[Bioc-devel] XML package unavailable? or needed by annotate and graph?

[Keith Satterley]

thanks Martin, install.packages worked fine!

cheers,

Keith

Martin Morgan wrote:
> Hi Keith -- I'm not sure why XML is not available through biocLite,
> but as a temporary measure you can retrieve it from the 'CRAN extras'
> repository using install.packages.
> 
> Martin
> 
> Keith Satterley <keith at wehi.EDU.AU> writes:
> 
>> When I do
>>
>> biocLite(dependencies=TRUE)
>>
>> I get a warning message saying "
>> dependency ‘XML’ is not available
>>
>> If I try to install XML using:
>>
>> biocLite("XML")
>>
>> I get:
>> Running biocinstall version 2.2.6 with R version 2.7.0 (under development)
>> Your version of R requires version 2.2 of Bioconductor.
>> Warning message:
>> package ‘XML’ is not available
>>
>> On checking installed packages DESCRIPTION files, I find the lines:
>>
>> annotate:
>> DESCRIPTION:        rae230aprobe, tkWidgets, XML (>= 0.92-2), hsahomology,
>> graph:
>> DESCRIPTION:Suggests: SparseM (>= 0.36), XML, RBGL
>>
>> Is XML available anywhere or do the annotate package and graph package need 
>> their DESCRIPTION files modified?
>>
>>  > sessionInfo()
>> R version 2.7.0 beta (2008-04-12 r45280)
>> i386-pc-mingw32
>>
>> locale:
>> LC_COLLATE=English_Australia.1252;LC_CTYPE=English_Australia.1252;LC_MONETARY=English_Australia.1252;LC_NUMERIC=C;LC_TIME=English_Australia.1252
>>
>> attached base packages:
>> [1] stats     graphics  grDevices datasets  utils     methods   base
>>
>> loaded via a namespace (and not attached):
>> [1] tools_2.7.0
>>
>> cheers,
>>
>> Keith
>>
>> ========================
>> Keith Satterley
>> Bioinformatics Division
>> The Walter and Eliza Hall Institute of Medical Research
>> Parkville, Melbourne,
>> Victoria, Australia
>>
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>