[BioC] Failing to install genefilter-1.12.0

[Benilton Carvalho]

Hi Herve,

thanks for your feedback.

I do have libstdc++ and libstd++-devel (3.4.6-3) available... and c+ 
+config.h is installed on my system.

Any chance it is something else?

thanks,
b


On Mar 19, 2007, at 2:43 PM, Herve Pages wrote:

> Hi Benilton,
>
> Make sure that you have the libstdc++ _and_ the libstdc++-devel RPMs
> installed on your Red Hat system.
> On my SuSE 10.2 system, the exact names for those RPMs are
>   libstdc++41
>   libstdc++41-devel
> The c++config.h file is included in the libstdc++41-devel RPM.
>
> Cheers,
> H.
>
> Benilton Carvalho wrote:
>> Hi everyone,
>>
>> I just built from the source R-2.4.1, so it's a "brand new"  
>> installation.
>>
>> Then:
>>
>> source("http://www.bioconductor.org/bioLite.R")
>> biocLite(c("simpleaffy", "affyPLM", "RColorBrewer"))
>>
>> everything goes almost OK: I can't get genefilter to install  
>> (therefore I
>> don't have simpleaffy)
>>
>> It's a long output that I get, but it starts with:
>>
>> In file included from
>> /usr/lib/gcc/x86_64-redhat-linux/3.4.6/../../../../include/c++/ 
>> 3.4.6/vector:67,
>>                   from half_range_mode.cpp:4:
>> /usr/lib/gcc/x86_64-redhat-linux/3.4.6/../../../../include/c++/ 
>> 3.4.6/bits/stl_algobase.h:64:28:
>> bits/c++config.h: No such file or directory
>> In file included from
>> /usr/lib/gcc/x86_64-redhat-linux/3.4.6/../../../../include/c++/ 
>> 3.4.6/vector:68,
>>                   from half_range_mode.cpp:4:
>> /usr/lib/gcc/x86_64-redhat-linux/3.4.6/../../../../include/c++/ 
>> 3.4.6/bits/allocator.h:80:
>> error: expected template-name before '<' token
>> /usr/lib/gcc/x86_64-redhat-linux/3.4.6/../../../../include/c++/ 
>> 3.4.6/bits/allocator.h:80:
>> error: expected `{' before '<' token
>> /usr/lib/gcc/x86_64-redhat-linux/3.4.6/../../../../include/c++/ 
>> 3.4.6/bits/allocator.h:80:
>> error: expected unqualified-id before '<' token
>>
>>
>> Have anyone observed something like this?
>>
>> thanks,
>>
>> b.
>>
>> --
>>
>>> sessionInfo()
>> R version 2.4.1 (2006-12-18)
>> x86_64-unknown-linux-gnu
>>
>> locale:
>> LC_CTYPE=en_US.iso885915;LC_NUMERIC=C;LC_TIME=en_US.iso885915;LC_COLL 
>> ATE=en_US.iso885915;LC_MONETARY=en_US.iso885915;LC_MESSAGES=en_US.iso 
>> 885915;LC_PAPER=en_US.iso885915;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C 
>> ;LC_MEASUREMENT=en_US.iso885915;LC_IDENTIFICATION=C
>>
>> attached base packages:
>> [1] "stats"     "graphics"  "grDevices" "utils"     "datasets"   
>> "methods"
>> [7] "base"
>>
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