Skip to content

Installing R-1.1.0 (PR#612)

6 messages · Berwin A Turlach, Albrecht Gebhardt, Brian Ripley

Original
Berwin A Turlach
# 
Dear R-developers,

I finally got around to install R 1.1.0 but had problems at the `make
check' stage.

After compiling the released R 1.1.0 version the `make check' stage
stopped while checking the examples in base.  There was some problem
with the quantile function and the check stopped complaining that NA's
are not allowed.

But I assume that this problem is already known because `make check'
passed this point after I applied the latest patches and recompiled
R.  However `make check' still chokes on base and on mva.  The last
lines in base-Ex.Rout are:
+       xlab = "x", ylab = "s", zlab="density", theta = 150)
Error in hsv(h, s, v, gamma) : invalid HSV color
Execution halted

And the last lines in mva-Ex.Rout are:
Standard deviations:
[1] 1.5748783 0.9948694 0.5971291 0.4164494

Rotation:
                PC1        PC2        PC3         PC4
Murder   -0.5358995 -0.4181809  0.3412327 -0.64922780
Assault  -0.5831836 -0.1879856  0.2681484  0.74340748
UrbanPop -0.2781909  0.8728062  0.3780158 -0.13387773
Rape     -0.5434321  0.1673186 -0.8177779 -0.08902432
Error in hsv(h, s, v, gamma) : invalid HSV color
Execution halted

Any idea how I could get around this problem?  I presume that this
problem has to do with the number of available colors?  (For me, HSV
means "Hamburger Sport Verein", a German soccer club ;-)) ). 

Cheers,

        Berwin

--please do not edit the information below--

Version:
 platform = i686-pc-linux-gnu
 arch = i686
 os = linux-gnu
 system = i686, linux-gnu
 status = Patched
 major = 1
 minor = 1.0
 year = 2000
 month = July
 day = 17
 language = R

Search Path:
 .GlobalEnv, Autoloads, package:base

-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-
r-devel mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html
Send "info", "help", or "[un]subscribe"
(in the "body", not the subject !)  To: r-devel-request@stat.math.ethz.ch
_._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._
Brian Ripley
# 
Berwin,

i686-pc-linux-gnu is a widely used and tested platform for R, and
we know that 1.1.0 and the latest patched version both pass `make check'
on a Debian distribution (2.2?) and RedHat 6.0 and (RedHat 6.2
with gcc-2.95.2) and various others.

This suggests that the problem is specific to your Linux installation,
so can you give us more details please?
On Thu, 20 Jul 2000 berwin@maths.uwa.edu.au wrote:

            

      
      
      
    

        
Look at ?hsv for the interpretation.  As I understand it hsv is a variant
on hsb.

Brian

  
    

      
      
    

  


  


      

    

    

      
      

        


  

        

      Berwin A Turlach
    

    

      
      #
    

  


  

      
Dear Brian,

            

      
      
      
    

        
BDR> i686-pc-linux-gnu is a widely used and tested platform for R,
  BDR> and we know that 1.1.0 and the latest patched version both pass
  BDR> `make check' on a Debian distribution (2.2?) and RedHat 6.0 and
  BDR> (RedHat 6.2 with gcc-2.95.2) and various others.

  BDR> This suggests that the problem is specific to your Linux
  BDR> installation, so can you give us more details please?
Sure. 

At the end of ./configure in the unpacked R-1.1.0 directory I get:

    R is now configured for i686-pc-linux-gnu
    
      Source directory:         .
      Installation directory:   /usr/local.own
      C compiler:               gcc  -mieee-fp -D__NO_MATH_INLINES -g -O2
      FORTRAN compiler:         g77  -g -O2
      X11 support:              yes
      Gnome support:            no
      Tcl/Tk support:           yes

I append below the config.cache that is created.

My system is essentially a RedHat 6.0 with a 2.2.10 kernel.

I am using the Pentium GCC (http://www.goof.com/pcg/)

    bossiaea:/opt/R/R-1.1.0$ which gcc
    /usr/local.own/bin/gcc
    bossiaea:/opt/R/R-1.1.0$ gcc --version
    pgcc-2.91.60

(Perhaps this one could be updated.)

