I am having the xmkmf problem below with todays beta, but I also am
trying to use an new (PGI 6.1), so lots of other things in my setup may
be wrong, and the warning may also be important. Any hints would be
appreciated.
Paul
_____
Red Hat Enterprise Linux AS release 3 (Taroon Update 7)
....
checking whether C runtime needs -D__NO_MATH_INLINES... no
checking for xmkmf... /usr/X11R6/bin/xmkmf
Usage: which [options] [--] programname [...]
Options: --version, -[vV] Print version and exit successfully.
--help, Print this help and exit successfully.
--skip-dot Skip directories in PATH that start with a dot.
--skip-tilde Skip directories in PATH that start with a tilde.
--show-dot Don't expand a dot to current directory in output.
--show-tilde Output a tilde for HOME directory for non-root.
--tty-only Stop processing options on the right if not on
tty.
--all, -a Print all matches in PATH, not just the first
--read-alias, -i Read list of aliases from stdin.
--skip-alias Ignore option --read-alias; don't read stdin.
--read-functions Read shell functions from stdin.
--skip-functions Ignore option --read-functions; don't read stdin.
Usage: which [options] [--] programname [...]
Options: --version, -[vV] Print version and exit successfully.
--help, Print this help and exit successfully.
--skip-dot Skip directories in PATH that start with a dot.
--skip-tilde Skip directories in PATH that start with a tilde.
--show-dot Don't expand a dot to current directory in output.
--show-tilde Output a tilde for HOME directory for non-root.
--tty-only Stop processing options on the right if not on
tty.
--all, -a Print all matches in PATH, not just the first
--read-alias, -i Read list of aliases from stdin.
--skip-alias Ignore option --read-alias; don't read stdin.
--read-functions Read shell functions from stdin.
--skip-functions Ignore option --read-functions; don't read stdin.
configure: WARNING: I could not determine SHLIB_LDFLAGS.
configure: error: See the file doc/html/R-admin.html for more information.
~/toolchain/R/mfa04559/R-beta:
====================================================================================
La version fran?aise suit le texte anglais.
------------------------------------------------------------------------------------
This email may contain privileged and/or confidential inform...{{dropped}}
xmkmf? problem
5 messages · Paul Gilbert, Brian Ripley
On Thu, 13 Apr 2006, Paul Gilbert wrote:
I am having the xmkmf problem below with todays beta, but I also am trying to use an new (PGI 6.1), so lots of other things in my setup may be wrong, and the warning may also be important. Any hints would be appreciated.
My guess is that this is from
cc=`${srcdir}/tools/GETMAKEVAL CC`
cc=`echo ${cc} | sed "s/ .*//"`
if test "`which ${cc}`" = "`which ${CC}`"; then
shlib_ldflags=`${srcdir}/tools/GETMAKEVAL SHLIBLDFLAGS`
cpicflags=`${srcdir}/tools/GETMAKEVAL PICFLAGS`
fi
cxx=`${srcdir}/tools/GETMAKEVAL CXX`
cxx=`echo ${cxx} | sed "s/ .*//"`
if test "`which ${cxx}`" = "`which ${CXX}`"; then
cxxpicflags=`${srcdir}/tools/GETMAKEVAL CXXPICFLAGS`
fi
in configure and so either your compilers are not set correctly or your
OS's X11 does not find the compilers used to compile it.
I'd start by inserting debugging code in configure at that point to find
out what ${cc} and ${CC} are, with the expectation that one is empty.
Paul
_____
Red Hat Enterprise Linux AS release 3 (Taroon Update 7)
....
checking whether C runtime needs -D__NO_MATH_INLINES... no
checking for xmkmf... /usr/X11R6/bin/xmkmf
Usage: which [options] [--] programname [...]
Options: --version, -[vV] Print version and exit successfully.
--help, Print this help and exit successfully.
--skip-dot Skip directories in PATH that start with a dot.
--skip-tilde Skip directories in PATH that start with a tilde.
