[R-SIG-Mac]Re: ggobi and Mac OS X
Duncan Temple Lang
duncan at research.bell-labs.com
Wed Mar 19 15:29:37 MET 2003
There is hopefully a file named README.OSX in the distribution
that provides some (few) hints about compiling on OSX. It may not
get added to the tar file when I build the distribution.
You can find it at
http://www.ggobi.org/README.OSX
Anyway, in there, I suggest just creating malloc.h locally
within the GGobi source files as an empty file.
D.
Dennis A. Wolf wrote:
> I looked around in the Makeconf file in R and found
>
> SHLIB_LDFLAGS= -bundle -flat_namespace -undefined suppress
>
> I edited the Makeconf that was created when ggobi was configured and
> replaced -shared with the above. The error I got was
>
> tour_pp.c:31: header file 'malloc.h' not found
>
> Does this have anything to do with the revised flags? Any suggestions
> on how to proceed?
>
> Thanks!
>
> Dennis A. Wolf, Ph.D.
> Computer Sciences and Mathematics Division
> Oak Ridge National Laboratory
> POB 2008, Building 6011, MS 6418
> Oak Ridge, TN 37831-6418
>
> phone: (865) 574-6326
> fax: (865) 576-3513
> email: wolfda at ornl.gov
>
> The full details from configure and make are:
> qedmac 1106> sudo ./configure --with-xml --with-R --enable-embed
> loading cache ./config.cache
> checking for gtk-config... (cached) /sw/bin/gtk-config
> Setting gtk flags
> checking for uname... (cached) /usr/bin/uname
> checking for install... (cached) /usr/bin/install
> checking for gcc... (cached) gcc
> checking whether the C compiler (gcc ) works... yes
> checking whether the C compiler (gcc ) is a cross-compiler... no
> checking whether we are using GNU C... (cached) yes
> checking whether gcc accepts -g... (cached) yes
> Checking flag for linking shared libraries
> SHLIB linker flags: -shared
> with_xml: yes
> checking for xml2-config... (cached) /sw/bin/xml2-config
> Have xml-config: /sw/bin/xml2-config
> USE_XML := USE_XML=2
> XML Version := 2
> checking for R... (cached) /usr/local/bin/R
> checking for uname... (cached) /usr/bin/uname
> creating ./config.status
> creating Makeconf
> creating GNUmakefile
> creating src/GNUmakefile
> creating gtkext/src/GNUmakefile
> creating bin/setLD.csh
> creating bin/setLD.bsh
> creating bin/ggobi
> creating bin/ggobi-config
> creating bugTemplate
> creating share/ggobirc
> creating local.config
> creating share/tools/plugin
> creating src/config.h
> src/config.h is unchanged
> Installation directory: /usr/local
> qedmac 1107> sudo vi Makeconf
> qedmac 1108> sudo make
> make -C src ../bin/ggobi.bin
> gcc -I../include -I../gtkext/include -I/sw/include/gtk-1.2
> -I/sw/include/glib-1.2 -I/sw/lib/glib/include -I/usr/X11R6/include
> -I/sw/include/libxml2 -I/sw/include -DUSE_XML=2 -DSUPPORT_PLUGINS=1
> -DSUPPORT_INIT_FILES=1 -DHAVE_CONFIG_H -c tour_pp.c -o tour_pp.o
> tour_pp.c:31: header file 'malloc.h' not found
> cpp-precomp: warning: errors during smart preprocessing, retrying in
> basic mode
> make[1]: *** [tour_pp.o] Error 1
> make: *** [bin/ggobi.bin] Error 2
>
>
> On Wednesday, Mar 19, 2003, at 06:01 US/Eastern,
> r-sig-mac-request at stat.math.ethz.ch wrote:
> > Date: Tue, 18 Mar 2003 10:27:01 -0800
> > From: Jan de Leeuw <deleeuw at stat.ucla.edu>
> > Subject: Re: [R-SIG-Mac]ggobi and Mac OS X
> > To: "Dennis A. Wolf" <wolfda at ornl.gov>
> > Cc: r-sig-mac at stat.math.ethz.ch
> > Message-ID: <35DD2522-596F-11D7-91B1-000393860F3C at stat.ucla.edu>
> > Content-Type: text/plain; charset=US-ASCII; format=flowed
> >
> > In MacOS X you can build either dynamic libraries (foo.dylib), which
> > are
> > to be linked against, or bundles (foo.so) which are to be loaded at run
> > time (plugins, packages). Most ELF based systems dont distinguish the
> > two.
> >
> > So in R, for instance, you make libR.dylib and R_gnome.so or tcltk.so.
> > For dylibs you need the flag -dynamiclib, for bundles you need -bundle
> > (but more, because you need to tell the linker what to do about
> > undefined
> > symbols). See the configure files for R for more details.
> >
> > I'll look at ggobi, which I have running, but I am not sure what I
> > needed
> > to do.