My computer has a S3 Trio3d graphics card and I could never get it to
work properly with any of the drivers from XFree86.  Instead I am
using a frame buffer device.  I am using the AnotherLevel
configuration of FVWM2 as my window environemnt.  When I query the
system about FVWM I get:

    Serverhost=bossiaea, Clienthost=bossiaea
    Hostname=bossiaea, Ostype=Linux, User=berwin
    Version=11, Revision=6
    Vendor=The XFree86 Project, Inc, Release=3330
    Width=1024, Height=768
    X_Resolution=2951, Y_Resolution=2954
    Planes=8, Class=PseudoColor, Color=Yes
    Fvwm_Version=2.2, Options=SHAPE XPM M4
    Fvwmdir=/usr/X11R6/lib/X11/fvwm2

I have XFree86 3.3.5 installed, so this could perhaps be updated too.

    bossiaea:/opt/R/R-1.1.0$ rpm -aq | grep -i xfree
    XFree86-VGA16-3.3.5-1.6.0
    XFree86-S3V-3.3.5-1.6.0
    XFree86-xfs-3.3.5-1.6.0
    XFree86-S3-3.3.5-1.6.0
    XFree86-75dpi-fonts-3.3.5-1.6.0
    XFree86-libs-3.3.5-1.6.0
    XFree86-100dpi-fonts-3.3.5-1.6.0
    XFree86-SVGA-3.3.5-1.6.0
    XFree86-FBDev-3.3.3.1-49
    XFree86-3.3.5-1.6.0
    XFree86-devel-3.3.5-1.6.0

Any other information that could be helpful?