--show-dot Don't expand a dot to current directory in output.
--show-tilde Output a tilde for HOME directory for non-root.
--tty-only Stop processing options on the right if not on
tty.
--all, -a Print all matches in PATH, not just the first
--read-alias, -i Read list of aliases from stdin.
--skip-alias Ignore option --read-alias; don't read stdin.
--read-functions Read shell functions from stdin.
--skip-functions Ignore option --read-functions; don't read stdin.
Usage: which [options] [--] programname [...]
Options: --version, -[vV] Print version and exit successfully.
--help, Print this help and exit successfully.
--skip-dot Skip directories in PATH that start with a dot.
--skip-tilde Skip directories in PATH that start with a tilde.
--show-dot Don't expand a dot to current directory in output.
--show-tilde Output a tilde for HOME directory for non-root.
--tty-only Stop processing options on the right if not on
tty.
--all, -a Print all matches in PATH, not just the first
--read-alias, -i Read list of aliases from stdin.
--skip-alias Ignore option --read-alias; don't read stdin.
--read-functions Read shell functions from stdin.
--skip-functions Ignore option --read-functions; don't read stdin.
configure: WARNING: I could not determine SHLIB_LDFLAGS.
configure: error: See the file doc/html/R-admin.html for more information.
~/toolchain/R/mfa04559/R-beta:
====================================================================================
La version fran?aise suit le texte anglais.
------------------------------------------------------------------------------------
This email may contain privileged and/or confidential inform...{{dropped}}
______________________________________________ R-devel at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Brian D. Ripley, ripley at stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UK Fax: +44 1865 272595
Brian Yes cc is empty. Perhaps I should have mentioned that I have set CC=pgcc, to find the new compiler. Should I be setting cc too? Is there a problem if the compiler used for X11 was different? Thanks, Paul
Prof Brian Ripley wrote:
On Thu, 13 Apr 2006, Paul Gilbert wrote:
I am having the xmkmf problem below with todays beta, but I also am trying to use an new (PGI 6.1), so lots of other things in my setup may be wrong, and the warning may also be important. Any hints would be appreciated.
My guess is that this is from
cc=`${srcdir}/tools/GETMAKEVAL CC`
cc=`echo ${cc} | sed "s/ .*//"`
if test "`which ${cc}`" = "`which ${CC}`"; then
shlib_ldflags=`${srcdir}/tools/GETMAKEVAL SHLIBLDFLAGS`
cpicflags=`${srcdir}/tools/GETMAKEVAL PICFLAGS`
fi
cxx=`${srcdir}/tools/GETMAKEVAL CXX`
cxx=`echo ${cxx} | sed "s/ .*//"`
if test "`which ${cxx}`" = "`which ${CXX}`"; then
cxxpicflags=`${srcdir}/tools/GETMAKEVAL CXXPICFLAGS`
fi
in configure and so either your compilers are not set correctly or your
OS's X11 does not find the compilers used to compile it.
I'd start by inserting debugging code in configure at that point to find
out what ${cc} and ${CC} are, with the expectation that one is empty.
Paul
_____
Red Hat Enterprise Linux AS release 3 (Taroon Update 7)
....
checking whether C runtime needs -D__NO_MATH_INLINES... no
checking for xmkmf... /usr/X11R6/bin/xmkmf
Usage: which [options] [--] programname [...]
Options: --version, -[vV] Print version and exit successfully.
--help, Print this help and exit successfully.
--skip-dot Skip directories in PATH that start with a dot.
--skip-tilde Skip directories in PATH that start with a
tilde.
--show-dot Don't expand a dot to current directory in
output.
--show-tilde Output a tilde for HOME directory for non-root.
--tty-only Stop processing options on the right if not on
tty.
--all, -a Print all matches in PATH, not just the first
--read-alias, -i Read list of aliases from stdin.
--skip-alias Ignore option --read-alias; don't read stdin.
--read-functions Read shell functions from stdin.
--skip-functions Ignore option --read-functions; don't read
stdin.
