Your message dated Fri, 26 Jun 2009 08:36:50 -0500
with message-id <[email protected]>
and subject line Bug#534670: r-base-core: Can't install extra packages
has caused the Debian Bug report #534670,
regarding r-base-core: Can't install extra packages
to be marked as done.
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--
534670: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=534670
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: r-base-core
Version: 2.7.1-1+lenny1
Severity: important
It is not possible to install extra packages from CRAN in the designated
way, for example svmpath:
http://cran.r-project.org/web/packages/svmpath/index.html
$ R CMD INSTALL svmpath_0.92.tar.gz -l lib svmpath_0.92.tar.gz
WARNING: omitting pointless dependence on 'R' without a version requirement
* Installing *source* package 'svmpath' ...
** libs
gfortran -fpic -g -O2 -c mi02lib.f -o mi02lib.o
gfortran -fpic -g -O2 -c mi05funs.f -o mi05funs.o
gfortran -fpic -g -O2 -c mi10unix.f -o mi10unix.o
gfortran -fpic -g -O2 -c mi11sys.f -o mi11sys.o
gfortran -fpic -g -O2 -c mi12solv.f -o mi12solv.o
gfortran -fpic -g -O2 -c mi15blas.f -o mi15blas.o
gfortran -fpic -g -O2 -c mi17util.f -o mi17util.o
gfortran -fpic -g -O2 -c mi20amat.f -o mi20amat.o
gfortran -fpic -g -O2 -c mi21amat.f -o mi21amat.o
gfortran -fpic -g -O2 -c mi25bfac.f -o mi25bfac.o
gfortran -fpic -g -O2 -c mi26bfac.f -o mi26bfac.o
gfortran -fpic -g -O2 -c mi27lu.f -o mi27lu.o
gfortran -fpic -g -O2 -c mi30spec.f -o mi30spec.o
gfortran -fpic -g -O2 -c mi35mps.f -o mi35mps.o
gfortran -fpic -g -O2 -c mi36mps.f -o mi36mps.o
gfortran -fpic -g -O2 -c mi40bfil.f -o mi40bfil.o
gfortran -fpic -g -O2 -c mi50lp.f -o mi50lp.o
gfortran -fpic -g -O2 -c mi60srch.f -o mi60srch.o
gfortran -fpic -g -O2 -c mi65rmod.f -o mi65rmod.o
gfortran -fpic -g -O2 -c mi70nobj.f -o mi70nobj.o
gfortran -fpic -g -O2 -c mi80ncon.f -o mi80ncon.o
gfortran -fpic -g -O2 -c mi81ncon.f -o mi81ncon.o
gfortran -fpic -g -O2 -c qp.f -o qp.o
gcc -std=gnu99 -shared -o svmpath.so mi02lib.o mi05funs.o mi10unix.o mi11sys.o
mi12solv.o mi15blas.o mi17util.o mi20amat.o mi21amat.o mi25bfac.o mi26bfac.o
mi27lu.o mi30spec.o mi35mps.o mi36mps.o mi40bfil.o mi50lp.o mi60srch.o
mi65rmod.o mi70nobj.o mi80ncon.o mi81ncon.o qp.o -lgfortran -lm
-L/usr/lib64/R/lib -lR
/usr/bin/ld: cannot find -lgfortran
collect2: ld returned 1 exit status
make: *** [svmpath.so] Error 1
ERROR: compilation failed for package 'svmpath'
** Removing '/tmp/lib/svmpath'
After symlinking the gfortran library, so that the linker finds it, there
seems to occur an architecture problem:
/usr/lib# ln -s libgfortran.so.3 libgfortran.so
gcc -std=gnu99 -shared -o svmpath.so mi02lib.o mi05funs.o mi10unix.o mi11sys.o
mi12solv.o mi15blas.o mi17util.o mi20amat.o mi21amat.o mi25bfac.o mi26bfac.o
mi27lu.o mi30spec.o mi35mps.o mi36mps.o mi40bfil.o mi50lp.o mi60srch.o
mi65rmod.o mi70nobj.o mi80ncon.o mi81ncon.o qp.o -lgfortran -lm
-L/usr/lib64/R/lib -lR
/usr/bin/ld: skipping incompatible /usr/bin/../lib/libgfortran.so when
searching for -lgfortran
/usr/bin/ld: skipping incompatible /usr/lib/libgfortran.so when searching for
-lgfortran
/usr/bin/ld: cannot find -lgfortran
collect2: ld returned 1 exit status
It makes no difference if I use the compiler switch -m64 or -m32 or when
choosing libgfortran2. The error message "skipping incompatible" is always
the same.
