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Aric Gregson

2007-Oct-30 22:33 UTC

[R] Difficulty Compiling RSQLite on Solaris x86 Using Studio 12 Compilers

Apologies if this is not the best list on which to ask for help. I have
compiled R 2.6.0 using Sun Studio 12 compilers. I can install most CRAN
and bioconductor packages that I need, with the exception of RSQLite.
Unfortunately this is critical for other packages that I need. I have
tried to compile it using R CMD INSTALL to generate a config.log file.
I don't know how to fix the reported error. I have tried commenting
out most of the test language in the configure file, but then there are
other complaints. 

I used Studio 12 to build 2.5.1 and it worked perfectly. The only issue
with the 2.6.0 build is that 'make test' fails and this did not happen
with 2.5.1. However, it appears to run fine.

Any ideas of how I can get RSQLite to compile? Or is there another list
to which I should address my question.

thanks,

aric

Here is an except from the config.log:
++++++++++++++++++++++++++++++++++++++++++++++++++++
/usr/bin/uname -p = i386
/bin/uname -X     = System = SunOS
Node = solenv
Release = 5.11
KernelID = snv_69
Machine = i86pc

## ----------- ##
## Core tests. ##
## ----------- ##

configure:1313: checking for gcc
configure:1339: result: dmake: defaulting to parallel mode.
See the man page dmake(1) for more information on setting up
the .dmakerc file.
/opt/studio12/SUNWspro/bin/cc -m64
configure:1583: checking for C compiler version
configure:1586: dmake: defaulting to parallel mode.
See the man page dmake(1) for more information on setting up
the .dmakerc file.
/opt/studio12/SUNWspro/bin/cc -m64 --version </dev/null >&5
./configure: line 1587: dmake:: command not found
configure:1589: $? = 127
configure:1591: dmake: defaulting to parallel mode.
See the man page dmake(1) for more information on setting up
the .dmakerc file.
/opt/studio12/SUNWspro/bin/cc -m64 -v </dev/null >&5
./configure: line 1592: dmake:: command not found
configure:1594: $? = 127
configure:1596: dmake: defaulting to parallel mode.
See the man page dmake(1) for more information on setting up
the .dmakerc file.
/opt/studio12/SUNWspro/bin/cc -m64 -V </dev/null >&5
./configure: line 1597: dmake:: command not found
configure:1599: $? = 127
configure:1622: checking for C compiler default output file name
configure:1625: dmake: defaulting to parallel mode.
See the man page dmake(1) for more information on setting up
the .dmakerc file.
/opt/studio12/SUNWspro/bin/cc -m64 dmake: defaulting to parallel mode.
See the man page dmake(1) for more information on setting up
the .dmakerc file.
-xO5 -xc99 -xlibmieee -xlibmil -nofstore   conftest.c  >&5
./configure: line 1626: dmake:: command not found
configure:1628: $? = 127
configure: failed program was:
| /* confdefs.h.  */
| 
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| /* end confdefs.h.  */
| 
| int
| main ()
| {
| 
|   ;
|   return 0;
| }
configure:1667: error: C compiler cannot create executables
See `config.log' for more details.

