that is inside a zipped folder that I would like to read as a dataframe into R. I loaded the gdata library and set up my working directory to the folder that houses the zipped folder.
When I type in the following syntax:
data_frame1 <- read.xls( unz("./Data/Project1.zip","schools.xls"))
I get the following error messages:
Error in path.expand(xls) : invalid 'path' argument
Error in file.exists(tfn) : invalid 'file' argument
I'm guessing that I'm missing some arguments in the syntax, but I'm not entirely sure what else needs to be included.
Thanks for your help! This R newbie really appreciates it!
Unfortunately, after a quick survey of all the xls functions I know, there is no xls reading function that can recognize the unz output (I would love to be proven wrong here). If it were a 'csv' it would work fine. As it stands, until such a function is written, you must do the loading in two steps extraction and then loading.
To give you a little more control, you can specify which file to unzip as well as the directory to place the files with unzip.
# default exdir is current directory
unzip(zipfile="./Data/Project1.zip", files = "schools.xls", exdir=".")
dataframe_1 <- read.xls("schools.xls")
Sadly, this also means that you must do cleanup afterwards if you don't want the 'xls' file hanging around.
I am trying to open a shapefile in R, but I am getting the following error message:
Error in getinfo.shape(filen) : Error opening SHP file
I have checked other responses and most problems seem to have been solved by ensuring that the .dbf and .shx files are in the same folder. I have them all in the same folder (along with some other extensions too) but I still get the error message. I work on a mac.
This is my code:
getinfo.shape("/Users/Suz/Desktop/DWH satellite maps/20100517_Composite.shp")
I have tried it without the .shp extension, and with other commands, such as readShapePoints etc. Nothing has worked so far. Please help, I am new to R and making maps, and after extensive Googling and forum-reading I am still stuck.
I just had the same problem. Often come other files with your SHP-file. If they are missing the file cant be loaded.
So search if there are any other file ext. with "20100517_Composite" at the source you got your file.
Cant comment yet but i wanted the ppl to save time, if this is the problem.
You could try getinfo.shape(file.choose()) to select the file via a pop up window. If this works then it is probably an issue with your input string.
Note: I'm on linux, but I think file.choose() should work for mac.
After having the same issue, I did some digging and found a nice thread [here].1
Turns out that after checking the list.files() command and found that my files were not there, and
even though I had included the file path in my original code, it still produced the error shown in the question. I then moved all the files into the working directory and then the command below worked.
readShapeSpatial()
Also simply changing the wd would work as well.
setwd("directory_path")
I figured I'd put this here as #jbaums suggested because it would have saved me some time in solving this issue.
I had the same problem until i removed the .shp extension.
So instead of
readShapeSpatial("/Users/Suz/Desktop/DWH satellite maps/20100517_Composite.shp")
go with
readShapeSpatial("/Users/Suz/Desktop/DWH satellite maps/20100517_Composite")
If you have all the files in the working directory it should work like a charm.
The easy way to read a shapefile in R is
either (to get a Spatial*) object
library(raster)
x <- shapefile("/Users/Suz/Desktop/DWH satellite maps/20100517_Composite.shp")
or (to get a sf object)
library(sf)
st_read("/Users/Suz/Desktop/DWH satellite maps/20100517_Composite.shp")
(but do not use the deprecated (incomplete and obsolete) function readShapeSpatial)
In action:
library(raster)
library(sf)
f <- system.file("external/lux.shp", package="raster")
s1 <- shapefile(f)
s2 <- st_read(f)
If this does not work, you need to check if your file exists:
file.exists(f)
To get a list of shapefiles in a directory, you can do
path <- "c:/temp" # change with your directory name
ff <- list.files(path, pattern='\\.shp$', full.names=TRUE)
This is still a problem. I solve it more directly calling the shapefile using file.choose() and manually selecting the file. Hope this helps for anyone.
library (rgdal)
a = readOGR (file.choose()) #then selecting the shape file manually