-- System Information:
Debian Release: 5.0.1
APT prefers stable
APT policy: (500, 'stable'), (200, 'testing'), (1, 'experimental')
Architecture: amd64 (x86_64)
Kernel: Linux 2.6.27.15.amd64 (SMP w/1 CPU core; PREEMPT)
Locale: LANG=C, LC_CTYPE=C (charmap=ANSI_X3.4-1968)
Shell: /bin/sh linked to /bin/bash
Versions of packages r-base-core depends on:
ii libatlas3gf-base [libl 3.6.0-22 Automatically Tuned Linear Algebra
ii libblas3gf [libblas.so 1.2-2 Basic Linear Algebra Subroutines 3
ii libc6 2.7-18 GNU C Library: Shared libraries
ii libcairo2 1.6.4-7 The Cairo 2D vector graphics libra
ii libgfortran3 4.3.2-1.1 Runtime library for GNU Fortran ap
ii libglib2.0-0 2.16.6-1+lenny1 The GLib library of C routines
ii libice6 2:1.0.4-1 X11 Inter-Client Exchange library
ii libjpeg62 6b-14 The Independent JPEG Group's JPEG
ii liblapack3gf [liblapac 3.1.1-1 library of linear algebra routines
ii libpango1.0-0 1.20.5-3+lenny1 Layout and rendering of internatio
ii libpaper-utils 1.1.23+nmu1 library for handling paper charact
ii libpcre3 7.6-2.1 Perl 5 Compatible Regular Expressi
ii libpng12-0 1.2.27-2+lenny2 PNG library - runtime
ii libreadline5 5.2-3.1 GNU readline and history libraries
ii libsm6 2:1.0.3-2 X11 Session Management library
ii libtiff4 3.8.2-11 Tag Image File Format (TIFF) libra
ii libx11-6 2:1.1.5-2 X11 client-side library
ii libxt6 1:1.0.5-3 X11 toolkit intrinsics library
ii perl 5.10.0-19 Larry Wall's Practical Extraction
ii tcl8.4 8.4.19-2 Tcl (the Tool Command Language) v8
ii tk8.4 8.4.19-2 Tk toolkit for Tcl and X11, v8.4 -
ii ucf 3.0016 Update Configuration File: preserv
ii unzip 5.52-12 De-archiver for .zip files
ii zip 2.32-1 Archiver for .zip files
ii zlib1g 1:1.2.3.3.dfsg-12 compression library - runtime
Versions of packages r-base-core recommends:
ii r-base-dev 2.7.1-1+lenny1 GNU R installation of auxiliary GN
ii r-recommended 2.7.1-1+lenny1 GNU R collection of recommended pa
Versions of packages r-base-core suggests:
pn ess <none> (no description available)
pn r-base-html | r-base-latex <none> (no description available)
pn r-doc-info | r-doc-pdf | r-do <none> (no description available)
pn r-mathlib <none> (no description available)
-- no debconf information
--- End Message ---
--- Begin Message ---
On 26 June 2009 at 11:31, Erik Braun wrote:
|
| It is not possible to install extra packages from CRAN in the designated
| way, for example svmpath:
Closed per off-list follow-up as there was no Debian bug.
Dirk
--
Three out of two people have difficulties with fractions.
--- End Message ---