## ----------------- ##
## Output variables. ##
## ----------------- ##

-xO5 -xc99 -xlibmieee -xlibmil -nofstore'
/opt/studio12/SUNWspro/bin/cc -m64'
/opt/studio12/SUNWspro/bin/cc -m64'
CC='dmake: defaulting to parallel mode.
CFLAGS='dmake: defaulting to parallel mode.
CPP=''
CPPFLAGS=''
DEFS=''
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EXEEXT=''
LDFLAGS=''
LIBOBJS=''
LIBS=''
LTLIBOBJS=''
OBJEXT=''
PACKAGE_BUGREPORT=''
PACKAGE_NAME=''
PACKAGE_STRING=''
PACKAGE_TARNAME=''
PACKAGE_VERSION=''
PATH_SEPARATOR=':'
PKG_CPPFLAGS=''
PKG_LIBS=''
SHELL='/bin/bash'
See the man page dmake(1) for more information on setting up
the .dmakerc file.
See the man page dmake(1) for more information on setting up
the .dmakerc file.
See the man page dmake(1) for more information on setting up
the .dmakerc file.
ac_ct_CC='dmake: defaulting to parallel mode.
bindir='${exec_prefix}/bin'
build_alias=''
datadir='${prefix}/share'
exec_prefix='NONE'
host_alias=''
includedir='${prefix}/include'
infodir='${prefix}/info'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
localstatedir='${prefix}/var'
mandir='${prefix}/man'
oldincludedir='/usr/include'
prefix='NONE'
program_transform_name='s,x,x,'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
sysconfdir='${prefix}/etc'
target_alias=''

## ----------- ##
## confdefs.h. ##
## ----------- ##

#define PACKAGE_BUGREPORT ""
#define PACKAGE_NAME ""
#define PACKAGE_STRING ""
#define PACKAGE_TARNAME ""
#define PACKAGE_VERSION ""

configure: exit 77


----------------------------------------------------------
IMPORTANT WARNING:  This email (and any attachments) is ...{{dropped:8}}

Prof Brian Ripley

2007-Oct-31 06:58 UTC

head link

[R] Difficulty Compiling RSQLite on Solaris x86 Using Studio 12 Compilers

This isn't really an appropriate forum, and the problem seems to be 
related to how you built R (why is dmake being used?)

I've just tried RSQLite on our x86_64 Solaris 10 box (as far as I know 
SunOS 5.11 is not yet released but a preview), and it worked out of the 
box.

You need help from someone familiar with your OS installation: this is 
neither an R nor a generic Solaris issue.

