#9042: Cython fails to build on OpenSolaris x64
------------------------------------+-------------------------------
Reporter: drkirkby | Owner: drkirkby
Type: defect | Status: closed
Priority: major | Milestone: sage-4.5
Component: porting: Solaris | Resolution: fixed
Keywords: | Merged in: sage-4.5.alpha0
Authors: Robert Bradshaw | Reviewers: David Kirkby
Report Upstream: N/A | Work issues:
Branch: | Commit:
Dependencies: | Stopgaps:
------------------------------------+-------------------------------
Description changed by chapoton:
Old description:
> == Build environment ==
> * Sun Ultra 27 3.33 GHz Intel W3580 Xeon. Quad core. 8 threads. 12 GB
> RAM
> * !OpenSolaris 2009.06 snv_134 X86
> * Sage 4.4.2
> * gcc 4.4.4
>
> == How gcc 4.4.4 was configured ==
> Since the configuration of gcc is fairly critical on !OpenSolaris, here's
> how it was built.
>
> {{{
> drkirkby@hawk:~/sage-4.4.2$ gcc -v
> Using built-in specs.
> Target: i386-pc-solaris2.11
> Configured with: ../gcc-4.4.4/configure --prefix=/usr/local/gcc-4.4.4
> --with-as=/usr/local/binutils-2.20/bin/as --with-ld=/usr/ccs/bin/ld
> --with-gmp=/usr/local --with-mpfr=/usr/local
> Thread model: posix
> gcc version 4.4.4 (GCC)
> }}}
>
> gcc 4.3.4 was failing to build iconv.
>
> == How the Sage build was attempted ==
> * 64-bit build. SAGE64 was set to "yes"
> * #9008 update zlib to latest upstream release to allow a 64-bit library
> to be built.
> * #9009 update mercurial spkg to build 64-bit.
> * #7982 update sage_fortran so it can build 64-bit binaries.
> * Run 'make -k' so make did not stop on errors, so errors can be listed.
>
> == How Python was build ==
>
> It should be noted that python builds as a 64-bit application. There is
> no need to set any environment variables like CFLAGS for Python to build
> 64-bit.
>
> {{{
> drkirkby@hawk:~/sage-4.4.2$ file local/bin/python
> local/bin/python: ELF 64-bit LSB executable AMD64 Version 1,
> dynamically linked, not stripped
> }}}
>
> We can see a few modules did not build
>
> {{{
> ailed to find the necessary bits to build these modules:
> _bsddb bsddb185 dl
> gdbm imageop linuxaudiodev
> ossaudiodev
> To find the necessary bits, look in setup.py in detect_modules() for the
> module's name.
>
> Failed to build these modules:
> _curses _curses_panel _socket
> _ssl _tkinter sunaudiodev
> }}}
>
> The faillure of _socket to build has caused problems with pygments
> (#9041) and ipython (#9022), but does not seem to be the cause of the
> problem with Cython.
>
> == The problem with Cython ==
> This is related to #8116, which was closed as invalid, but it would
> appear the problem can still rear its ugly head.
