[R] R 3.0.3, Windows 7: Problem installing XML package
Duncan Murdoch
murdoch.duncan at gmail.com
Mon Apr 21 15:28:28 CEST 2014
On 21/04/2014 9:19 AM, Milan Bouchet-Valat wrote:
> Le lundi 21 avril 2014 à 07:21 -0400, Duncan Murdoch a écrit :
> > On 21/04/2014, 7:10 AM, Milan Bouchet-Valat wrote:
> > > Le lundi 21 avril 2014 à 11:38 +0200, Frede Aakmann Tøgersen a écrit :
> > >> Hi
> > >>
> > >> Couldn't find a zip file in the archives.
> > >>
> > >> Why didn't 'R CMD build' (in a command shell on Windows) not make a
> > >> zip file? I did try to build from the climatol library that holds the
> > >> typical files as DESCRIPTION, LICENSE, etc. as well as folders like R,
> > >> etc.
> > > R CMD build produces *source* packages, and .zip packages are *binary*.
> > >
> > >> Did you see the debug information on read.fcf? For me it seems like R
> > >> has open a file handler to the DESCRIPTION file. Wouldn't the error
> > >> already be thrown there and not when read.fcf is called if the .tar.gz
> > >> format was the problem?
> > >>
> > >> I'll try and locate a zip
> > > Does install.packages(choose.file(), type="source") work?
> >
> > That will also need "repos=NULL", or it will go out to a repository to
> > look for the package.
> Usually install.packages() prints a warning and assumes repos=NULL iwhen
> type="source". And since I'm lazy, I've sticked to the short
> version. ;-)
Right, if the file is a .tar.gz file, it does that. I often install
directly from source directories, and there it fails.
Duncan Murdoch
>
> > That should work if the package doesn't have compiled code. It will
> > handle compiled code only if Frede has the appropriate tools installed.
> >
> >
> > I'm not sure
> > > what utils:::menuInstallLocal() does.
> >
> > It is essentially
> >
> > install.packages(choose.file(), type="binary", repos=NULL)
> >
> > so it's not what Frede needs.
> OK, so that's what I suspected.
>
>
> Regards
>
> > Duncan
> > >
> > >
> > > Regards
> > >
> > >
> > >> Sendt fra Samsung mobil
> > >>
> > >>
> > >> -------- Oprindelig meddelelse --------
> > >> Fra: Jeff Newmiller
> > >> Dato:21/04/2014 09.44 (GMT+01:00)
> > >> Til: Frede Aakmann Tøgersen ,Alpesh Pandya ,Rui Barradas
> > >> Cc: r-help at r-project.org,Uwe Ligges ,Duncan Murdoch
> > >> Emne: RE: [R] R 3.0.3, Windows 7: Problem installing XML package
> > >>
> > >> Frede... Windows uses zip files (binary, aka pre-compiled format) for packages by default, because most installations don't have the development tools installed. You need to setup RTools and use the "source" option to install_package in order to handle the tar.gz package file, or download and install the zip file instead.
> > >> ---------------------------------------------------------------------------
> > >> Jeff Newmiller The ..... ..... Go Live...
> > >> DCN:<jdnewmil at dcn.davis.ca.us> Basics: ##.#. ##.#. Live Go...
> > >> Live: OO#.. Dead: OO#.. Playing
> > >> Research Engineer (Solar/Batteries O.O#. #.O#. with
> > >> /Software/Embedded Controllers) .OO#. .OO#. rocks...1k
> > >> ---------------------------------------------------------------------------
> > >> Sent from my phone. Please excuse my brevity.
> > >>
> > >> On April 20, 2014 11:01:17 PM PDT, "Frede Aakmann Tøgersen" <frtog at vestas.com> wrote:
> > >>> Well now, I think I have seen something similar to Alpesh.
> > >>>
> > >>> Recently I needed the climatol package that I have used some time ago.
