Re: [R] Problem with particular file in XML package?
Keith Jewell-2 wrote The OP asked Has anyone else had trouble with the XML package lately and if so, how did you resolve it? For what it's worth... I failed to install XML using install() with the defaults; I can't remember the exact error message, something about access denied. Downloading XML_3.98-1.1.zip with Internet Explorer lt;http://cran.r-project.org/bin/windows/contrib/3.2/XML_3.98-1.1.zipgt; gave a more informative error: Threat Source: http://cran.r-project.or...trib/3.2/XML_3.98-1.1.zip The file requested could not be scanned by Sophos Anti-Virus. This means it could be encrypted or may contain errors that prevent full scanning. As a result, the file was blocked from downloading. = ... so my access was blocked by our systems anti-virus. Our IT people bypassed the anti-virus to download the zip from which I successfully installed. I note that in the library as installed there is a file ...\XML\exampleData\dtd.zip Double-clicking in Windows Explorer gives an error: = Windows cannot open the folder. The Compressed (zipped) Folder ... is invalid. = I speculate that Sophos Anti-Virus could not scan dtd.zip because it tried to open it as a zipped folder and failed. I don't know if it really is a zipped folder or if that's just its name :-O Thanks a bunch; I suspect something similar to the Sophos Anti-Virus detection is happening at my workplace that results in the XML package being blocked. I am one step removed from the installation process there (also the reason why I am working with R version 3.1.2) -- the frustrating thing is that I am able to download and get everything working correctly at home. Knowing that your IT folks had to bypass the anti-virus software to get it installed gives me some additional info. to try to resolve this issue. I am wondering if the package maintainer or others might be able to modify dtd.zip? On 28/05/2015 07:38, Prof Brian Ripley wrote: This really should have been sent to the package maintainer. Yes, I actually sent an email to the package maintainer on May 21 but figured I would try the R help forum as well. On Thu, May 28, 2015 at 8:12 AM, Hadley Wickham h.wick...@gmail.com wrote: I have also seen this problem on a student's windows machine (with R 3.2.0 and on multiple mirrors). It appeared that the package zip itself was being corrupted (with an error to the tune of downloaded file size does not agree with actual file size). The most likely explanation that I could come up with was that a virus checker was hitting a false positive and mangling the zip file. Hadley On Thu, May 28, 2015 at 1:38 AM, Prof Brian Ripley rip...@stats.ox.ac.uk wrote: This really should have been sent to the package maintainer. But that the zip file is corrupt has been reported several times, and does not block installation for anyone else, so your (plural) diagnosis is wrong. On 28/05/2015 03:56, Gen wrote: I have been attempting to install the R devtools package at work. The version of R is 3.1.2 (Pumpkin Helmet). However, the installation of devtools fails because devtools depends on rversions which in turn depends upon the XML package (XML_3.98-1.1.tar.gz), and the XML package is not importing correctly for us. One of our system administrators tried scanning through the files in the XML package, and he said that the particular file: /src/contrib/XML_3.98-1.1.tar.gz/XML/inst/exampleData/dtd.zip looks corrupted. The actual error message he received was: Archive parsing failed! (Data is corrupted). For the record, I tried downloading an older version of the XML package (XML_3.95-0.1.tar.gz) but that was also without success -- this time there was a separate error message about not being able to locate xml2-config. (Perhaps XML_3.95-0.1.tar.gz is just not compatible with R version 3.1.2?) I tried browsing over to the CRAN checks link for the XML package and noticed several red warning messages under the Status column -- not sure if that is typical? Has anyone else had trouble with the XML package lately and if so, how did you resolve it? Would it be possible to remove the potentially corrupted file and then re-upload the package source XML_3.98-1.1.tar.gz to the CRAN webpage? Thanks for your help/suggestions! [[alternative HTML version deleted]] __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html PLEASE do, including what it says about HTML mail, 'at a minimum' information required and upgrading before posting: R 3.1.2 is already 2 versions obsolete. -- Brian D. Ripley, rip...@stats.ox.ac.uk Emeritus Professor of Applied Statistics, University of Oxford
Re: [R] Problem with particular file in XML package?