Cheers,

        Berwin

+++++++++++++++++++++++++ config.cache +++++++++++++++++++++++++
# This file is a shell script that caches the results of configure
# tests run on this system so they can be shared between configure
# scripts and configure runs.  It is not useful on other systems.
# If it contains results you don't want to keep, you may remove or edit it.
#
# By default, configure uses ./config.cache as the cache file,
# creating it if it does not exist already.  You can give configure
# the --cache-file=FILE option to use a different cache file; that is
# what configure does when it calls configure scripts in
# subdirectories, so they share the cache.
# Giving --cache-file=/dev/null disables caching, for debugging configure.
# config.status only pays attention to the cache file if you give it the
# --recheck option to rerun configure.
#
ac_cv_c_bigendian=${ac_cv_c_bigendian='no'}
ac_cv_c_const=${ac_cv_c_const='yes'}
ac_cv_flibs=${ac_cv_flibs=' -lg2c -lm -L/usr/local.own/share/icon.9.3.1/ilib -L/usr/local.own/lib/gcc-lib/i686-pc-linux-gnu/pgcc-2.91.60 -L/usr/local.own/i686-pc-linux-gnu/lib -L/usr/local.own/lib -lm'}
ac_cv_func___setfpucw=${ac_cv_func___setfpucw='no'}
ac_cv_func_acosh=${ac_cv_func_acosh='yes'}
ac_cv_func_alloca_works=${ac_cv_func_alloca_works='yes'}
ac_cv_func_asinh=${ac_cv_func_asinh='yes'}
ac_cv_func_atanh=${ac_cv_func_atanh='yes'}
ac_cv_func_bcopy=${ac_cv_func_bcopy='yes'}
ac_cv_func_connect=${ac_cv_func_connect='yes'}
ac_cv_func_finite=${ac_cv_func_finite='yes'}
ac_cv_func_getcwd=${ac_cv_func_getcwd='yes'}
ac_cv_func_gethostbyname=${ac_cv_func_gethostbyname='yes'}
ac_cv_func_hypot=${ac_cv_func_hypot='yes'}
ac_cv_func_isnan=${ac_cv_func_isnan='yes'}
ac_cv_func_matherr=${ac_cv_func_matherr='yes'}
ac_cv_func_memcpy=${ac_cv_func_memcpy='yes'}
ac_cv_func_memmove=${ac_cv_func_memmove='yes'}
ac_cv_func_popen=${ac_cv_func_popen='yes'}
ac_cv_func_remove=${ac_cv_func_remove='yes'}
ac_cv_func_rint=${ac_cv_func_rint='yes'}
ac_cv_func_shmat=${ac_cv_func_shmat='yes'}
ac_cv_func_strcoll=${ac_cv_func_strcoll='yes'}
ac_cv_func_strdup=${ac_cv_func_strdup='yes'}
ac_cv_func_system=${ac_cv_func_system='yes'}
ac_cv_func_times=${ac_cv_func_times='yes'}
ac_cv_func_vfork_works=${ac_cv_func_vfork_works='yes'}
ac_cv_func_vprintf=${ac_cv_func_vprintf='yes'}
ac_cv_func_vsnprintf=${ac_cv_func_vsnprintf='yes'}
ac_cv_have_x=${ac_cv_have_x='have_x=yes 		ac_x_includes=/usr/X11R6/include ac_x_libraries=/usr/X11R6/lib'}
ac_cv_header_alloca_h=${ac_cv_header_alloca_h='yes'}
ac_cv_header_dirent_dirent_h=${ac_cv_header_dirent_dirent_h='yes'}
ac_cv_header_dl_h=${ac_cv_header_dl_h='no'}
ac_cv_header_dlfcn_h=${ac_cv_header_dlfcn_h='yes'}
ac_cv_header_elf_h=${ac_cv_header_elf_h='yes'}
ac_cv_header_floatingpoint_h=${ac_cv_header_floatingpoint_h='no'}
ac_cv_header_fpu_control_h=${ac_cv_header_fpu_control_h='yes'}
ac_cv_header_ieee754_h=${ac_cv_header_ieee754_h='yes'}
ac_cv_header_ieeefp_h=${ac_cv_header_ieeefp_h='no'}
ac_cv_header_locale_h=${ac_cv_header_locale_h='yes'}
ac_cv_header_netdb_h=${ac_cv_header_netdb_h='yes'}
ac_cv_header_netinet_in_h=${ac_cv_header_netinet_in_h='yes'}
ac_cv_header_netinet_tcp_h=${ac_cv_header_netinet_tcp_h='yes'}
ac_cv_header_png_h=${ac_cv_header_png_h='yes'}
ac_cv_header_readline_history_h=${ac_cv_header_readline_history_h='yes'}
ac_cv_header_readline_readline_h=${ac_cv_header_readline_readline_h='yes'}
ac_cv_header_rpc_rpc_h=${ac_cv_header_rpc_rpc_h='yes'}
ac_cv_header_rpc_xdr_h=${ac_cv_header_rpc_xdr_h='yes'}
ac_cv_header_stdc=${ac_cv_header_stdc='yes'}
ac_cv_header_string_h=${ac_cv_header_string_h='yes'}
ac_cv_header_sys_param_h=${ac_cv_header_sys_param_h='yes'}
ac_cv_header_sys_socket_h=${ac_cv_header_sys_socket_h='yes'}
ac_cv_header_sys_stat_h=${ac_cv_header_sys_stat_h='yes'}
ac_cv_header_sys_time_h=${ac_cv_header_sys_time_h='yes'}
ac_cv_header_sys_times_h=${ac_cv_header_sys_times_h='yes'}
ac_cv_header_sys_wait_h=${ac_cv_header_sys_wait_h='yes'}