> > >>> It is not maintained anymore but I downloaded the latest version,
> > >>> climatol_2.2.tar.gz, from archives
> > >>> (http://cran.r-project.org/src/contrib/Archive/climatol/climatol_2.2.tar.gz
> > >>> ) . Trying to install that package from local file using R-3.1.0 on
> > >>> Windows 8 resulted in this:
> > >>>
> > >>> ## From R Console
> > >>>> utils:::menuInstallLocal()
> > >>> Error in read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package",
> > >>> "Type")) :
> > >>> cannot open the connection
> > >>> In addition: Warning messages:
> > >>> 1: In unzip(zipname, exdir = dest) : error 1 in extracting from zip
> > >>> file
> > >>> 2: In read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package", "Type"))
> > >>> :
> > >>> cannot open compressed file 'climatol_2.2.tar.gz/DESCRIPTION', probable
> > >>> reason 'No such file or directory'
> > >>>>
> > >>>
> > >>> And yes I know where the file is located, since choose.files() is used.
> > >>>
> > >>> However I tried the same on our linux (R-3.0.2) cluster and it
> > >>> succeeded:
> > >>>
> > >>> [frtog at dkrdsfshn2 ~]$ R CMD INSTALL climatol_2.2.tar.gz
> > >>> * installing to library
> > >>> ?/gpfs02/gcdistro/app/R/3.0.2-gcc4.8.2/lib64/R/library?
> > >>> * installing *source* package ?climatol? ...
> > >>> ** R
> > >>> ** data
> > >>> ** inst
> > >>> ** preparing package for lazy loading
> > >>> ** help
> > >>> *** installing help indices
> > >>> ** building package indices
> > >>> ** installing vignettes
> > >>> ** testing if installed package can be loaded
> > >>> * DONE (climatol)
> > >>> [frtog at dkrdsfshn2 ~]$ R
> > >>>
> > >>> R version 3.0.2 (2013-09-25) -- "Frisbee Sailing"
> > >>> Copyright (C) 2013 The R Foundation for Statistical Computing
> > >>> Platform: x86_64-unknown-linux-gnu (64-bit)
> > >>>
> > >>> R is free software and comes with ABSOLUTELY NO WARRANTY.
> > >>> You are welcome to redistribute it under certain conditions.
> > >>> Type 'license()' or 'licence()' for distribution details.
> > >>>
> > >>> Natural language support but running in an English locale
> > >>>
> > >>> R is a collaborative project with many contributors.
> > >>> Type 'contributors()' for more information and
> > >>> 'citation()' on how to cite R or R packages in publications.
> > >>>
> > >>> Type 'demo()' for some demos, 'help()' for on-line help, or
> > >>> 'help.start()' for an HTML browser interface to help.
> > >>> Type 'q()' to quit R.
> > >>>
> > >>>> library("climatol")
> > >>>> ?rosavent
> > >>>> q()
> > >>> Save workspace image? [y/n/c]: n
> > >>> [frtog at dkrdsfshn2 ~]$
> > >>>
> > >>>
> > >>> Now unzipping and untaring climatol_2.2.tar.gz I thought to examine
> > >>> whether I could build the package on my Windows box. Only R stuff and
> > >>> no foreign language as C, FORTRAN, etc. so it should be easy.
> > >>>
> > >>> ## Command shell in Windows
> > >>> Microsoft Windows [Version 6.2.9200]
> > >>> (c) 2012 Microsoft Corporation. All rights reserved.
> > >>>
> > >>> C:\Users\frtog>cd Desktop
> > >>>
> > >>> C:\Users\frtog\Desktop>c:\Programmer\R\R-3.1.0\bin\x64\R CMD build
> > >>> climatol
> > >>> * checking for file 'climatol/DESCRIPTION' ... OK
> > >>> * preparing 'climatol':
> > >>> * checking DESCRIPTION meta-information ... OK
> > >>> * checking for LF line-endings in source and make files
> > >>> * checking for empty or unneeded directories
> > >>> * looking to see if a 'data/datalist' file should be added
> > >>> * building 'climatol_2.2.tar.gz'
> > >>>
> > >>> Now trying to install from that local file I Still got the same error
> > >>> as above.
> > >>>
> > >>>
> > >>>
> > >>> Trying to do some debugging on read.dcf() (Emacs/ESS)
> > >>>
> > >>>
> > >>> R version 3.1.0 (2014-04-10) -- "Spring Dance"
> > >>> Copyright (C) 2014 The R Foundation for Statistical Computing
> > >>> Platform: x86_64-w64-mingw32/x64 (64-bit)
> > >>>
> > >>> R is free software and comes with ABSOLUTELY NO WARRANTY.
> > >>> You are welcome to redistribute it under certain conditions.
> > >>> Type 'license()' or 'licence()' for distribution details.