The OP asked Has anyone else had trouble with the XML package lately and if so, how did you resolve it? For what it's worth... I failed to install XML using install() with the defaults; I can't remember the exact error message, something about access denied. Downloading XML_3.98-1.1.zip with Internet Explorer http://cran.r-project.org/bin/windows/contrib/3.2/XML_3.98-1.1.zip gave a more informative error: Threat Source: http://cran.r-project.or...trib/3.2/XML_3.98-1.1.zip The file requested could not be scanned by Sophos Anti-Virus. This means it could be encrypted or may contain errors that prevent full scanning. As a result, the file was blocked from downloading. = ... so my access was blocked by our systems anti-virus. Our IT people bypassed the anti-virus to download the zip from which I successfully installed. I note that in the library as installed there is a file ...\XML\exampleData\dtd.zip Double-clicking in Windows Explorer gives an error: = Windows cannot open the folder. The Compressed (zipped) Folder ... is invalid. = I speculate that Sophos Anti-Virus could not scan dtd.zip because it tried to open it as a zipped folder and failed. I don't know if it really is a zipped folder or if that's just its name :-O This 2013 thread seems relevant https://stat.ethz.ch/pipermail/r-sig-mac/2013-November/010494.html On 28/05/2015 07:38, Prof Brian Ripley wrote: This really should have been sent to the package maintainer. But that the zip file is corrupt has been reported several times, and does not block installation for anyone else, so your (plural) diagnosis is wrong. On 28/05/2015 03:56, Gen wrote: I have been attempting to install the R devtools package at work. The version of R is 3.1.2 (Pumpkin Helmet). However, the installation of devtools fails because devtools depends on rversions which in turn depends upon the XML package (XML_3.98-1.1.tar.gz), and the XML package is not importing correctly for us. One of our system administrators tried scanning through the files in the XML package, and he said that the particular file: /src/contrib/XML_3.98-1.1.tar.gz/XML/inst/exampleData/dtd.zip looks corrupted. The actual error message he received was: Archive parsing failed! (Data is corrupted). For the record, I tried downloading an older version of the XML package (XML_3.95-0.1.tar.gz) but that was also without success -- this time there was a separate error message about not being able to locate xml2-config. (Perhaps XML_3.95-0.1.tar.gz is just not compatible with R version 3.1.2?) I tried browsing over to the CRAN checks link for the XML package and noticed several red warning messages under the Status column -- not sure if that is typical? Has anyone else had trouble with the XML package lately and if so, how did you resolve it? Would it be possible to remove the potentially corrupted file and then re-upload the package source XML_3.98-1.1.tar.gz to the CRAN webpage? Thanks for your help/suggestions! [[alternative HTML version deleted]] __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html PLEASE do, including what it says about HTML mail, 'at a minimum' information required and upgrading before posting: R 3.1.2 is already 2 versions obsolete. __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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.
Re: [R] Problem with particular file in XML package?
This really should have been sent to the package maintainer. But that the zip file is corrupt has been reported several times, and does not block installation for anyone else, so your (plural) diagnosis is wrong. On 28/05/2015 03:56, Gen wrote: I have been attempting to install the R devtools package at work. The version of R is 3.1.2 (Pumpkin Helmet). However, the installation of devtools fails because devtools depends on rversions which in turn depends upon the XML package (XML_3.98-1.1.tar.gz), and the XML package is not importing correctly for us. One of our system administrators tried scanning through the files in the XML package, and he said that the particular file: /src/contrib/XML_3.98-1.1.tar.gz/XML/inst/exampleData/dtd.zip looks corrupted. The actual error message he received was: Archive parsing failed! (Data is corrupted). For the record, I tried downloading an older version of the XML package (XML_3.95-0.1.tar.gz) but that was also without success -- this time there was a separate error message about not being able to locate xml2-config. (Perhaps XML_3.95-0.1.tar.gz is just not compatible with R version 3.1.2?) I tried browsing over to the CRAN checks link for the XML package and noticed several red warning messages under the Status column -- not sure if that is typical? Has anyone else had trouble with the XML package lately and if so, how did you resolve it? Would it be possible to remove the potentially corrupted file and then re-upload the package source XML_3.98-1.1.tar.gz to the CRAN webpage? Thanks for your help/suggestions! [[alternative HTML version deleted]] __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html PLEASE do, including what it says about HTML mail, 'at a minimum' information required and upgrading before posting: R 3.1.2 is already 2 versions obsolete. -- Brian D. Ripley, rip...@stats.ox.ac.uk Emeritus Professor of Applied Statistics, University of Oxford 1 South Parks Road, Oxford OX1 3TG, UK __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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.