ac_cv_header_time=${ac_cv_header_time='yes'}
ac_cv_header_unistd_h=${ac_cv_header_unistd_h='yes'}
ac_cv_header_vfork_h=${ac_cv_header_vfork_h='no'}
ac_cv_lib_ICE_IceConnectionNumber=${ac_cv_lib_ICE_IceConnectionNumber='yes'}
ac_cv_lib_atlas_ATL_xerbla=${ac_cv_lib_atlas_ATL_xerbla='no'}
ac_cv_lib_blas_dgemm_=${ac_cv_lib_blas_dgemm_='no'}
ac_cv_lib_dir_opendir=${ac_cv_lib_dir_opendir='no'}
ac_cv_lib_dl_dlopen=${ac_cv_lib_dl_dlopen='yes'}
ac_cv_lib_dnet_dnet_ntoa=${ac_cv_lib_dnet_dnet_ntoa='no'}
ac_cv_lib_dnet_stub_dnet_ntoa=${ac_cv_lib_dnet_stub_dnet_ntoa='no'}
ac_cv_lib_dxml_dgemm_=${ac_cv_lib_dxml_dgemm_='no'}
ac_cv_lib_jpeg_jpeg_destroy_compress=${ac_cv_lib_jpeg_jpeg_destroy_compress='yes'}
ac_cv_lib_m_sin=${ac_cv_lib_m_sin='yes'}
ac_cv_lib_moto_sin=${ac_cv_lib_moto_sin='no'}
ac_cv_lib_ncurses_main=${ac_cv_lib_ncurses_main='yes'}
ac_cv_lib_png_png_create_write_struct=${ac_cv_lib_png_png_create_write_struct='yes'}
ac_cv_lib_readline_rl_callback_read_char=${ac_cv_lib_readline_rl_callback_read_char='yes'}
ac_cv_lib_tcl_Tcl_CreateInterp=${ac_cv_lib_tcl_Tcl_CreateInterp='yes'}
ac_cv_lib_tk_Tk_Init=${ac_cv_lib_tk_Tk_Init='yes'}
ac_cv_lib_z_main=${ac_cv_lib_z_main='yes'}
ac_cv_path_DVIPS=${ac_cv_path_DVIPS='/usr/bin/dvips'}
ac_cv_path_F77=${ac_cv_path_F77='/usr/local.own/bin/g77'}
ac_cv_path_LATEX=${ac_cv_path_LATEX='/usr/bin/latex'}
ac_cv_path_MAKEINDEX=${ac_cv_path_MAKEINDEX='/usr/bin/makeindex'}
ac_cv_path_MAKEINFO=${ac_cv_path_MAKEINFO='/usr/bin/makeinfo'}
ac_cv_path_PAPERCONF=${ac_cv_path_PAPERCONF='false'}
ac_cv_path_PDFLATEX=${ac_cv_path_PDFLATEX='/usr/bin/pdflatex'}
ac_cv_path_PDFTEX=${ac_cv_path_PDFTEX='/usr/bin/pdftex'}
ac_cv_path_PERL=${ac_cv_path_PERL='/usr/bin/perl'}
ac_cv_path_R_UNZIPCMD=${ac_cv_path_R_UNZIPCMD='/usr/bin/unzip'}
ac_cv_path_R_ZIPCMD=${ac_cv_path_R_ZIPCMD='/usr/bin/zip'}
ac_cv_path_TEX=${ac_cv_path_TEX='/usr/bin/tex'}
ac_cv_path_XMKMF=${ac_cv_path_XMKMF='/usr/X11R6/bin/xmkmf'}
ac_cv_path_install=${ac_cv_path_install='/usr/bin/install -c'}
ac_cv_prog_AR=${ac_cv_prog_AR='ar'}
ac_cv_prog_AWK=${ac_cv_prog_AWK='gawk'}
ac_cv_prog_CC=${ac_cv_prog_CC='gcc'}
ac_cv_prog_CPP=${ac_cv_prog_CPP='gcc -E'}
ac_cv_prog_CXX=${ac_cv_prog_CXX='c++'}
ac_cv_prog_CXXCPP=${ac_cv_prog_CXXCPP='c++ -E'}
ac_cv_prog_LN_S=${ac_cv_prog_LN_S='ln -s'}
ac_cv_prog_RANLIB=${ac_cv_prog_RANLIB='ranlib'}
ac_cv_prog_R_PRINTCMD=${ac_cv_prog_R_PRINTCMD='lpr'}
ac_cv_prog_YACC=${ac_cv_prog_YACC='bison -y'}
ac_cv_prog_cc_cross=${ac_cv_prog_cc_cross='no'}
ac_cv_prog_cc_g=${ac_cv_prog_cc_g='yes'}
ac_cv_prog_cc_works=${ac_cv_prog_cc_works='yes'}
ac_cv_prog_cxx_cross=${ac_cv_prog_cxx_cross='no'}
ac_cv_prog_cxx_g=${ac_cv_prog_cxx_g='yes'}
ac_cv_prog_cxx_works=${ac_cv_prog_cxx_works='yes'}
ac_cv_prog_f77_cross=${ac_cv_prog_f77_cross='no'}
ac_cv_prog_f77_g=${ac_cv_prog_f77_g='yes'}
ac_cv_prog_f77_works=${ac_cv_prog_f77_works='yes'}
ac_cv_prog_g77=${ac_cv_prog_g77='yes'}
ac_cv_prog_gcc=${ac_cv_prog_gcc='yes'}
ac_cv_prog_gcc_traditional=${ac_cv_prog_gcc_traditional='no'}
ac_cv_prog_gxx=${ac_cv_prog_gxx='yes'}
ac_cv_sizeof_long=${ac_cv_sizeof_long='4'}
ac_cv_type_blkcnt_t=${ac_cv_type_blkcnt_t='yes'}
ac_cv_type_pid_t=${ac_cv_type_pid_t='yes'}
ac_cv_type_signal=${ac_cv_type_signal='void'}
ac_cv_type_size_t=${ac_cv_type_size_t='yes'}
r_cv_func_calloc_broken=${r_cv_func_calloc_broken='no'}
r_cv_func_finite_broken=${r_cv_func_finite_broken='no'}
r_cv_func_log_broken=${r_cv_func_log_broken='no'}
r_cv_header_setjmp_posix=${r_cv_header_setjmp_posix='yes'}
r_cv_prog_cc_flag__mieee_fp=${r_cv_prog_cc_flag__mieee_fp='yes'}
r_cv_prog_cc_m=${r_cv_prog_cc_m='yes'}
r_cv_prog_cxx_flag__mieee_fp=${r_cv_prog_cxx_flag__mieee_fp='yes'}
r_cv_prog_f77_append_underscore=${r_cv_prog_f77_append_underscore='yes'}
r_cv_prog_f77_cc_compat=${r_cv_prog_f77_cc_compat='yes'}
r_cv_prog_makeinfo_v4=${r_cv_prog_makeinfo_v4='yes'}
r_cv_prog_perl_v5=${r_cv_prog_perl_v5='yes'}

