[Bioc-devel] R: Re: Problem on Installation of DEseq2

[jarod_v6 at libero.it]

Thanks for your help
I have the 2.0 when i try to install 3.8  I have the error on version of gcc 
on Rhel5.5



>----Messaggio originale----
>Da: michaelisaiahlove at gmail.com
>Data: 18/06/2014 17.44
>A: "jarod_v6 at libero.it"<jarod_v6 at libero.it>
>Cc: "bioc-devel at r-project.org"<bioc-devel at r-project.org>
>Ogg: Re: [Bioc-devel] Problem on Installation of DEseq2
>
>hi Jarod,
>
>What version of Rcpp and RcppArmadillo is installed?
>
>Mike
>
>On Wed, Jun 18, 2014 at 11:35 AM, jarod_v6 at libero.it <jarod_v6 at libero.it> 
wrote:
>>
>>>    >I can't install this  DESEq2 on the RHEL 5.5 server:
>>>    >
>>>    >* installing *source* package ‘RcppArmadillo’ ...
>>>    >** package ‘RcppArmadillo’ successfully unpacked and MD5 sums
>> checked
>>>    >* checking LAPACK_LIBS:  divide-and-conquer complex SVD unavailable 
via
>> R-
>>>    >supplied LAPACK
>>>    >* divide-and-conquer algorithm for complex SVD will be redirected to
>> default
>>>    >** libs
>>>    >g++ -I/illumina/software/PROG/R302/lib64/R/include -DNDEBUG  -
>>>    >I/usr/local/include -I"
>>>    >/illumina/software/PROG/R302/lib64/R/library/Rcpp/include"  -I..
>> /inst/include
>>>    -
>>>    >fpic  -g -O2  -c RcppArmadillo.cpp -o RcppArmadillo.o
>>>    >In file included from ../inst/include/armadillo:42,
>>>    >                 from ../inst/include/RcppArmadilloForward.h:37,
>>>    >                 from ../inst/include/RcppArmadillo.h:30,
>>>    >                 from RcppArmadillo.cpp:22:
>>>    >../inst/include/armadillo_bits/compiler_setup.hpp:119:6: error: #error
>> "***
>>>    >Need a newer compiler ***"
>>>    >/illumina/software/PROG/R302/lib64/R/library/Rcpp/include/Rcpp/Date.h:
>> In
>>>    >member function ‘void Rcpp::Date::update_tm()’:
>>>    >/illumina/software/PROG/R302/lib64/R/library/Rcpp/include/Rcpp/Date.h:
>> 108:
>>>
>>>- Ignored:
>>>    >warning: converting to ‘time_t’ from ‘double’
>>>    >/illumina/software/PROG/R302/lib64/R/library/Rcpp/include/Rcpp/Date.h:
>> In
>>>    >function ‘Rcpp::Date Rcpp::operator+(const Rcpp::Date&, int)’:
>>>    >/illumina/software/PROG/R302/lib64/R/library/Rcpp/include/Rcpp/Date.h:
>> 139:
>>>    >warning: converting to ‘time_t’ from ‘double’
>>>    >make: *** [RcppArmadillo.o] Error 1
>>>    >ERROR: compilation failed for package ‘RcppArmadillo’
>>>    >* removing â
€˜/illumina/software/PROG/R302/lib64/R/library/RcppArmadilloâ
>> €™
>>>    >* restoring previous
>>>    >‘/illumina/software/PROG/R302/lib64/R/library/RcppArmadillo’
>>>    >
>>>    >The downloaded source packages are in
>>>    >  ‘/tmp/Rtmp30ZzKT/downloaded_packages’
>>>    >Updating HTML index of packages in '.Library'
>>>    >Making 'packages.html' ... done
>>>    >Warning messages:
>>>    >1: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ...) :
>>>    >  installation of package ‘RcppArmadillo’ had non-zero exit status
>>>    >2: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ...) :
>>>    >  installation of package ‘DESeq2’ had non-zero exit status
>>>    >3: In install.packages(update[instlib == l, "Package"], l, contriburl
>>>    >
>>>    >sessionInfo()
>>>    >R version 3.0.2 (2013-09-25)
>>>    >Platform: x86_64-unknown-linux-gnu (64-bit)
>>>    >
>>>    >locale:
>>>    > [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
>>>    > [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
>>>    > [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
>>>    > [7] LC_PAPER=en_US.UTF-8       LC_NAME=C
>>>    > [9] LC_ADDRESS=C               LC_TELEPHONE=C
>>>    >[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
>>>    >
>>>    >attached base packages:
>>>    >[1] stats     graphics  grDevices utils     datasets  methods
>> base
>>>    >
>>>    >other attached packages:
>>>    >[1] BiocInstaller_1.12.1
>>>    >
>>>    >loaded via a namespace (and not attached):
>>>    >[1] tools_3.0.
>>>    >Any Idea how can resolve?
>>>    >
>>>    >
>>>
>>>
>>>
>>>- Done.
>>>
>>>
>>
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