similar to: Issues with installing RBGL package

Hi all, I was installing a package *RBGL* of bioconductor. However, I had some issues while installing it. I asked the devel group of bioconductor and they told me to consult this group. Here is my conversation with the bioconductor group related to the problem *Me->* I was trying to install the RBGL package using the following command biocLite("RBGL") However, I got the

Hi I've been trying to install RBGL and several other packages in gR task view on Fedora11 64 bit without success My guess is that it is due to boost (fedora is at boost 1.37 which is a few minor versions behind 1.40) and very recent g++ Has anyone managed to install the gR task view or RBGL in particular? Thanks Cheers Peter ======== [root at SPH-PH-428-04P ~]# gcc --version gcc (GCC)

I've just installed Debian Lenny and RBGL fails compilation with the following errors (sessionInfo() follows). * Installing *source* package 'RBGL' ... untarring boost include tree... ** libs g++ -I/home/mkimpel/R_HOME/R-patched/R-build/lib64/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -c bbc.cpp -o bbc.o In file included from /usr/include/c++/4.3/ext/hash_set:64,

Dear all, I am trying to run the function "lambdaSets" using the package "RBGL". This package uses another package "graph" which has been removed from the CRAN repository, but is available at the archive (http://cran.r-project.org/src/contrib/Archive/graph/). I installed the package from the R menu at "install packages from local zip files" (after

Hi I'm trying to install the RBGL package. However I am getting the following error; can anybody shed some light on what I'm missing? /usr/lib/gcc/i486-linux-gnu/4.1.2/../../../../include/c++/4.1.2/cstdlib:135: error: ‘::system’ has not been declared Thanks. Iain > sessionInfo() R version 2.7.2 (2008-08-25) i486-pc-linux-gnu locale:

FYI: It also showed up for ARM yesterday, but only for a non-debug build. On Mar 5, 2009, at 4:32 AM, Gabor Greif wrote: > Hi Bill, > > this might be a latent bug related to PPC. I have no such > machine to access atm., but I shall be able to reproduce the > problem when back at home. (In about 4 hours). > > I keep you informed. > > Cheers, > > Gabor >

Hi Bill, this might be a latent bug related to PPC. I have no such machine to access atm., but I shall be able to reproduce the problem when back at home. (In about 4 hours). I keep you informed. Cheers, Gabor On Mar 4, 7:57 pm, Bill Wendling <wendl... at apple.com> wrote: > Something last night broke the build on Darwin PPC. Possible Gabor's   > check-in? > > -bw

Something last night broke the build on Darwin PPC. Possible Gabor's check-in? -bw Begin forwarded message: > From: admin at spang.apple.com (admin) > Date: March 4, 2009 3:56:10 AM PST > To: wendling at apple.com > Subject: PPC Nightly Build Result > > /Volumes/SandBox/NightlyTest/llvmgcc42.roots/llvmgcc42~obj/obj- > powerpc-powerpc/./prev-gcc/xgcc

g++ -m32 -c -g -O2 -mdynamic-no-pic -DIN_GCC -W -Wall -Wwrite-strings - pedantic -Wno-long-long -Wno-variadic-macros -Wmissing-format- attribute -Werror -mdynamic-no-pic -DHAVE_CONFIG_H -Wno-unused - DTARGET_NAME=\"i686-apple-darwin9\" -DNDEBUG -I. -I. -I/tmp/ llvmgcc42.roots/llvmgcc42~obj/src/gcc -I/tmp/llvmgcc42.roots/ llvmgcc42~obj/src/gcc/.