-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-
r-devel mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html
Send "info", "help", or "[un]subscribe"
(in the "body", not the subject !)  To: r-devel-request@stat.math.ethz.ch
_._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._

  
  


  


      

    

    

      
      

        


  

        

      Brian Ripley
    

    

      
      #
    

  


  

      
On Fri, 21 Jul 2000, Berwin Turlach wrote:

        

            

      
      
      
    

        
I suspect a bug in that compiler, as you had problems with NAs,
and that is the only thing that seems different from known working setups.
My suggestion would be to use gcc-2.95.2, which I compiled from
source and works well for us on RH6.0.  Or even try the compiler
that comes with RH6.0 (egcs-2.91.66, I believe).

Brian

  
    

      
      
    

  


  


      

    

    

      
      

        


  

        

      Albrecht Gebhardt
    

    

      
      #
    

  


  

      
On Fri, 21 Jul 2000, Prof Brian D Ripley wrote:

        

            

      
      
      
    

        
Choose gcc-2.95.2, egcs causes problems with loading shared objects which  
may result in crashes, at least egcs-1.1.2.

Albrecht

......................................................................
| Albrecht Gebhardt          Tel.: (++43 463) 2700/832               |
| Institut fuer Mathematik   Fax : (++43 463) 2700/834               |
| Universitaet Klagenfurt    mailto:albrecht.gebhardt@uni-klu.ac.at  |
| Villacher Str. 161         http://www-stat.uni-klu.ac.at/~agebhard |
| A-9020 Klagenfurt, Austria                                         |
`--------------------------------------------------------------------'


-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-
r-devel mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html
Send "info", "help", or "[un]subscribe"
(in the "body", not the subject !)  To: r-devel-request@stat.math.ethz.ch
_._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._

  
  


  


      

    

    

      
      

        


  

        

      Brian Ripley
    

    

      
      #
    

  


  

      
[Taken off R-bugs]

        
On Fri, 21 Jul 2000, Albrecht Gebhardt wrote:

        

            

      
      
      
    

        
[...]

            

      
      
      
    

        
No problems have been found on any of our RH6.0 installations (and
egcs-1.1.2 is egcs-2.91.66 as supplied with that distribution).  That
problem is reported for RH6.>2<, but not 0.

I made the comment in the knowledge that R 1.1.0 does work on a vanilla
RH6.0 installation (with egcs-g77), as until recently that was my Linux
test platform (and I still have access to a dozen such machines).
It provides a known quantity to compare with Berwin's compiler (and
as I compiled gcc-2.95.2 from the sources it is not so precisely known
an option).