[BioC] Bug report: Help pages for degree (package graph) not displayed

[Patrick Aboyoun]

Kevin,
Thanks for pointing out this problem! It turns out that most of the BioC 
2.2 Windows binary packages had corrupt Windows compressed HTML files. I 
am not sure what the cause was, but I do know they have been corrupt for 
about 1 week. For the Windows users out there, please remove all of the 
Windows binary packages for BioC 2.2 (just to be safe) and reinstall the 
latest Windows binary packages from the BioC repository.


Thanks,
Patrick


Martin Morgan wrote:
> Thanks Kevin, I think this is a problem with our build system here in
> Seattle, and it'll be corrected before the release. Martin
>
> "Zembower, Kevin" <kzembowe at jhuccp.org> writes:
>
>   
>> I just installed Windows version 2.7.0 of R, and version 1.17.17 of
>> graph. When I typed "?degree" after loading the graph library, I got the
>> error: 'Error in
>> print.help_files_with_topic("C:/R/R-2.7.0/library/graph/chm/graph-class"
>> ) : CHM file could not be displayed'
>>
>> The output of these steps is shown below. Please let me know if you have
>> any questions. The maintainer of the 'graph' package suggested I report
>> this bug to the BioC list, to allow testing in a Windows environment.
>>
>> -Kevin
>>
>> Kevin Zembower
>> Internet Services Group manager
>> Center for Communication Programs
>> Bloomberg School of Public Health
>> Johns Hopkins University
>> 111 Market Place, Suite 310
>> Baltimore, Maryland  21202
>> 410-659-6139
>> =======================================
>>     
>>> biocLite("graph")
>>>       
>> Running biocinstall version 2.2.7 with R version 2.7.0 Your version of R
>> requires version 2.2 of BioConductor.
>> trying URL
>> 'http://bioconductor.org/packages/2.2/bioc/bin/windows/contrib/2.7/graph
>> _1.17.17.zip'
>> Content type 'application/zip' length 811763 bytes (792 Kb) opened URL
>> downloaded 792 Kb
>>
>> package 'graph' successfully unpacked and MD5 sums checked
>>
>> The downloaded packages are in
>>         C:\Documents and Settings\KZEMBOWE\Local
>> Settings\Temp\RtmpLl91qQ\downloaded_packages
>> updating HTML package descriptions
>>
>> <snip installing SNAData and RBGL>
>>
>>     
>>> library("graph")
>>> ?degree
>>>       
>> Error in
>> print.help_files_with_topic("C:/R/R-2.7.0/library/graph/chm/graph-class"
>> ) : 
>>   CHM file could not be displayed
>>     
>>> help("degree", package="graph")
>>>       
>> Error in
>> print.help_files_with_topic("C:/R/R-2.7.0/library/graph/chm/graph-class"
>> ) : 
>>   CHM file could not be displayed
>>     
>>> sessionInfo()
>>>       
>> R version 2.7.0 (2008-04-22) 
>> i386-pc-mingw32 
>>
>> locale:
>> LC_COLLATE=English_United States.1252;LC_CTYPE=English_United
>> States.1252;LC_MONETARY=English_United
>> States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252
>>
>> attached base packages:
>> [1] stats     graphics  grDevices utils     datasets  methods   base
>>
>>
>> other attached packages:
>> [1] SNAData_1.8.0 graph_1.17.17
>>
>> loaded via a namespace (and not attached):
>> [1] cluster_1.11.10 tools_2.7.0    
>>     
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>>     
>
>