Re: [R] Problem with particular file in XML package?
I have also seen this problem on a student's windows machine (with R 3.2.0 and on multiple mirrors). It appeared that the package zip itself was being corrupted (with an error to the tune of downloaded file size does not agree with actual file size). The most likely explanation that I could come up with was that a virus checker was hitting a false positive and mangling the zip file. Hadley On Thu, May 28, 2015 at 1:38 AM, Prof Brian Ripley rip...@stats.ox.ac.uk wrote: This really should have been sent to the package maintainer. But that the zip file is corrupt has been reported several times, and does not block installation for anyone else, so your (plural) diagnosis is wrong. On 28/05/2015 03:56, Gen wrote: I have been attempting to install the R devtools package at work. The version of R is 3.1.2 (Pumpkin Helmet). However, the installation of devtools fails because devtools depends on rversions which in turn depends upon the XML package (XML_3.98-1.1.tar.gz), and the XML package is not importing correctly for us. One of our system administrators tried scanning through the files in the XML package, and he said that the particular file: /src/contrib/XML_3.98-1.1.tar.gz/XML/inst/exampleData/dtd.zip looks corrupted. The actual error message he received was: Archive parsing failed! (Data is corrupted). For the record, I tried downloading an older version of the XML package (XML_3.95-0.1.tar.gz) but that was also without success -- this time there was a separate error message about not being able to locate xml2-config. (Perhaps XML_3.95-0.1.tar.gz is just not compatible with R version 3.1.2?) I tried browsing over to the CRAN checks link for the XML package and noticed several red warning messages under the Status column -- not sure if that is typical? Has anyone else had trouble with the XML package lately and if so, how did you resolve it? Would it be possible to remove the potentially corrupted file and then re-upload the package source XML_3.98-1.1.tar.gz to the CRAN webpage? Thanks for your help/suggestions! [[alternative HTML version deleted]] __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html PLEASE do, including what it says about HTML mail, 'at a minimum' information required and upgrading before posting: R 3.1.2 is already 2 versions obsolete. -- Brian D. Ripley, rip...@stats.ox.ac.uk Emeritus Professor of Applied Statistics, University of Oxford 1 South Parks Road, Oxford OX1 3TG, UK __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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. -- http://had.co.nz/ __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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] Problem with particular file in XML package?
I have been attempting to install the R devtools package at work. The version of R is 3.1.2 (Pumpkin Helmet). However, the installation of devtools fails because devtools depends on rversions which in turn depends upon the XML package (XML_3.98-1.1.tar.gz), and the XML package is not importing correctly for us. One of our system administrators tried scanning through the files in the XML package, and he said that the particular file: /src/contrib/XML_3.98-1.1.tar.gz/XML/inst/exampleData/dtd.zip looks corrupted. The actual error message he received was: Archive parsing failed! (Data is corrupted). For the record, I tried downloading an older version of the XML package (XML_3.95-0.1.tar.gz) but that was also without success -- this time there was a separate error message about not being able to locate xml2-config. (Perhaps XML_3.95-0.1.tar.gz is just not compatible with R version 3.1.2?) I tried browsing over to the CRAN checks link for the XML package and noticed several red warning messages under the Status column -- not sure if that is typical? Has anyone else had trouble with the XML package lately and if so, how did you resolve it? Would it be possible to remove the potentially corrupted file and then re-upload the package source XML_3.98-1.1.tar.gz to the CRAN webpage? Thanks for your help/suggestions! [[alternative HTML version deleted]] __ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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.