>
> {{{
> copying Cython/Includes/python_version.pxd ->
> build/lib.solaris-2.11-i86pc-2.6/Cython/Includes
> copying Cython/Includes/numpy.pxd ->
> build/lib.solaris-2.11-i86pc-2.6/Cython/Includes
> copying Cython/Includes/python_bytes.pxd ->
> build/lib.solaris-2.11-i86pc-2.6/Cython/Includes
> copying Cython/Includes/python_method.pxd ->
> build/lib.solaris-2.11-i86pc-2.6/Cython/Includes
> copying Cython/Includes/python_ref.pxd ->
> build/lib.solaris-2.11-i86pc-2.6/Cython/Includes
> copying Cython/Plex/Scanners.pxd ->
> build/lib.solaris-2.11-i86pc-2.6/Cython/Plex
> copying Cython/Compiler/Parsing.pxd ->
> build/lib.solaris-2.11-i86pc-2.6/Cython/Compiler
> copying Cython/Compiler/Scanning.pxd ->
> build/lib.solaris-2.11-i86pc-2.6/Cython/Compiler
> copying Cython/Compiler/Visitor.pxd ->
> build/lib.solaris-2.11-i86pc-2.6/Cython/Compiler
> copying Cython/Runtime/refnanny.pyx ->
> build/lib.solaris-2.11-i86pc-2.6/Cython/Runtime
> running build_ext
> building 'Cython.Plex.Scanners' extension
> creating build/temp.solaris-2.11-i86pc-2.6
> creating build/temp.solaris-2.11-i86pc-2.6/export
> creating build/temp.solaris-2.11-i86pc-2.6/export/home
> creating build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby
> creating
> build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2
> creating
> build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg
> creating
> build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg/build
> creating
> build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1
> creating
> build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1/src
> creating
> build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1/src/Cython
> creating
> build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1/src/Cython/Plex
> gcc -fno-strict-aliasing -DNDEBUG -g -O3 -Wall -Wstrict-prototypes -fPIC
> -I/export/home/drkirkby/sage-4.4.2/local/include/python2.6 -c
> /export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1/src/Cython/Plex/Scanners.c
> -o
> build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1/src/Cython/Plex/Scanners.o
> In file included from
> /export/home/drkirkby/sage-4.4.2/local/include/python2.6/Python.h:58,
> from
> /export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1/src/Cython/Plex/Scanners.c:4:
> /export/home/drkirkby/sage-4.4.2/local/include/python2.6/pyport.h:685:2:
> error: #error "LONG_BIT definition appears wrong for platform (bad
> gcc/glibc config?)."
> error: command 'gcc' failed with exit status 1
> Error installing Cython
>
> real 0m4.426s
> user 0m3.907s
> sys 0m0.505s
> sage: An error occurred while installing cython-0.12.1
> }}}
>
> == The likely cause ==
> The -m64 flag is not being used in the compile line shown, but Python was
> built 64-bit, so I suspect the issue is related to a mix of 32-bit and
> 64-bit code.
>
> == Other !OpenSolaris issues ==
> Some other problems which are failing to allow Sage to build 64-bit on
> !OpenSolaris are listed at #9026.
New description:
== Build environment ==
* Sun Ultra 27 3.33 GHz Intel W3580 Xeon. Quad core. 8 threads. 12 GB RAM
* !OpenSolaris 2009.06 snv_134 X86
* Sage 4.4.2
* gcc 4.4.4
== How gcc 4.4.4 was configured ==
Since the configuration of gcc is fairly critical on !OpenSolaris, here's
how it was built.
{{{
drkirkby@hawk:~/sage-4.4.2$ gcc -v
Using built-in specs.
Target: i386-pc-solaris2.11
Configured with: ../gcc-4.4.4/configure --prefix=/usr/local/gcc-4.4.4
--with-as=/usr/local/binutils-2.20/bin/as --with-ld=/usr/ccs/bin/ld
--with-gmp=/usr/local --with-mpfr=/usr/local
Thread model: posix
gcc version 4.4.4 (GCC)
}}}
gcc 4.3.4 was failing to build iconv.
== How the Sage build was attempted ==
* 64-bit build. SAGE64 was set to "yes"
* #9008 update zlib to latest upstream release to allow a 64-bit library
to be built.
* #9009 update mercurial spkg to build 64-bit.
* #7982 update sage_fortran so it can build 64-bit binaries.
* Run 'make -k' so make did not stop on errors, so errors can be listed.
== How Python was build ==
It should be noted that python builds as a 64-bit application. There is no
need to set any environment variables like CFLAGS for Python to build
64-bit.
