Re: [Numpy-discussion] Import numpy fails on cygwin python
From: David Cournapeau courn...@gmail.com Does the file /usr/lib/python2.5/site-packages/numpy/linalg/lapack_lite.so exist ? cheers, David Indeed, this file is not there. Where can I find it? My mistake, cygwin uses the same extension as windows, that is .dll and not .so, so I would need the output of ldd lapack_lite.dll as well as the output of nm lapack_lite.dll Here are the outputs of cygcheck (as advised in http://cygwin.com/ml/cygwin/2009-10/msg4.html) and nm. I have found cyglapack.dll in lib/lapack/cygblas.dll. Thanks, Olivia $ cygcheck /lib/python2.5/site-packages/numpy/linalg/lapack_lite.dll C:\cygwin\lib/python2.5/site-packages/numpy/linalg/lapack_lite.dll C:\cygwin\bin\cygwin1.dll C:\WINDOWS\system32\ADVAPI32.DLL C:\WINDOWS\system32\KERNEL32.dll C:\WINDOWS\system32\ntdll.dll C:\WINDOWS\system32\RPCRT4.dll C:\WINDOWS\system32\Secur32.dll Error: could not find cyglapack.dll C:\cygwin\bin\libpython2.5.dll $ nm /lib/python2.5/site-packages/numpy/linalg/lapack_lite.dll 10008000 b .bss 10008120 b .bss 10008020 b .bss 10008120 b .bss 10008060 b .bss 10008060 b .bss 10008120 b .bss 10008120 b .bss 10008120 b .bss 10008110 b .bss 10008120 b .bss 10008120 b .bss 10008020 b .bss 10008120 b .bss 10008120 b .bss 10006160 d .data 10006160 d .data 10006160 d .data 10006160 d .data 10006160 d .data 10006000 d .data 10006160 d .data 10006160 d .data 10006160 d .data 10006160 d .data 10006160 d .data 10006160 d .data 10006160 d .data 10006160 d .data 10006160 d .data 1000a03c i .idata$2 1000a000 i .idata$2 1000a028 i .idata$2 1000a014 i .idata$2 1000a0cc i .idata$4 1000a078 i .idata$4 1000a110 i .idata$4 1000a0c4 i .idata$4 1000a08c i .idata$4 1000a0c8 i .idata$4 1000a100 i .idata$4 1000a0e0 i .idata$4 1000a0bc i .idata$4 1000a0e8 i .idata$4 1000a10c i .idata$4 1000a0b8 i .idata$4 1000a120 i .idata$4 1000a0ac i .idata$4 1000a114 i .idata$4 1000a090 i .idata$4 1000a09c i .idata$4 1000a12c i .idata$4 1000a0b0 i .idata$4 1000a070 i .idata$4 1000a0f8 i .idata$4 1000a11c i .idata$4 1000a0a8 i .idata$4 1000a06c i .idata$4 1000a064 i .idata$4 1000a0a0 i .idata$4 1000a0f0 i .idata$4 1000a068 i .idata$4 1000a0a4 i .idata$4 1000a108 i .idata$4 1000a080 i .idata$4 1000a088 i .idata$4 1000a098 i .idata$4 1000a0d0 i .idata$4 1000a104 i .idata$4 1000a130 i .idata$4 1000a0b4 i .idata$4 1000a084 i .idata$4 1000a07c i .idata$4 1000a12c i .idata$4 1000a0f4 i .idata$4 1000a094 i .idata$4 1000a0ec i .idata$4 1000a0d8 i .idata$4 1000a124 i .idata$4 1000a128 i .idata$4 1000a118 i .idata$4 1000a0c0 i .idata$4 1000a0fc i .idata$4 1000a0e4 i .idata$4 1000a0d4 i .idata$4 1000a074 i .idata$4 1000a0dc i .idata$4 1000a1cc i .idata$5 1000a1c4 i .idata$5 1000a148 i .idata$5 1000a1b8 i .idata$5 1000a1e8 i .idata$5 1000a1fc i .idata$5 1000a1e0 i .idata$5 1000a1dc i .idata$5 1000a140 i .idata$5 1000a158 i .idata$5 1000a1f8 i .idata$5 1000a1a8 i .idata$5 1000a190 i .idata$5 1000a1ac i .idata$5 1000a1a4 i .idata$5 1000a19c i .idata$5 1000a144 i .idata$5 1000a15c i .idata$5 1000a194 i .idata$5 1000a198 i .idata$5 1000a18c i .idata$5 1000a1b0 i .idata$5 1000a188 i .idata$5 1000a17c i .idata$5 1000a16c i .idata$5 1000a160 i .idata$5 1000a180 i .idata$5 1000a178 i .idata$5 1000a170 i .idata$5 1000a134 i .idata$5 1000a174 i .idata$5 1000a168 i .idata$5 1000a150 i .idata$5 1000a1a0 i .idata$5 1000a184 i .idata$5 1000a14c i .idata$5 1000a164 i .idata$5 1000a200 i .idata$5 1000a1bc i .idata$5 1000a1d4 i .idata$5 1000a154 i .idata$5 1000a1d8 i .idata$5 1000a1c0 i .idata$5 1000a1fc i .idata$5 1000a1c8 i .idata$5 1000a13c i .idata$5 1000a1e4 i .idata$5 1000a1d0 i .idata$5 1000a1f4 i .idata$5 1000a1f0 i .idata$5 1000a138 i .idata$5 1000a1b4 i .idata$5 1000a1ec i .idata$5 1000a214 i .idata$6 1000a370 i .idata$6 1000a2a8 i .idata$6 1000a39c i .idata$6 1000a2c0 i .idata$6 1000a440 i .idata$6 1000a488 i .idata$6 1000a2d8 i .idata$6 1000a3c4 i .idata$6 1000a46c i .idata$6 1000a29c i .idata$6 1000a35c i .idata$6 1000a2cc i .idata$6 1000a458 i .idata$6 1000a2f0 i .idata$6 1000a2fc i .idata$6 1000a248 i .idata$6 1000a320 i .idata$6 1000a3ec i .idata$6 1000a314 i .idata$6 1000a32c i .idata$6 1000a344 i .idata$6 1000a234 i .idata$6 1000a3dc i .idata$6 1000a204 i .idata$6 1000a308 i .idata$6 1000a4c0 i .idata$6 1000a350 i .idata$6 1000a4ac i .idata$6 1000a26c i .idata$6 1000a278 i .idata$6 1000a220 i .idata$6 1000a284 i .idata$6 1000a388 i .idata$6 1000a2e4 i .idata$6 1000a258 i .idata$6 1000a3b4 i .idata$6 1000a338 i .idata$6 1000a400 i .idata$6 1000a42c i .idata$6 1000a290 i .idata$6 1000a49c i .idata$6 1000a2b4 i .idata$6 1000a414 i .idata$6 1000a260 i .idata$6 1000a504 i .idata$7 1000a548 i .idata$7 1000a530 i .idata$7 1000a544 i .idata$7 1000a53c i .idata$7 1000a534 i .idata$7 1000a538 i .idata$7 1000a52c i .idata$7 1000a528 i .idata$7 1000a51c i .idata$7 1000a50c i .idata$7 1000a520 i .idata$7 1000a518 i .idata$7 1000a510 i .idata$7 1000a514 i .idata$7 1000a508 i .idata$7 1000a540 i
[Numpy-discussion] Import numpy fails on cygwin python
Hello! I have built numpy (updated to the trunk) for my cygwin (1.5.25) Python (2.5.2). However, testing fails when I try to import numpy in python (see output below). I have been searching around for a solution, but everything has failed so far... I would be grateful for any advice. Thank you, Olivia $ python Python 2.5.2 (r252:60911, Dec 2 2008, 09:26:14) [GCC 3.4.4 (cygming special, gdc 0.12, using dmd 0.125)] on cygwin Type help, copyright, credits or license for more information. import numpy Traceback (most recent call last): File stdin, line 1, in module File /usr/lib/python2.5/site-packages/numpy/__init__.py, line 132, in modul e import add_newdocs File /usr/lib/python2.5/site-packages/numpy/add_newdocs.py, line 9, in modu le from lib import add_newdoc File /usr/lib/python2.5/site-packages/numpy/lib/__init__.py, line 13, in mo dule from polynomial import * File /usr/lib/python2.5/site-packages/numpy/lib/polynomial.py, line 17, in module from numpy.linalg import eigvals, lstsq File /usr/lib/python2.5/site-packages/numpy/linalg/__init__.py, line 47, in module from linalg import * File /usr/lib/python2.5/site-packages/numpy/linalg/linalg.py, line 22, in m odule from numpy.linalg import lapack_lite ImportError: No such file or directory ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] Import numpy fails on cygwin python
- Original Message From: David Cournapeau da...@ar.media.kyoto-u.ac.jp Does the file /usr/lib/python2.5/site-packages/numpy/linalg/lapack_lite.so exist ? cheers, David Indeed, this file is not there. Where can I find it? Thanks. Olivia ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] Installing numpy under cygwin
Thank you. This time the building of Numpy worked with no error message. However, when I now try to import Numpy in Python, there is a problem with lapack_lite (see below). Thanks again! Olivia $ python Python 2.5.2 (r252:60911, Dec 2 2008, 09:26:14) [GCC 3.4.4 (cygming special, gdc 0.12, using dmd 0.125)] on cygwin Type help, copyright, credits or license for more information. import numpy Traceback (most recent call last): File stdin, line 1, in module File /usr/lib/python2.5/site-packages/numpy/__init__.py, line 132, in modul e import add_newdocs File /usr/lib/python2.5/site-packages/numpy/add_newdocs.py, line 9, in modu le from lib import add_newdoc File /usr/lib/python2.5/site-packages/numpy/lib/__init__.py, line 13, in mo dule from polynomial import * File /usr/lib/python2.5/site-packages/numpy/lib/polynomial.py, line 17, in module from numpy.linalg import eigvals, lstsq File /usr/lib/python2.5/site-packages/numpy/linalg/__init__.py, line 47, in module from linalg import * File /usr/lib/python2.5/site-packages/numpy/linalg/linalg.py, line 22, in m odule from numpy.linalg import lapack_lite ImportError: No such file or directory - Original Message From: David Cournapeau courn...