> > >>>
> > >>> Natural language support but running in an English locale
> > >>>
> > >>> R is a collaborative project with many contributors.
> > >>> Type 'contributors()' for more information and
> > >>> 'citation()' on how to cite R or R packages in publications.
> > >>>
> > >>> Type 'demo()' for some demos, 'help()' for on-line help, or
> > >>> 'help.start()' for an HTML browser interface to help.
> > >>> Type 'q()' to quit R.
> > >>>
> > >>>>> options(chmhelp=FALSE, help_type="text")
> > >>>> options(STERM='iESS', str.dendrogram.last="'",
> > >>> editor='emacsclient.exe', show.error.locations=TRUE)
> > >>>> debug(read.dcf)
> > >>>> install.packages("~/Desktop/climatol_2.2.tar.gz", repos = NULL)
> > >>> debugging in: read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package",
> > >>> "Type"))
> > >>> debug: {
> > >>> if (is.character(file)) {
> > >>> file <- gzfile(file)
> > >>> on.exit(close(file))
> > >>> }
> > >>> if (!inherits(file, "connection"))
> > >>> stop("'file' must be a character string or connection")
> > >>> if (!all)
> > >>> return(.Internal(readDCF(file, fields, keep.white)))
> > >>> .assemble_things_into_a_data_frame <- function(tags, vals,
> > >>> nums) {
> > >>> tf <- factor(tags, levels = unique(tags))
> > >>> cnts <- table(nums, tf)
> > >>> out <- array(NA_character_, dim = dim(cnts), dimnames = list(NULL,
> > >>> levels(tf)))
> > >>> if (all(cnts <= 1L)) {
> > >>> out[cbind(nums, tf)] <- vals
> > >>> out <- as.data.frame(out, stringsAsFactors = FALSE)
> > >>> }
> > >>> else {
> > >>> levs <- colSums(cnts > 1L) == 0L
> > >>> if (any(levs)) {
> > >>> inds <- tf %in% levels(tf)[levs]
> > >>> out[cbind(nums[inds], tf[inds])] <- vals[inds]
> > >>> }
> > >>> out <- as.data.frame(out, stringsAsFactors = FALSE)
> > >>> for (l in levels(tf)[!levs]) {
> > >>> out[[l]] <- rep.int(list(NA_character_), nrow(cnts))
> > >>> i <- tf == l
> > >>> out[[l]][unique(nums[i])] <- split(vals[i], nums[i])
> > >>> }
> > >>> }
> > >>> out
> > >>> }
> > >>> on.exit(Sys.setlocale("LC_CTYPE", Sys.getlocale("LC_CTYPE")),
> > >>> add = TRUE)
> > >>> Sys.setlocale("LC_CTYPE", "C")
> > >>> lines <- readLines(file)
> > >>> ind <- grep("^[^[:blank:]][^:]*$", lines)
> > >>> if (length(ind)) {
> > >>> lines <- strtrim(lines[ind], 0.7 * getOption("width"))
> > >>> stop(gettextf("Invalid DCF format.\nRegular lines must have a
> > >>> tag.\nOffending lines start with:\n%s",
> > >>> paste0(" ", lines, collapse = "\n")), domain = NA)
> > >>> }
> > >>> line_is_not_empty <- !grepl("^[[:space:]]*$", lines)
> > >>> nums <- cumsum(diff(c(FALSE, line_is_not_empty) > 0L) > 0L)
> > >>> nums <- nums[line_is_not_empty]
> > >>> lines <- lines[line_is_not_empty]
> > >>> line_is_escaped_blank <- grepl("^[[:space:]]+\\.[[:space:]]*$",
> > >>> lines)
> > >>> if (any(line_is_escaped_blank))
> > >>> lines[line_is_escaped_blank] <- ""
> > >>> line_has_tag <- grepl("^[^[:blank:]][^:]*:", lines)
> > >>> ind <- which(!line_has_tag[which(diff(nums) > 0L) + 1L])
> > >>> if (length(ind)) {
> > >>> lines <- strtrim(lines[ind], 0.7 * getOption("width"))
> > >>> stop(gettextf("Invalid DCF format.\nContinuation lines must not start a
> > >>> record.\nOffending lines start with:\n%s",
> > >>> paste0(" ", lines, collapse = "\n")), domain = NA)
> > >>> }
> > >>> lengths <- rle(cumsum(line_has_tag))$lengths
> > >>> pos <- cumsum(lengths)
> > >>> tags <- sub(":.*", "", lines[line_has_tag])
