[BioC] problem on install package RBGL

[Li Long]

yes.  For R 2.10.0/BioConductor 2.5 release, RBGL is 1.22.0

Li

> is RBGL 1.20.0 old?
>
> Li Long 写道:
>> you are using an old version of RBGL.  The latest release has taken care
>> of this issue.
>>
>> Li
>>
>>
>>> hi,
>>>   I met a problem when install RBGL package.
>>> here is
>>> the error information:
>>> * Installing
>>> *source* package ‘RBGL’ ...
>>> untarring boost include
>>> tree...
>>> ** libs
>>> g++
>>> -I/usr/share/R/include     -IboostIncl
>>> -fpic  -g -O2 -c bbc.cpp -o bbc.o
>>> In file included from
>>> boostIncl/boost/mpl/apply.hpp:23,
>>>
>>> from boostIncl/boost/iterator/iterator_facade.hpp:34,
>>>
>>> from boostIncl/boost/generator_iterator.hpp:16,
>>>
>>> from RBGL.hpp:17,
>>>
>>> from bbc.cpp:1:
>>> boostIncl/boost/mpl/apply_wrap.hpp:81:31: error:
>>> missing binary operator before token "("
>>> boostIncl/boost/mpl/apply_wrap.hpp:173:31: error: missing binary
>>> operator before token "("
>>> In file included from
>>> boostIncl/boost/mpl/bind.hpp:27,
>>>
>>> from boostIncl/boost/mpl/lambda.hpp:18,
>>>
>>> from boostIncl/boost/mpl/apply.hpp:25,
>>>
>>> from boostIncl/boost/iterator/iterator_facade.hpp:34,
>>>
>>> from boostIncl/boost/generator_iterator.hpp:16,
>>>
>>> from RBGL.hpp:17,
>>>
>>> from bbc.cpp:1:
>>> boostIncl/boost/mpl/apply_wrap.hpp:81:31: error:
>>> missing binary operator before token "("
>>> boostIncl/boost/mpl/apply_wrap.hpp:173:31: error: missing binary
>>> operator before token "("
>>> In file included from
>>> boostIncl/boost/mpl/lambda.hpp:18,
>>>
>>> from boostIncl/boost/mpl/apply.hpp:25,
>>>
>>> from boostIncl/boost/iterator/iterator_facade.hpp:34,
>>>
>>> from boostIncl/boost/generator_iterator.hpp:16,
>>>
>>> from RBGL.hpp:17,
>>>
>>> from bbc.cpp:1:
>>> boostIncl/boost/mpl/bind.hpp:364:31: error: missing
>>> binary operator before token "("
>>> boostIncl/boost/mpl/bind.hpp:531:31: error: missing binary operator
>>> before token "("
>>> In file included from
>>> boostIncl/boost/mpl/lambda.hpp:22,
>>>
>>> from boostIncl/boost/mpl/apply.hpp:25,
>>>
>>> from boostIncl/boost/iterator/iterator_facade.hpp:34,
>>>
>>> from boostIncl/boost/generator_iterator.hpp:16,
>>>
>>> from RBGL.hpp:17,
>>>
>>> from bbc.cpp:1:
>>> boostIncl/boost/mpl/aux_/full_lambda.hpp:230:31:
>>> error: missing binary operator before token "("
>>> In file
>>> included from boostIncl/boost/iterator/iterator_facade.hpp:34,
>>>
>>> from boostIncl/boost/generator_iterator.hpp:16,
>>>
>>> from RBGL.hpp:17,
>>>
>>> from bbc.cpp:1:
>>> boostIncl/boost/mpl/apply.hpp:138:31: error: missing
>>> binary operator before token "("
>>> In file included from
>>> /usr/include/c++/4.4/backward/hash_set:59,
>>>
>>> from boostIncl/boost/graph/adjacency_list.hpp:22,
>>>
>>> from RBGL.hpp:26,
>>>
>>> from bbc.cpp:1:
>>> /usr/include/c++/4.4/backward/backward_warning.h:28:2: warning:
>>> #warning
>>> This file includes at least one deprecated or antiquated header which
>>> may
>>> be removed without further notice at a future date. Please use a
>>> non-deprecated interface with equivalent functionality instead. For a
>>> listing of replacement headers and interfaces, consult the file
>>> backward_warning.h. To disable this warning use -Wno-deprecated.
>>> make: *** [bbc.o] error 1
>>> ERROR: compilation failed for package
>>> ‘RBGL’
>>> * Removing
>>> ‘/home/trace/R/i486-pc-linux-gnu-library/2.9/RBGL’
>>>
>>> The downloaded packages are in
>>>
>>> ‘/tmp/Rtmp6CoA1c/downloaded_packages’
>>> Warning message:
>>> In install.packages(pkgs = pkgs, repos = repos, dependencies =
>>> dependencies,  :
>>>   installation of package 'RBGL' had
>>> non-zero exit status
>>> and this is my r information:
>>> sessionInfo()
>>> R version 2.9.2 (2009-08-24)
>>>
>>> i486-pc-linux-gnu
>>>
>>> locale:
>>> LC_CTYPE=zh_CN.UTF-8;LC_NUMERIC=C;LC_TIME=zh_CN.UTF-8;LC_COLLATE=zh_CN.UTF-8;LC_MONETARY=C;LC_MESSAGES=zh_CN.UTF-8;LC_PAPER=zh_CN.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=zh_CN.UTF-8;LC_IDENTIFICATION=C
>>>
>>> attached base packages:
>>> [1] stats
>>> graphics  grDevices utils     datasets
>>> methods   base
>>>
>>> other
>>> attached packages:n
>>> [1] graph_1.22.5
>>>
>>> loaded via a
>>> namespace (and not attached):
>>> [1] tcltk_2.9.2 tools_2.9.2
>>>
>>> My g++ version is 4.4.1 ubuntu
>>>
>>>
>>> thanks.
>>>
>>> LiYun
>>>
>>> 	[[alternative HTML version deleted]]
>>>
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