@gmail.com Please update to the trunk - I can see the error as well for 1.3.0, and the trunk does build correctly on cygwin. I don't understand where the error is coming from in 1.3.0, it almost look like a cpp bug. cheers, David ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] Installing numpy under cygwin
Hi, I have tried to remove my entire numpy directory and starting to build it again from a newly downloaded source (numpy-1.3.0.tar.gz), but it has made no difference. I still get the output below. Thank you for the suggestions, Olivia ... ... ... creating build/temp.cygwin-1.5.25-i686-2.5 creating build/temp.cygwin-1.5.25-i686-2.5/build creating build/temp.cygwin-1.5.25-i686-2.5/build/src.cygwin-1.5.25-i686-2.5 creating build/temp.cygwin-1.5.25-i686-2.5/build/src.cygwin-1.5.25-i686-2.5/numpy creating build/temp.cygwin-1.5.25-i686-2.5/build/src.cygwin-1.5.25-i686-2.5/numpy/core creating build/temp.cygwin-1.5.25-i686-2.5/build/src.cygwin-1.5.25-i686-2.5/numpy/core/src compile options: '-Inumpy/core/include -Ibuild/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy -Inumpy/core/src -Inumpy/core/include -I/usr/include/python2.5 -c' gcc: build/src.cygwin-1.5.25-i686-2.5/numpy/core/src/npy_math.c numpy/core/src/npy_math.c.src:186: error: parse error before '/' token numpy/core/src/npy_math.c.src:186: error: parse error before '/' token error: Command gcc -fno-strict-aliasing -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Inumpy/core/include -Ibuild/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy -Inumpy/core/src -Inumpy/core/include -I/usr/include/python2.5 -c build/src.cygwin-1.5.25-i686-2.5/numpy/core/src/npy_math.c -o build/temp.cygwin-1.5.25-i686-2.5/build/src.cygwin-1.5.25-i686-2.5/numpy/core/src/npy_math.o failed with exit status 1 - Original Message I have just tested a fresh svn checkout, and could built numpy correctly on cygwin. I would suggest you update your sources, and build from scratch (i.e. remove the entire build directory and start from scratch). David ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] Installing numpy under cygwin
The crt0.o file was indeed missing. I have reinstalled cygwin from the cygwin
setup.exe (as it seemed to be included therein), and it seems to have solved
that.
However, I now get the error below.
Thanks,
Olivia
_
Running from numpy source directory.
non-existing path in 'numpy/distutils': 'site.cfg'
F2PY Version 2
blas_opt_info:
blas_mkl_info:
libraries mkl,vml,guide not found in /usr/local/lib
libraries mkl,vml,guide not found in /usr/lib
NOT AVAILABLE
atlas_blas_threads_info:
Setting PTATLAS=ATLAS
libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
libraries ptf77blas,ptcblas,atlas not found in /usr/lib
NOT AVAILABLE
atlas_blas_info:
libraries f77blas,cblas,atlas not found in /usr/local/lib
libraries f77blas,cblas,atlas not found in /usr/lib
NOT AVAILABLE
/cygdrive/c/cygwin/home/Global/numpy-1.3.0/numpy/distutils/system_info.py:1383:
UserWarning:
Atlas (http://math-atlas.sourceforge.net/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [atlas]) or by setting
the ATLAS environment variable.