> > >>> lines[line_has_tag] <- sub("[^:]*:[[:space:]]*", "",
> > >>> lines[line_has_tag])
> > >>> foldable <- rep.int(is.na(match(tags, keep.white)), lengths)
> > >>> lines[foldable] <- sub("^[[:space:]]*", "", lines[foldable])
> > >>> lines[foldable] <- sub("[[:space:]]*$", "", lines[foldable])
> > >>> vals <- mapply(function(from, to) paste(lines[from:to], collapse =
> > >>> "\n"),
> > >>> c(1L, pos[-length(pos)] + 1L), pos)
> > >>> out <- .assemble_things_into_a_data_frame(tags, vals, nums[pos])
> > >>> if (!is.null(fields))
> > >>> out <- out[fields]
> > >>> out
> > >>> }
> > >>> Browse[2]> str(file)
> > >>> chr "climatol_2.2.tar.gz/DESCRIPTION"
> > >>> Browse[2]> head(file)
> > >>> [1] "climatol_2.2.tar.gz/DESCRIPTION"
> > >>> Browse[2]>
> > >>> debug: if (is.character(file)) {
> > >>> file <- gzfile(file)
> > >>> on.exit(close(file))
> > >>> }
> > >>> Browse[2]>
> > >>> debug: file <- gzfile(file)
> > >>> Browse[2]>
> > >>> debug: on.exit(close(file))
> > >>> Browse[2]>
> > >>> debug: if (!inherits(file, "connection")) stop("'file' must be a
> > >>> character string or connection")
> > >>> Browse[2]>
> > >>> debug: if (!all) return(.Internal(readDCF(file, fields, keep.white)))
> > >>> Browse[2]> str(file)
> > >>> Classes 'gzfile', 'connection' atomic [1:1] 3
> > >>> ..- attr(*, "conn_id")=<externalptr>
> > >>> Browse[2]> file
> > >>> description class
> > >>> "climatol_2.2.tar.gz/DESCRIPTION" "gzfile"
> > >>> mode text
> > >>> "rb" "text"
> > >>> opened can read
> > >>> "closed" "yes"
> > >>> can write
> > >>> "yes"
> > >>> Browse[2]>
> > >>> debug: return(.Internal(readDCF(file, fields, keep.white)))
> > >>> Browse[2]>
> > >>> Error in read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package",
> > >>> "Type")) :
> > >>> cannot open the connection
> > >>> In addition: Warning message:
> > >>> In read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package", "Type")) :
> > >>> cannot open compressed file 'climatol_2.2.tar.gz/DESCRIPTION', probable
> > >>> reason 'No such file or directory'
> > >>>>
> > >>>
> > >>> Well coming to debug: if (!all) return(.Internal(readDCF(file, fields,
> > >>> keep.white))) I loose control and R returns to prompt with an error.
> > >>>
> > >>> Hopefully one of you can replicate this. If not then it must have
> > >>> something with Windows OS to do. But what?
> > >>>
> > >>>
> > >>>
> > >>> Yours sincerely / Med venlig hilsen
> > >>>
> > >>>
> > >>> Frede Aakmann Tøgersen
> > >>> Specialist, M.Sc., Ph.D.
> > >>> Plant Performance & Modeling
> > >>>
> > >>> Technology & Service Solutions
> > >>> T +45 9730 5135
> > >>> M +45 2547 6050
> > >>> frtog at vestas.com
> > >>> http://www.vestas.com
> > >>>
> > >>> Company reg. name: Vestas Wind Systems A/S
> > >>> This e-mail is subject to our e-mail disclaimer statement.
> > >>> Please refer to www.vestas.com/legal/notice<http://www.vestas.com/legal/notice>
> > >>> If you have received this e-mail in error please contact the sender.
> > >>>
> > >>>> -----Original Message-----
> > >>>> From: r-help-bounces at r-project.org
> > >>> [mailto:r-help-bounces at r-project.org]
> > >>>> On Behalf Of Jeff Newmiller
> > >>>> Sent: 20. april 2014 23:33
> > >>>> To: Alpesh Pandya; Rui Barradas
> > >>>> Cc: r-help at r-project.org; Uwe Ligges
> > >>>> Subject: Re: [R] R 3.0.3, Windows 7: Problem installing XML package
> > >>>>
> > >>>> Hard to help you when the problem simply does not happen for others.