Hi all, There's been a recent bootstrap failure that might be covered up because of another failure. I just wanted to point this out so that people can take a look: -bw Here's the failure from our buildbot: Assertion failed: (DestReg == VirtReg && "Unknown load situation!"), function RewriteMBB, file /Volumes/Sandbox/Buildbot/llvm/build.llvm-

this is from a fresh svn checkout: [stvjc at stvjc1 R-devel]$ ls -tl Makefile -rw-rw-r-- 1 stvjc stvjc 12833 Jun 26 07:24 Makefile [stvjc at stvjc1 R-devel]$ svn up At revision 45988. [stvjc at stvjc1 R-devel]$ bin/R R version 2.8.0 Under development (unstable) (--) Copyright (C) The R Foundation for Statistical Computing ISBN 3-900051-07-0 .. > sessionInfo() R version 2.8.0 Under

Hi there, I am doing some network analysis working with k-cliques and over time I want to see what nodes are members of what cliques and how big these cliques are. I have managed to produce a matrix which shows which k-cliques each node is part of over the 100 time periods (slow though) but I cannot seem to calculate the size of each k-clique which is actually just a count. Basically I have a

subsequent to a fresh svn checkout, configure, make: make[5]: Leaving directory `/udd/stvjc/JEDI/R200/src/library/tools/src' make[4]: Leaving directory `/udd/stvjc/JEDI/R200/src/library/tools/src' Error in loadNamespace(package, lib.loc, keep.source, TRUE, TRUE) : 'tools' is not a valid package -- installed < 2.0.0? Execution halted make[3]: *** [all] Error 1 make[3]:

Filed a bug with Apple 10073924  but I'm wondering if anyone else knows what to fix here: Summary: Building a Darwin cross compiler so I can use distcc with my Mac. Host: x86_64-gnu-linux with GCC 4.5.3. Steps to Reproduce: Download tar ball tar xvf llvmgcc42-2335.15.tar.gz mkdir gcc-build cd gcc-build CFLAGS="-w -m32" CXXFLAGS="$CFLAGS" CPPFLAGS="$CFLAGS"

Some time ago I had difficulty installing RBGL with Ubuntu Hardy on R-2.7.0 and the problem was attributed to an with BGL. I got some very helpful advice and posted a script to fix the problem by hacking the RGBL source code: dateTue, Jan 15, 2008 at 2:16 PMsubjectRe: [R-sig-Debian] trouble installing building packages from source using R 2.6.0 on Ubuntu Gutsy AMD64mailing

Full_Name: Christian Kuehnert Version: 2.7.1 OS: Windows XP Submission from: (NULL) (91.14.237.109) Hello, I've installed the package RBGL (and XML and Rgraphviz) and tried to follow the examples in the RBGL-manual http://bioconductor.org/packages/2.2/bioc/vignettes/RBGL/inst/doc/RBGL.pdf But when I try to plot the graph using e.g. plot(dijk) an error message occurs: "Error in

Dear all, I meet error when installing the newest Bioconductor packages 2.0 for R 2.5.1. the enviroments are as bellow: > sessionInfo() R version 2.5.1 (2007-06-27) i686-pc-linux-gnu locale:

Please email the list, not me directly. Try doing a 'make clean' then a 'make VERBOSE=1' in the test-suite directory. -Chris On Jan 13, 2011, at 6:04 PM, Qingan Li wrote: > Hi Chris, > > [qali at qali SingleSource]$ llvm-gcc -v > Using built-in specs. > Target: x86_64-unknown-linux-gnu > Configured with: /home/nicholas/2.8-final/llvmgcc42-2.8.src/configure

> > Using built-in specs. > Target: i686-apple-darwin9 > Configured with: /tmp/llvmgcc42.r46865.roots/llvmgcc42.r46865~obj/ > src/configure --disable-checking --enable-werror --prefix=/Developer/ > usr/llvm-gcc-4.2 --mandir=/Developer/usr/llvm-gcc-4.2/share/man -- > enable-languages=c,objc,c++,obj-c++ --program-prefix=llvm- --program- >

On Feb 16, 2008, at 12:55 PM, Dale Johannesen wrote: >> >> Using built-in specs. >> Target: i686-apple-darwin9 >> Configured with: /tmp/llvmgcc42.r46865.roots/llvmgcc42.r46865~obj/ >> src/configure --disable-checking --enable-werror --prefix=/Developer/ >> usr/llvm-gcc-4.2 --mandir=/Developer/usr/llvm-gcc-4.2/share/man -- >>