Usage: which [options] [--] programname [...]
Options: --version, -[vV] Print version and exit successfully.
--help, Print this help and exit successfully.
--skip-dot Skip directories in PATH that start with a dot.
--skip-tilde Skip directories in PATH that start with a
tilde.
--show-dot Don't expand a dot to current directory in
output.
--show-tilde Output a tilde for HOME directory for non-root.
--tty-only Stop processing options on the right if not on
tty.
--all, -a Print all matches in PATH, not just the first
--read-alias, -i Read list of aliases from stdin.
--skip-alias Ignore option --read-alias; don't read stdin.
--read-functions Read shell functions from stdin.
--skip-functions Ignore option --read-functions; don't read
stdin.
configure: WARNING: I could not determine SHLIB_LDFLAGS.
configure: error: See the file doc/html/R-admin.html for more
information.
~/toolchain/R/mfa04559/R-beta:
====================================================================================
La version fran?aise suit le texte anglais.
------------------------------------------------------------------------------------
This email may contain privileged and/or confidential
inform...{{dropped}}
______________________________________________ R-devel at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
====================================================================================
La version fran?aise suit le texte anglais.
------------------------------------------------------------------------------------
This email may contain privileged and/or confidential inform...{{dropped}}
There are two problems here. The more important one is with your OS, which seems not to have its X11 stuff correct, so cc is not being found (and you cannot set it). R's configure has no protection against that. You can investigate that by blackduck% touch Imakefile blackduck% xmkmf imake -DUseInstalled -I/usr/X11R6/lib/X11/config blackduck% grep CC Makefile ... which is what R does. I presume that this will also fail if you compile R out-of-the-box with gcc? If that works and pgcc does not then something else in your settings is amiss. The second is that if you are using a different compiler from that used to make X11, you may need to set CPICFLAGS etc. But we know about pgcc on Linux and so these will be set (but not necessarily SHLIB_LDFLAGS: see the R-admin manual).
On Thu, 13 Apr 2006, Paul Gilbert wrote:
Brian Yes cc is empty. Perhaps I should have mentioned that I have set CC=pgcc, to find the new compiler. Should I be setting cc too? Is there a problem if the compiler used for X11 was different? Thanks, Paul Prof Brian Ripley wrote:
On Thu, 13 Apr 2006, Paul Gilbert wrote:
I am having the xmkmf problem below with todays beta, but I also am trying to use an new (PGI 6.1), so lots of other things in my setup may be wrong, and the warning may also be important. Any hints would be appreciated.
My guess is that this is from
cc=`${srcdir}/tools/GETMAKEVAL CC`
cc=`echo ${cc} | sed "s/ .*//"`
if test "`which ${cc}`" = "`which ${CC}`"; then
shlib_ldflags=`${srcdir}/tools/GETMAKEVAL SHLIBLDFLAGS`
cpicflags=`${srcdir}/tools/GETMAKEVAL PICFLAGS`
fi
cxx=`${srcdir}/tools/GETMAKEVAL CXX`
cxx=`echo ${cxx} | sed "s/ .*//"`
if test "`which ${cxx}`" = "`which ${CXX}`"; then
cxxpicflags=`${srcdir}/tools/GETMAKEVAL CXXPICFLAGS`
fi
in configure and so either your compilers are not set correctly or your
OS's X11 does not find the compilers used to compile it.
I'd start by inserting debugging code in configure at that point to find
out what ${cc} and ${CC} are, with the expectation that one is empty.
Paul
_____
Red Hat Enterprise Linux AS release 3 (Taroon Update 7)
....
checking whether C runtime needs -D__NO_MATH_INLINES... no
checking for xmkmf... /usr/X11R6/bin/xmkmf
Usage: which [options] [--] programname [...]
Options: --version, -[vV] Print version and exit successfully.
--help, Print this help and exit successfully.
--skip-dot Skip directories in PATH that start with a dot.
--skip-tilde Skip directories in PATH that start with a tilde.
--show-dot Don't expand a dot to current directory in
output.