> > >>>>
> > >>>> As for Windows being not a focus, that is not at all true. I use it
> > >>> regularly on
> > >>>> Windows at work. That being said, there are thousands of packages and
> > >>>> those each involve their own subset of R users. There are also many
> > >>>> operating system configurations that may not all be fully tested.
> > >>> Blaming "R"
> > >>>> or "Windows", or blaming us for "preventing" you from getting your
> > >>>> education (isn't that something between you and your educational
> > >>>> institution?) are not going to be effective strategies for problem
> > >>> solving.
> > >>>>
> > >>>> Are you able to use other aspects of R beyond the XML package? Have
> > >>> you
> > >>>> tried communicating with the maintainers of that package?
> > >>>>
> > >>> ---------------------------------------------------------------------------
> > >>>> Jeff Newmiller The ..... ..... Go
> > >>> Live...
> > >>>> DCN:<jdnewmil at dcn.davis.ca.us> Basics: ##.#. ##.#. Live
> > >>> Go...
> > >>>> Live: OO#.. Dead: OO#..
> > >>> Playing
> > >>>> Research Engineer (Solar/Batteries O.O#. #.O#. with
> > >>>> /Software/Embedded Controllers) .OO#. .OO#.
> > >>> rocks...1k
> > >>>>
> > >>> ---------------------------------------------------------------------------
> > >>>> Sent from my phone. Please excuse my brevity.
> > >>>>
> > >>>> On April 20, 2014 11:45:44 AM PDT, Alpesh Pandya
> > >>>> <alpeshpandya at gmail.com> wrote:
> > >>>>> I keep on trying from various networks but I still get the same
> > >>> error.
> > >>>>> I
> > >>>>> don't this this has anything to do with network or ability to
> > >>> download
> > >>>>> the
> > >>>>> package (as I can install other packages fine). This must be
> > >>> something
> > >>>>> in
> > >>>>> base R or dependencies issues (that R is not spelling out).
> > >>>>>
> > >>>>> I know R is geared for Mac and Windows is kind of looked down upon
> > >>> but
> > >>>>> I
> > >>>>> have no option but use windows and need this XML package running to
> > >>>>> complete my education. Any help on this would be appreciated.
> > >>>>>
> > >>>>>
> > >>>>> On Mon, Apr 14, 2014 at 2:24 PM, Alpesh Pandya
> > >>>>> <alpeshpandya at gmail.com>wrote:
> > >>>>>
> > >>>>>> Thank you for response Rui.
> > >>>>>>
> > >>>>>> I still get the same error with this repository.
> > >>>>>>
> > >>>>>> Installing package into
> > >>>>> ���C:/Users/APandya/Documents/R/win-library/3.0���
> > >>>>>> (as ���lib��� is unspecified)
> > >>>>>> trying URL '
> > >>>>>> http://cran.dcc.fc.up.pt/bin/windows/contrib/3.0/XML_3.98-1.1.zip'
> > >>>>>> Content type 'application/zip' length 4288136 bytes (4.1 Mb)
> > >>>>>> opened URL
> > >>>>>> downloaded 4.1 Mb
> > >>>>>>
> > >>>>>> Error in read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package",
> > >>>>> "Type"))
> > >>>>>> :
> > >>>>>> cannot open the connection
> > >>>>>> In addition: Warning messages:
> > >>>>>> 1: In download.file(url, destfile, method, mode = "wb", ...) :
> > >>>>>> downloaded length 4276224 != reported length 4288136
> > >>>>>> 2: In unzip(zipname, exdir = dest) : error 1 in extracting from
> > >>> zip
> > >>>>> file
> > >>>>>> 3: In read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package",
> > >>>>> "Type")) :
