If you look at the code for utils::untar() you’ll see: # The function definition of utils::untarįunction (tarfile, files = NULL, list = FALSE, exdir = ". Usage untar (tarfile, files NULL, list FALSE, exdir '.', compressed NA, extras NULL, verbose FALSE, restoretimes TRUE, supportoldtars Sys.getenv ('RSUPPORTOLDTARS', FALSE), tar Sys.getenv ('TAR')) Arguments tarfile The pathname of the tar file: tilde expansion (see path.expand) will be performed. Uncompressing the tar.gz file is done by utils::untar(). We were told to try installing R at a location with no spaces, so by this point, R was installed at C:\R\R-3.6.0\, hence the lib specification you see above, though it’s irrelevant for these errors. You can even download the file and try to run untar() manually and it will fail. I would be fine with unzip, however this particular file I want to analyze is. If you search on Google the error message you’ll find links like this one which hint towards an incomplete download. R error when using untar Ask Question Asked Viewed Part of Collective 3 I'm running a script with input parameters that are referenced in the code to automate the directory creation, download of file and untar of file. ‘C:\Users\Leo Collado\AppData\Local\Temp\RtmpqiBJ53\downloaded_packages’ Installing package(s) 'BiocVersion', 'DO.db'Ĭontent type 'application/x-gzip' length 1769978 bytes (1.7 MB)Įrror in untar2(tarfile, files, list, exdir, restore_times) : Uncompressing a file in this scenario fails. tar.Internally, BiocManager::install() ends up using utils::install.packages(). What command do I need to use to extract all the files in a. Unzip: cannot find zipfile directory in one of community_ or community_.zip, and cannot find community_.ZIP, period. When extracting files, -o is a synonym for -no-same-owner, i.e., it prevents. Note: community_ may be a plain executable, not an archive The function of this option depends on the action tar is performing. Rprofile (or executing it manually): Sys.setenv (TAR '/usr/bin/tar') Alternatively, you can provide the tar path as an argument when calling untar. You can fix this by adding the following to your. In the latter case the central directory and zipfile comment will be found on the last disk(s) of this archive. R on OS X 10.9 (Mavericks) seems to set a wrong TAR environment variable. Either this file is not a zipfile, or it constitutes one disk of a multi-part archive. 3 Answers Sorted by: 47 You could do it like this: zipF<-file. tar.gz file to our hosting site, but when I ssh into my directory and try using unzip, it gives me this error: locations]$ unzip community_Įnd-of-central-directory signature not found. tar.gz file from a client that contains about 800 mb of image files (when uncompressed.) Our hosting company's ftp is seriously slow, so extracting all the files locally and sending them up via ftp isn't practical. Syntax: tar options archivename.tar filestoarchive The tar command does not create a compressed archive, instead, it uses external utilities like gzip and bzip2.
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