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

----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> 

   >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 

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 ?

??

   >* 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.