> > >>>>>> cannot open compressed file 'XML/DESCRIPTION', probable reason
> > >>> 'No
> > >>>>> such
> > >>>>>> file or directory'
> > >>>>>>
> > >>>>>>
> > >>>>>>
> > >>>>>> On Mon, Apr 14, 2014 at 2:17 PM, Rui Barradas
> > >>>>> <ruipbarradas at sapo.pt>wrote:
> > >>>>>>
> > >>>>>>> Hello,
> > >>>>>>> I have package XML installed on Windows 7, R 3.0.3 and I had no
> > >>>>> problem
> > >>>>>>> at all. Can't you try (it worked with me)
> > >>>>>>>
> > >>>>>>> install.packages("XML", repos = "http://cran.dcc.fc.up.pt")
> > >>>>>>>
> > >>>>>>> Hope this helps,
> > >>>>>>>
> > >>>>>>> Rui Barradas
> > >>>>>>>
> > >>>>>>> Em 14-04-2014 16:24, Alpesh Pandya escreveu:
> > >>>>>>>
> > >>>>>>> I have tried these sources (almost all US mirrors):
> > >>>>>>>>
> > >>>>>>>>
> > >>>>
> > >>>> http://cran.cnr.Berkeley.edu/bin/windows/contrib/3.0/XML_3.98-1.1.zip
> > >>>>>>>>
> > >>> http://cran.stat.ucla.edu/bin/windows/contrib/3.0/XML_3.98-1.1.zip
> > >>>>>>>> http://streaming.stat.iastate.edu/CRAN/bin/windows/contrib/
> > >>>>>>>> 3.0/XML_3.98-1.1.zip
> > >>>>>>>>
> > >>>>> http://ftp.ussg.iu.edu/CRAN/bin/windows/contrib/3.0/XML_3.98-1.1.zip
> > >>>>>>>>
> > >>>>
> > >>>> http://rweb.quant.ku.edu/cran/bin/windows/contrib/3.0/XML_3.98-1.1.zip
> > >>>>>>>> http://watson.nci.nih.gov/cran_mirror/bin/windows/
> > >>>>>>>> contrib/3.0/XML_3.98-1.1.zip
> > >>>>>>>> http://cran.mtu.edu/bin/windows/contrib/3.0/XML_3.98-1.1.zip
> > >>>>>>>> http://cran.wustl.edu/bin/windows/contrib/3.0/XML_3.98-1.1.zip
> > >>>>>>>> http://cran.case.edu/bin/windows/contrib/3.0/XML_3.98-1.1.zip
> > >>>>>>>>
> > >>>>
> > >>>> http://ftp.osuosl.org/pub/cran/bin/windows/contrib/3.0/XML_3.98-1.1.zip
> > >>>>>>>>
> > >>>>> http://lib.stat.cmu.edu/R/CRAN/bin/windows/contrib/3.0/XML_3.98-
> > >>>> 1.1.zip
> > >>>>>>>>
> > >>>>>>>> I have confirmed with IT that there is no restriction on
> > >>>>> downloading this
> > >>>>>>>> zip file from any of these sources. Also I am getting same error
> > >>>>> when I
> > >>>>>>>> try
> > >>>>>>>> from my home network as well.
> > >>>>>>>>
> > >>>>>>>>
> > >>>>>>>> On Sun, Apr 13, 2014 at 9:46 AM, Uwe Ligges <
> > >>>>>>>> ligges at statistik.tu-dortmund.de
> > >>>>>>>>
> > >>>>>>>>> wrote:
> > >>>>>>>>>
> > >>>>>>>>
> > >>>>>>>>
> > >>>>>>>>>
> > >>>>>>>>> On 13.04.2014 01:30, Alpesh Pandya wrote:
> > >>>>>>>>>
> > >>>>>>>>> @Uwe I tried the same steps from office as well as home
> > >>> network
> > >>>>> with
> > >>>>>>>>>> same
> > >>>>>>>>>> results. Are you using windows 7 with R 3.0.3?
> > >>>>>>>>>>
> > >>>>>>>>>> I have seen same question being asked by others without any
> > >>>>>>>>>> resolution. Is
> > >>>>>>>>>> anything special about XML package? I am OK use older version
> > >>> of
> > >>>>>>>>>> package
> > >>>>>>>>>> but in archives there are no zip files (only gz files). Is
> > >>>>> windows
> > >>>>>>>>>> platform
> > >>>>>>>>>> not recommended for R?
> > >>>>>>>>>>
> > >>>>>>>>>>
> > >>>>>>>>> Right, and you can try to install these from sources.
> > >>>>>>>>> But I doubt you need it. You still have not told us if you
> > >>> tried
> > >>>>> another
> > >>>>>>>>> mirror to download the XML file from and what you local IT
> > >>> support
> > >>>>> tells
> > >>>>>>>>> you while your downloads are incomplete.
