./configure --prefix=/home/phpeters/R/R-3.2.3/ --with-readline --with-cairo --with-libpng --with-jpeglib --with-libtiff --with-system-zlib --with-system-pcre --with-recommended-packages=yes

R is now configured for x86_64-pc-linux-gnu

  Source directory:          .
  Installation directory:    /home/phpeters/R/R-3.2.3

  C compiler:                gcc -std=gnu99  -g -O2
  Fortran 77 compiler:       gfortran  -g -O2

  C++ compiler:              g++  -g -O2
  C++ 11 compiler:           g++  -std=c++0x -g -O2
  Fortran 90/95 compiler:    gfortran -g -O2
  Obj-C compiler:	      

  Interfaces supported:      X11, tcltk
  External libraries:        readline, curl
  Additional capabilities:   PNG, JPEG, TIFF, NLS, cairo
  Options enabled:           shared BLAS, R profiling

  Capabilities skipped:      ICU
  Options not enabled:       memory profiling

  Recommended packages:      yes



######################################
######

./configure --prefix=/home/phpeters/R/R-3.1.1/ --with-readline --with-cairo --with-libpng --with-jpeglib --with-libtiff --with-system-zlib --with-system-pcre --with-recommended-packages=yes

make && make install


R is now configured for x86_64-unknown-linux-gnu

  Source directory:          .
  Installation directory:    /home/phpeters/R/R-3.1.1

  C compiler:                gcc -std=gnu99  -g -O2
  Fortran 77 compiler:       gfortran  -g -O2

  C++ compiler:              g++  -g -O2
  C++ 11 compiler:           g++  -std=c++0x -g -O2
  Fortran 90/95 compiler:    gfortran -g -O2
  Obj-C compiler:	      

  Interfaces supported:      X11, tcltk
  External libraries:        readline
  Additional capabilities:   PNG, JPEG, TIFF, NLS, cairo
  Options enabled:           shared BLAS, R profiling

  Recommended packages:      yes



working:
edaseq
teqc

not working: deseq