On Tue, 30 Oct 2007, Aric Gregson wrote:
> Apologies if this is not the best list on which to ask for help. I have
> compiled R 2.6.0 using Sun Studio 12 compilers. I can install most CRAN
> and bioconductor packages that I need, with the exception of RSQLite.
> Unfortunately this is critical for other packages that I need. I have
> tried to compile it using R CMD INSTALL to generate a config.log file.
> I don't know how to fix the reported error. I have tried commenting
> out most of the test language in the configure file, but then there are
> other complaints.
>
> I used Studio 12 to build 2.5.1 and it worked perfectly. The only issue
> with the 2.6.0 build is that 'make test' fails and this did not
happen
> with 2.5.1. However, it appears to run fine.
What is 'make test'?  We recommend 'make check', and it should
work on a
properly set up Solaris system.
> Any ideas of how I can get RSQLite to compile? Or is there another list
> to which I should address my question.
>
> thanks,
>
> aric
>
> Here is an except from the config.log:
> ++++++++++++++++++++++++++++++++++++++++++++++++++++
> /usr/bin/uname -p = i386
> /bin/uname -X     = System = SunOS
> Node = solenv
> Release = 5.11
> KernelID = snv_69
> Machine = i86pc
>
> ## ----------- ##
> ## Core tests. ##
> ## ----------- ##
>
> configure:1313: checking for gcc
> configure:1339: result: dmake: defaulting to parallel mode.
> See the man page dmake(1) for more information on setting up
> the .dmakerc file.
> /opt/studio12/SUNWspro/bin/cc -m64
> configure:1583: checking for C compiler version
> configure:1586: dmake: defaulting to parallel mode.
> See the man page dmake(1) for more information on setting up
> the .dmakerc file.
> /opt/studio12/SUNWspro/bin/cc -m64 --version </dev/null >&5
> ./configure: line 1587: dmake:: command not found
> configure:1589: $? = 127
> configure:1591: dmake: defaulting to parallel mode.
> See the man page dmake(1) for more information on setting up
> the .dmakerc file.
> /opt/studio12/SUNWspro/bin/cc -m64 -v </dev/null >&5
> ./configure: line 1592: dmake:: command not found
> configure:1594: $? = 127
> configure:1596: dmake: defaulting to parallel mode.
> See the man page dmake(1) for more information on setting up
> the .dmakerc file.
> /opt/studio12/SUNWspro/bin/cc -m64 -V </dev/null >&5
> ./configure: line 1597: dmake:: command not found
> configure:1599: $? = 127
> configure:1622: checking for C compiler default output file name
> configure:1625: dmake: defaulting to parallel mode.
> See the man page dmake(1) for more information on setting up
> the .dmakerc file.
> /opt/studio12/SUNWspro/bin/cc -m64 dmake: defaulting to parallel mode.
> See the man page dmake(1) for more information on setting up
> the .dmakerc file.
> -xO5 -xc99 -xlibmieee -xlibmil -nofstore   conftest.c  >&5
> ./configure: line 1626: dmake:: command not found
> configure:1628: $? = 127
> configure: failed program was:
> | /* confdefs.h.  */
> |
> | #define PACKAGE_NAME ""
> | #define PACKAGE_TARNAME ""
> | #define PACKAGE_VERSION ""
> | #define PACKAGE_STRING ""
> | #define PACKAGE_BUGREPORT ""
> | /* end confdefs.h.  */
> |
> | int
> | main ()
> | {
> |
> |   ;
> |   return 0;
> | }
> configure:1667: error: C compiler cannot create executables
> See `config.log' for more details.
>
> ## ----------------- ##
> ## Output variables. ##
> ## ----------------- ##
>
> -xO5 -xc99 -xlibmieee -xlibmil -nofstore'
> /opt/studio12/SUNWspro/bin/cc -m64'
> /opt/studio12/SUNWspro/bin/cc -m64'
> CC='dmake: defaulting to parallel mode.
> CFLAGS='dmake: defaulting to parallel mode.
> CPP=''
> CPPFLAGS=''
> DEFS=''
> ECHO_C=''
> ECHO_N='-n'
> ECHO_T=''
> EXEEXT=''
> LDFLAGS=''
> LIBOBJS=''
> LIBS=''
> LTLIBOBJS=''
> OBJEXT=''
> PACKAGE_BUGREPORT=''
> PACKAGE_NAME=''
> PACKAGE_STRING=''
> PACKAGE_TARNAME=''
> PACKAGE_VERSION=''
> PATH_SEPARATOR=':'
> PKG_CPPFLAGS=''
> PKG_LIBS=''
> SHELL='/bin/bash'
> See the man page dmake(1) for more information on setting up
> the .dmakerc file.
> See the man page dmake(1) for more information on setting up
> the .dmakerc file.
> See the man page dmake(1) for more information on setting up
> the .dmakerc file.
> ac_ct_CC='dmake: defaulting to parallel mode.
> bindir='${exec_prefix}/bin'
> build_alias=''
> datadir='${prefix}/share'
> exec_prefix='NONE'
> host_alias=''
> includedir='${prefix}/include'
> infodir='${prefix}/info'
> libdir='${exec_prefix}/lib'
> libexecdir='${exec_prefix}/libexec'
> localstatedir='${prefix}/var'
> mandir='${prefix}/man'
> oldincludedir='/usr/include'
> prefix='NONE'
> program_transform_name='s,x,x,'
> sbindir='${exec_prefix}/sbin'
> sharedstatedir='${prefix}/com'
> sysconfdir='${prefix}/etc'
> target_alias=''
>
> ## ----------- ##
> ## confdefs.h. ##
> ## ----------- ##
>
> #define PACKAGE_BUGREPORT ""
> #define PACKAGE_NAME ""
> #define PACKAGE_STRING ""
> #define PACKAGE_TARNAME ""
> #define PACKAGE_VERSION ""
>
> configure: exit 77
>
>
> ----------------------------------------------------------
> IMPORTANT WARNING:  This email (and any attachments) is ...{{dropped:8}}
>
> ______________________________________________
> R-help at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>
-- 
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

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