> > >>>>>>>>>
> > >>>>>>>>> Best,
> > >>>>>>>>> Uwe Ligges
> > >>>>>>>>>
> > >>>>>>>>>
> > >>>>>>>>>
> > >>>>>>>>>
> > >>>>>>>>>
> > >>>>>>>>>
> > >>>>>>>>>
> > >>>>>>>>>> On Sat, Apr 12, 2014 at 7:22 PM, Uwe Ligges <
> > >>>>>>>>>> ligges at statistik.tu-dortmund.de
> > >>>>>>>>>>
> > >>>>>>>>>> wrote:
> > >>>>>>>>>>>
> > >>>>>>>>>>>
> > >>>>>>>>>>
> > >>>>>>>>>>
> > >>>>>>>>>>> On 12.04.2014 22:39, Alpesh Pandya wrote:
> > >>>>>>>>>>>
> > >>>>>>>>>>> Thank you for response Uwe. I tried multiple times by
> > >>>>> downloading
> > >>>>>>>>>>> the
> > >>>>>>>>>>>
> > >>>>>>>>>>>> zip
> > >>>>>>>>>>>> file from many sources but still the same error. This is a
> > >>>>> major road
> > >>>>>>>>>>>> block
> > >>>>>>>>>>>> for me in using R. Appreciate any help on this.
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>
> > >>>>>>>>>>>> Please ask your local IT staff.
> > >>>>>>>>>>>
> > >>>>>>>>>>> I get, using the same mirror:
> > >>>>>>>>>>>
> > >>>>>>>>>>>
> > >>>>> options("repos"=c(CRAN="http://watson.nci.nih.gov/cran_mirror"))
> > >>>>>>>>>>>
> > >>>>>>>>>>>> install.packages("XML", lib="d:/temp")
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>
> > >>>>>>>>>>> trying URL
> > >>> 'http://watson.nci.nih.gov/cran_mirror/bin/windows/
> > >>>>>>>>>>>
> > >>>>>>>>>>> contrib/3.0/XML_3.98-1.1.zip'
> > >>>>>>>>>>> Content type 'application/zip' length 4288136 bytes (4.1 Mb)
> > >>>>>>>>>>> opened URL
> > >>>>>>>>>>> downloaded 4.1 Mb
> > >>>>>>>>>>>
> > >>>>>>>>>>> package 'XML' successfully unpacked and MD5 sums checked
> > >>>>>>>>>>>
> > >>>>>>>>>>> The downloaded binary packages are in
> > >>>>>>>>>>> d:\temp\RtmpqMqL8L\downloaded_packages
> > >>>>>>>>>>>
> > >>>>>>>>>>>
> > >>>>>>>>>>>
> > >>>>>>>>>>> Best,
> > >>>>>>>>>>> Uwe Ligges
> > >>>>>>>>>>>
> > >>>>>>>>>>>
> > >>>>>>>>>>>
> > >>>>>>>>>>>
> > >>>>>>>>>>>
> > >>>>>>>>>>>
> > >>>>>>>>>>>
> > >>>>>>>>>>>
> > >>>>>>>>>>> On Fri, Apr 11, 2014 at 6:53 PM, Uwe Ligges <
> > >>>>>>>>>>>> ligges at statistik.tu-dortmund.de
> > >>>>>>>>>>>>
> > >>>>>>>>>>>> wrote:
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>> Works for me.
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>> Best,
> > >>>>>>>>>>>>> Uwe Ligges
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>> On 11.04.2014 17:10, Alpesh Pandya wrote:
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>> Using install.package('XML') command produces this
> > >>> error:
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>>> trying URL
> > >>>>>>>>>>>>>> '
> > >>>>>>>>>>>>>> http://watson.nci.nih.gov/cran_mirror/bin/windows/
> > >>>>>>>>>>>>>> contrib/3.0/XML_3.98-1.1.zip
> > >>>>>>>>>>>>>> '
> > >>>>>>>>>>>>>> Content type 'application/zip' length 4288136 bytes (4.1
> > >>> Mb)
> > >>>>>>>>>>>>>> opened URL
> > >>>>>>>>>>>>>> downloaded 4.1 Mb
> > >>>>>>>>>>>>>>
> > >>>>>>>>>>>>>> Error in read.dcf(file.path(pkgname, "DESCRIPTION"),
> > >>>>> c("Package",
> > >>>>>>>>>>>>>> "Type")) :
> > >>>>>>>>>>>>>> cannot open the connection
> > >>>>>>>>>>>>>> In addition: Warning messages:
> > >>>>>>>>>>>>>> 1: In download.file(url, destfile, method, mode = "wb",
> > >>> ...)