--show-tilde Output a tilde for HOME directory for non-root.
--tty-only Stop processing options on the right if not on
tty.
--all, -a Print all matches in PATH, not just the first
--read-alias, -i Read list of aliases from stdin.
--skip-alias Ignore option --read-alias; don't read stdin.
--read-functions Read shell functions from stdin.
--skip-functions Ignore option --read-functions; don't read stdin.
Usage: which [options] [--] programname [...]
Options: --version, -[vV] Print version and exit successfully.
--help, Print this help and exit successfully.
--skip-dot Skip directories in PATH that start with a dot.
--skip-tilde Skip directories in PATH that start with a tilde.
--show-dot Don't expand a dot to current directory in
output.
--show-tilde Output a tilde for HOME directory for non-root.
--tty-only Stop processing options on the right if not on
tty.
--all, -a Print all matches in PATH, not just the first
--read-alias, -i Read list of aliases from stdin.
--skip-alias Ignore option --read-alias; don't read stdin.
--read-functions Read shell functions from stdin.
--skip-functions Ignore option --read-functions; don't read stdin.
configure: WARNING: I could not determine SHLIB_LDFLAGS.
configure: error: See the file doc/html/R-admin.html for more information.
~/toolchain/R/mfa04559/R-beta:
====================================================================================
La version fran?aise suit le texte anglais.
------------------------------------------------------------------------------------
This email may contain privileged and/or confidential inform...{{dropped}}
______________________________________________ R-devel at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
==================================================================================== La version fran?aise suit le texte anglais. ------------------------------------------------------------------------------------ This email may contain privileged and/or confidential information, and the Bank of Canada does not waive any related rights. Any distribution, use, or copying of this email or the information it contains by other than the intended recipient is unauthorized. If you received this email in error please delete it immediately from your system and notify the sender promptly by email that you have done so. ------------------------------------------------------------------------------------ Le pr?sent courriel peut contenir de l'information privil?gi?e ou confidentielle. La Banque du Canada ne renonce pas aux droits qui s'y rapportent. Toute diffusion, utilisation ou copie de ce courriel ou des renseignements qu'il contient par une personne autre que le ou les destinataires d?sign?s est interdite. Si vous recevez ce courriel par erreur, veuillez le supprimer imm?diatement et envoyer sans d?lai ? l'exp?diteur un message ?lectronique pour l'aviser que vous avez ?limin? de votre ordinateur toute copie du courriel re?u.
Brian D. Ripley, ripley at stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UK Fax: +44 1865 272595
I've added some protection to configure, so you might like to try again with tomorrow's beta or later.
On Fri, 14 Apr 2006, Prof Brian Ripley wrote:
There are two problems here. The more important one is with your OS, which seems not to have its X11 stuff correct, so cc is not being found (and you cannot set it). R's configure has no protection against that. You can investigate that by blackduck% touch Imakefile blackduck% xmkmf imake -DUseInstalled -I/usr/X11R6/lib/X11/config blackduck% grep CC Makefile ... which is what R does. I presume that this will also fail if you compile R out-of-the-box with gcc? If that works and pgcc does not then something else in your settings is amiss. The second is that if you are using a different compiler from that used to make X11, you may need to set CPICFLAGS etc. But we know about pgcc on Linux and so these will be set (but not necessarily SHLIB_LDFLAGS: see the R-admin manual). On Thu, 13 Apr 2006, Paul Gilbert wrote:
Brian Yes cc is empty. Perhaps I should have mentioned that I have set CC=pgcc, to find the new compiler. Should I be setting cc too? Is there a problem if the compiler used for X11 was different? Thanks, Paul Prof Brian Ripley wrote:
On Thu, 13 Apr 2006, Paul Gilbert wrote:
I am having the xmkmf problem below with todays beta, but I also am trying to use an new (PGI 6.1), so lots of other things in my setup may be wrong, and the warning may also be important. Any hints would be appreciated.