> >
> > On Tuesday, March 18, 2003, at 08:35 AM, Dennis A. Wolf wrote:
> >
> >> Greetings:
> >>
> >> I have been trying to install ggobi with the ultimate goal of using it
> >> within R. I am having difficulty which appears to be related to gcc
> >> not allowing -shared as an option with Mac OS X. Can anyone suggest
> >> how I can overcome this problem?
> >>
> >> I am using a 15" flat-panel iMac, Mac OSX 10.2.4, Apple's X11 beta 3.
> >>
> >> The gory details of the attempted installation follow:
> >>
> >> I downloaded ggobi, ggobi_0.99-10.tar.gz and gunzipped and tarred it
> >> as su to get the directory /usr/local/lib/ggobi and within that
> >> directory I did
> >>
> >> sudo ./configure --with-xml --enable-embed
> >>
> >> and got:
> >>
> >> loading cache ./config.cache
> >> checking for gtk-config... (cached) /sw/bin/gtk-config
> >> Setting gtk flags
> >> checking for uname... (cached) /usr/bin/uname
> >> checking for install... (cached) /usr/bin/install
> >> checking for gcc... (cached) gcc
> >> checking whether the C compiler (gcc ) works... yes
> >> checking whether the C compiler (gcc ) is a cross-compiler... no
> >> checking whether we are using GNU C... (cached) yes
> >> checking whether gcc accepts -g... (cached) yes
> >> Checking flag for linking shared libraries
> >> SHLIB linker flags: -shared
> >> with_xml: yes
> >> checking for xml2-config... (cached) /sw/bin/xml2-config
> >> Have xml-config: /sw/bin/xml2-config
> >> USE_XML := USE_XML=2
> >> XML Version := 2
> >> checking for uname... (cached) /usr/bin/uname
> >> creating ./config.status
> >> creating Makeconf
> >> creating GNUmakefile
> >> creating src/GNUmakefile
> >> creating gtkext/src/GNUmakefile
> >> creating bin/setLD.csh
> >> creating bin/setLD.bsh
> >> creating bin/ggobi
> >> creating bin/ggobi-config
> >> creating bugTemplate
> >> creating share/ggobirc
> >> creating local.config
> >> creating share/tools/plugin
> >> creating src/config.h
> >> src/config.h is unchanged
> >> Installation directory: /usr/local
> >>
> >> Now when I
> >>
> >> sudo make
> >>
> >> I got
> >>
> >> make -C gtkext/src install
> >> gcc -shared -o libgtkext.so cokus.lo mt19937ar.lo gtkextruler.lo
> >> gtkexthruler.lo gtkextvruler.lo
> >> gcc: unrecognized option `-shared'
> >> ld: Undefined symbols:
> >> _main
> >> _g_log
> >> _gdk_draw_pixmap
> >> _gdk_gc_destroy
> >> _gdk_gc_new
> >> _gdk_gc_set_exposures
> >> _gdk_pixmap_new
> >> _gdk_pixmap_unref
> >> _gdk_window_get_size
> >> _gdk_window_move_resize
> >> _gdk_window_new
> >> _gdk_window_set_user_data
> >> _gtk_marshal_NONE__NONE
> >> _gtk_object_class_add_signals
> >> _gtk_signal_new
> >> _gtk_style_attach
> >> _gtk_style_set_background
> >> _gtk_type_check_class_cast
> >> _gtk_type_check_object_cast
> >> _gtk_type_class
> >> _gtk_type_is_a
> >> _gtk_type_unique
> >> _gtk_widget_get_colormap
> >> _gtk_widget_get_events
> >> _gtk_widget_get_parent_window
> >> _gtk_widget_get_type
> >> _gtk_widget_get_visual
> >> _gtk_widget_queue_draw
> >> _gtk_widget_set_state
> >> _myrint
> >> _gdk_draw_line
> >> _gdk_draw_string
> >> _gdk_pointer_grab
> >> _gdk_pointer_ungrab
> >> _gdk_window_get_pointer
> >> _gtk_paint_box
> >> _gtk_signal_emit_by_name
> >> _gtk_type_new
> >> make[1]: *** [libgtkext.so] Error 1
> >> make: *** [lib/libgtkext.so] Error 2
> >>
> >> It appears that gcc does not like the -shared option. And indeed in
> >> the help file for gcc it says that this option is not allowed for Mac
> >> OS X.
> >>
> >> _______________________________________________
> >> R-SIG-Mac mailing list
> >> R-SIG-Mac at stat.math.ethz.ch
> >> https://www.stat.math.ethz.ch/mailman/listinfo/r-sig-mac
> >>
> >>
>
> _______________________________________________
> R-SIG-Mac mailing list
> R-SIG-Mac at stat.math.ethz.ch
> https://www.stat.math.ethz.ch/mailman/listinfo/r-sig-mac
--
_______________________________________________________________
Duncan Temple Lang duncan at research.bell-labs.com
Bell Labs, Lucent Technologies office: (908)582-3217
700 Mountain Avenue, Room 2C-259 fax: (908)582-3340
Murray Hill, NJ 07974-2070
http://cm.bell-labs.com/stat/duncan
More information about the R-SIG-Mac
mailing list