> > >>>>> :
> > >>>>>>>>>>>>>> downloaded length 4276224 != reported length 4288136
> > >>>>>>>>>>>>>> 2: In unzip(zipname, exdir = dest) : error 1 in extracting
> > >>>> >from zip
> > >>>>>>>>>>>>>> file
> > >>>>>>>>>>>>>> 3: In read.dcf(file.path(pkgname, "DESCRIPTION"),
> > >>>>> c("Package",
> > >>>>>>>>>>>>>> "Type"))
> > >>>>>>>>>>>>>> :
> > >>>>>>>>>>>>>> cannot open compressed file 'XML/DESCRIPTION',
> > >>> probable
> > >>>>>>>>>>>>>> reason
> > >>>>>>>>>>>>>> 'No
> > >>>>>>>>>>>>>> such
> > >>>>>>>>>>>>>> file or directory'
> > >>>>>>>>>>>>>>
> > >>>>>>>>>>>>>>
> > >>>>>>>>>>>>>> Upon receiving this error, I downloaded XML_3.98-1.1.zip
> > >>>>> directly
> > >>>>>>>>>>>>>> from
> > >>>>>>>>>>>>>> cran
> > >>>>>>>>>>>>>> site. But this zip file is not a valid archive (cannot
> > >>> open
> > >>>>> using
> > >>>>>>>>>>>>>> winzip).
> > >>>>>>>>>>>>>> Also trying to install using this downloaded file produces
> > >>>>> the
> > >>>>>>>>>>>>>> following
> > >>>>>>>>>>>>>> error:
> > >>>>>>>>>>>>>>
> > >>>>>>>>>>>>>> Installing package into 'C:/Users/APandya/Documents/R/
> > >>>>>>>>>>>>>> win-library/3.0'
> > >>>>>>>>>>>>>> (as 'lib' is unspecified)
> > >>>>>>>>>>>>>> Warning in install.packages :
> > >>>>>>>>>>>>>> error 1 in extracting from zip file
> > >>>>>>>>>>>>>> Warning in install.packages :
> > >>>>>>>>>>>>>> cannot open compressed file 'XML/DESCRIPTION',
> > >>> probable
> > >>>>>>>>>>>>>> reason
> > >>>>>>>>>>>>>> 'No
> > >>>>>>>>>>>>>> such
> > >>>>>>>>>>>>>> file or directory'
> > >>>>>>>>>>>>>> Error in install.packages : cannot open the connection
> > >>>>>>>>>>>>>>
> > >>>>>>>>>>>>>> I downloaded this zip file from multiple sources and
> > >>> tried
> > >>>>> to
> > >>>>>>>>>>>>>> install
> > >>>>>>>>>>>>>> with
> > >>>>>>>>>>>>>> same result.
> > >>>>>>>>>>>>>>
> > >>>>>>>>>>>>>>
> > >>>>>>>>>>>>>>
> > >>>>>>>>>>>>>>
> > >>>>>>>>>>>>>>
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>
> > >>>>>>>>>>
> > >>>>>>>>>>
> > >>>>>>>>
> > >>>>>>>>
> > >>>>>>
> > >>>>>>
> > >>>>>> --
> > >>>>>> Thanks and Regards
> > >>>>>> Alpesh
> > >>>>>>
> > >>>>
> > >>>> ______________________________________________
> > >>>> R-help at r-project.org mailing list
> > >>>> https://stat.ethz.ch/mailman/listinfo/r-help
> > >>>> PLEASE do read the posting guide http://www.R-project.org/posting-
> > >>>> guide.html
> > >>>> and provide commented, minimal, self-contained, reproducible code.
> > >>
> > >>
> > >> [[alternative HTML version deleted]]
> > >>
> > >> ______________________________________________
> > >> R-help at r-project.org mailing list
> > >> https://stat.ethz.ch/mailman/listinfo/r-help
> > >> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> > >> and provide commented, minimal, self-contained, reproducible code.
> > >
> > > ______________________________________________
> > > R-help at r-project.org mailing list
> > > https://stat.ethz.ch/mailman/listinfo/r-help
> > > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> > > and provide commented, minimal, self-contained, reproducible code.
> > >
>
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