{{{
drkirkby@hawk:~/sage-4.4.2$ file local/bin/python
local/bin/python: ELF 64-bit LSB executable AMD64 Version 1, dynamically
linked, not stripped
}}}
We can see a few modules did not build
{{{
ailed to find the necessary bits to build these modules:
_bsddb bsddb185 dl
gdbm imageop linuxaudiodev
ossaudiodev
To find the necessary bits, look in setup.py in detect_modules() for the
module's name.
Failed to build these modules:
_curses _curses_panel _socket
_ssl _tkinter sunaudiodev
}}}
The faillure of _socket to build has caused problems with pygments (#9041)
and ipython (#9022), but does not seem to be the cause of the problem with
Cython.
== The problem with Cython ==
This is related to #8116, which was closed as invalid, but it would appear
the problem can still rear its ugly head.
{{{
copying Cython/Includes/python_version.pxd ->
build/lib.solaris-2.11-i86pc-2.6/Cython/Includes
copying Cython/Includes/numpy.pxd ->
build/lib.solaris-2.11-i86pc-2.6/Cython/Includes
copying Cython/Includes/python_bytes.pxd ->
build/lib.solaris-2.11-i86pc-2.6/Cython/Includes
copying Cython/Includes/python_method.pxd ->
build/lib.solaris-2.11-i86pc-2.6/Cython/Includes
copying Cython/Includes/python_ref.pxd ->
build/lib.solaris-2.11-i86pc-2.6/Cython/Includes
copying Cython/Plex/Scanners.pxd ->
build/lib.solaris-2.11-i86pc-2.6/Cython/Plex
copying Cython/Compiler/Parsing.pxd ->
build/lib.solaris-2.11-i86pc-2.6/Cython/Compiler
copying Cython/Compiler/Scanning.pxd ->
build/lib.solaris-2.11-i86pc-2.6/Cython/Compiler
copying Cython/Compiler/Visitor.pxd ->
build/lib.solaris-2.11-i86pc-2.6/Cython/Compiler
copying Cython/Runtime/refnanny.pyx ->
build/lib.solaris-2.11-i86pc-2.6/Cython/Runtime
running build_ext
building 'Cython.Plex.Scanners' extension
creating build/temp.solaris-2.11-i86pc-2.6
creating build/temp.solaris-2.11-i86pc-2.6/export
creating build/temp.solaris-2.11-i86pc-2.6/export/home
creating build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby
creating build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2
creating
build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg
creating
build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg/build
creating
build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1
creating
build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1/src
creating
build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1/src/Cython
creating
build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1/src/Cython/Plex
gcc -fno-strict-aliasing -DNDEBUG -g -O3 -Wall -Wstrict-prototypes -fPIC
-I/export/home/drkirkby/sage-4.4.2/local/include/python2.6 -c
/export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1/src/Cython/Plex/Scanners.c
-o
build/temp.solaris-2.11-i86pc-2.6/export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1/src/Cython/Plex/Scanners.o
In file included from
/export/home/drkirkby/sage-4.4.2/local/include/python2.6/Python.h:58,
from
/export/home/drkirkby/sage-4.4.2/spkg/build/cython-0.12.1/src/Cython/Plex/Scanners.c:4:
/export/home/drkirkby/sage-4.4.2/local/include/python2.6/pyport.h:685:2:
error: #error "LONG_BIT definition appears wrong for platform (bad
gcc/glibc config?)."
error: command 'gcc' failed with exit status 1
Error installing Cython
real 0m4.426s
user 0m3.907s
sys 0m0.505s
sage: An error occurred while installing cython-0.12.1
}}}
== The likely cause ==
The -m64 flag is not being used in the compile line shown, but Python was
built 64-bit, so I suspect the issue is related to a mix of 32-bit and
64-bit code.
== Other !OpenSolaris issues ==
Some other problems which are failing to allow Sage to build 64-bit on
!OpenSolaris are listed at #9026.
--
--
Ticket URL: <http://trac.sagemath.org/ticket/9042#comment:12>
Sage <http://www.sagemath.org>
Sage: Creating a Viable Open Source Alternative to Magma, Maple, Mathematica,
and MATLAB
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