[BioC] Problem running pathview due to broken XML package

[Luo Weijun]

Hi Naveed,
I was aware of this installation problem of XML package with outdated R/Biocondutor. Please always try to upgrade to the latest verison of R (3.0)/Bioconductor (2.12) for simpler installation and better use of Pathview.
If you have to stick to your old version of R/Bioconductor. You may install XML package manually. You may download it from CRAN (http://cran.r-project.org/web/packages/XML/index.html) and then do something like:
install.packages("/your/local/directory/XML_3.95-0.2.zip", repos = NULL)
For more problems check with the Installation section of pathview vignette or webpage at http://pathview.r-forge.r-project.org/. HTH.
Weijun

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On Thu, 7/4/13, Naveed Shaikh <naveed.shaikh at gmail.com> wrote:

 Subject: Problem running pathview due to broken XML package

 Date: Thursday, July 4, 2013, 8:54 AM

 Hello
 Weijun,

 I came across your bioconductor
 package ‘pathview’
 and wanted to take it for a run but realized that one of the
 packages down the
 dependency chain (XML package) is broken. This is apparently
 due to corrupt archiving.

 http://cran.fhcrc.org/web/packages/XML/index.html

 I noticed the same for the older
 archives
 of XML package. I am wondering if you encountered similar
 issue and if so, how
 did you go about resolving it? If it is of any help, I have
 attached the log
 file from R when I installed pathview.
 Let me know if you are
 aware of this issue and if there is a fix for it.Thanks.Regards,Naveed