My guess is that this is from
cc=`${srcdir}/tools/GETMAKEVAL CC`
cc=`echo ${cc} | sed "s/ .*//"`
if test "`which ${cc}`" = "`which ${CC}`"; then
shlib_ldflags=`${srcdir}/tools/GETMAKEVAL SHLIBLDFLAGS`
cpicflags=`${srcdir}/tools/GETMAKEVAL PICFLAGS`
fi
cxx=`${srcdir}/tools/GETMAKEVAL CXX`
cxx=`echo ${cxx} | sed "s/ .*//"`
if test "`which ${cxx}`" = "`which ${CXX}`"; then
cxxpicflags=`${srcdir}/tools/GETMAKEVAL CXXPICFLAGS`
fi
in configure and so either your compilers are not set correctly or your
OS's X11 does not find the compilers used to compile it.
I'd start by inserting debugging code in configure at that point to find
out what ${cc} and ${CC} are, with the expectation that one is empty.
Paul
_____
Red Hat Enterprise Linux AS release 3 (Taroon Update 7)
....
checking whether C runtime needs -D__NO_MATH_INLINES... no
checking for xmkmf... /usr/X11R6/bin/xmkmf
Usage: which [options] [--] programname [...]
Options: --version, -[vV] Print version and exit successfully.
--help, Print this help and exit successfully.
--skip-dot Skip directories in PATH that start with a dot.
--skip-tilde Skip directories in PATH that start with a
tilde.
--show-dot Don't expand a dot to current directory in
output.
--show-tilde Output a tilde for HOME directory for non-root.
--tty-only Stop processing options on the right if not on
tty.
--all, -a Print all matches in PATH, not just the first
--read-alias, -i Read list of aliases from stdin.
--skip-alias Ignore option --read-alias; don't read stdin.
--read-functions Read shell functions from stdin.
--skip-functions Ignore option --read-functions; don't read
stdin.
Usage: which [options] [--] programname [...]
Options: --version, -[vV] Print version and exit successfully.
--help, Print this help and exit successfully.
--skip-dot Skip directories in PATH that start with a dot.
--skip-tilde Skip directories in PATH that start with a
tilde.
--show-dot Don't expand a dot to current directory in
output.
--show-tilde Output a tilde for HOME directory for non-root.
--tty-only Stop processing options on the right if not on
tty.
--all, -a Print all matches in PATH, not just the first
--read-alias, -i Read list of aliases from stdin.
--skip-alias Ignore option --read-alias; don't read stdin.
--read-functions Read shell functions from stdin.
--skip-functions Ignore option --read-functions; don't read
stdin.
configure: WARNING: I could not determine SHLIB_LDFLAGS.
configure: error: See the file doc/html/R-admin.html for more
information.
~/toolchain/R/mfa04559/R-beta:
====================================================================================
La version fran?aise suit le texte anglais.
------------------------------------------------------------------------------------
This email may contain privileged and/or confidential
inform...{{dropped}}
______________________________________________ R-devel at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
==================================================================================== La version fran?aise suit le texte anglais. ------------------------------------------------------------------------------------ This email may contain privileged and/or confidential information, and the Bank of Canada does not waive any related rights. Any distribution, use, or copying of this email or the information it contains by other than the intended recipient is unauthorized. If you received this email in error please delete it immediately from your system and notify the sender promptly by email that you have done so. ------------------------------------------------------------------------------------ Le pr?sent courriel peut contenir de l'information privil?gi?e ou confidentielle. La Banque du Canada ne renonce pas aux droits qui s'y rapportent. Toute diffusion, utilisation ou copie de ce courriel ou des renseignements qu'il contient par une personne autre que le ou les destinataires d?sign?s est interdite. Si vous recevez ce courriel par erreur, veuillez le supprimer imm?diatement et envoyer sans d?lai ? l'exp?diteur un message ?lectronique pour l'aviser que vous avez ?limin? de votre ordinateur toute copie du courriel re?u.
Brian D. Ripley, ripley at stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UK Fax: +44 1865 272595