warnings.warn(AtlasNotFoundError.__doc__)
blas_info:
libraries blas not found in /usr/local/lib
FOUND:
libraries = ['blas']
library_dirs = ['/usr/lib']
language = f77
FOUND:
libraries = ['blas']
library_dirs = ['/usr/lib']
define_macros = [('NO_ATLAS_INFO', 1)]
language = f77
lapack_opt_info:
lapack_mkl_info:
mkl_info:
libraries mkl,vml,guide not found in /usr/local/lib
libraries mkl,vml,guide not found in /usr/lib
NOT AVAILABLE
NOT AVAILABLE
atlas_threads_info:
Setting PTATLAS=ATLAS
libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
libraries lapack_atlas not found in /usr/local/lib
libraries ptf77blas,ptcblas,atlas not found in /usr/lib
libraries lapack_atlas not found in /usr/lib
numpy.distutils.system_info.atlas_threads_info
NOT AVAILABLE
atlas_info:
libraries f77blas,cblas,atlas not found in /usr/local/lib
libraries lapack_atlas not found in /usr/local/lib
libraries f77blas,cblas,atlas not found in /usr/lib
libraries lapack_atlas not found in /usr/lib
numpy.distutils.system_info.atlas_info
NOT AVAILABLE
/cygdrive/c/cygwin/home/Global/numpy-1.3.0/numpy/distutils/system_info.py:1290:
UserWarning:
Atlas (http://math-atlas.sourceforge.net/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [atlas]) or by setting
the ATLAS environment variable.
warnings.warn(AtlasNotFoundError.__doc__)
lapack_info:
libraries lapack not found in /usr/local/lib
FOUND:
libraries = ['lapack']
library_dirs = ['/usr/lib']
language = f77
FOUND:
libraries = ['lapack', 'blas']
library_dirs = ['/usr/lib']
define_macros = [('NO_ATLAS_INFO', 1)]
language = f77
running install
running build
running config_cc
unifing config_cc, config, build_clib, build_ext, build commands --compiler opti
ons
running config_fc
unifing config_fc, config, build_clib, build_ext, build commands --fcompiler opt
ions
running build_src
building py_modules sources
building library npymath sources
building extension numpy.core._sort sources
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/config.h' to
sources.
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/numpyconfig.
h' to sources.
executing numpy/core/code_generators/generate_numpy_api.py
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/__multiarray
_api.h' to sources.
numpy.core - nothing done with h_files = ['build/src.cygwin-1.5.25-i686-2.5/nump
y/core/include/numpy/config.h', 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/inc
lude/numpy/numpyconfig.h', 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/
numpy/__multiarray_api.h']
building extension numpy.core.multiarray sources
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/config.h' to
sources.
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/numpyconfig.
h' to sources.
executing numpy/core/code_generators/generate_numpy_api.py
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/__multiarray
_api.h' to sources.
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/src' to include_dirs.
numpy.core - nothing done with h_files = ['build/src.cygwin-1.5.25-i686-2.5/nump
y/core/src/scalartypes.inc', 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/src/ar
raytypes.inc', 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/config
.h', 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/numpyconfig.h',
'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/__multiarray_api.h']
building extension numpy.core.umath sources
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/config.h' to
sources.
adding
Re: [Numpy-discussion] Installing numpy under cygwin
The npy_math.c is attached here.
Cheers,
Olivia
- Original Message
On Wed, Nov 25, 2009 at 6:42 PM, Olivia Cheronet
wrote:
The crt0.o file was indeed missing. I have reinstalled cygwin from the
cygwin
setup.exe (as it seemed to be included therein), and it seems to have solved
that.
compile options: '-Inumpy/core/include
-Ibuild/src.cygwin-1.5.25-i686-2.5/numpy/
core/include/numpy -Inumpy/core/src -Inumpy/core/include
-I/usr/include/python2.
5 -c'
gcc: build/src.cygwin-1.5.25-i686-2.5/numpy/core/src/npy_math.c
numpy/core/src/npy_math.c.src:186: error: parse error before '/' token
numpy/core/src/npy_math.c.src:186: error: parse error before '/' token
error: Command gcc -fno-strict-aliasing -DNDEBUG -g -fwrapv -O3 -Wall
-Wstrict-
prototypes -Inumpy/core/include
-Ibuild/src.cygwin-1.5.25-i686-2.5/numpy/core/in
clude/numpy -Inumpy/core/src -Inumpy/core/include -I/usr/include/python2.5
-c
bu
ild/src.cygwin-1.5.25-i686-2.5/numpy/core/src/npy_math.c -o
build/temp.cygwin-1.
5.25-i686-2.5/build/src.cygwin-1.5.25-i686-2.5/numpy/core/src/npy_math.o
failed
with exit status 1
Which version of the trunk are you using ? From the error, it looks
like a C99-style // comment (which should not be there), but I don't
see it in the last revision.
Could you put the content of the file
build/src.cygwin-1.5.25-i686-2.5/numpy/core/src/npy_math.c as well ?
thanks,
David
#line 1 numpy/core/src/npy_math.c.src
/*
*
** This file was autogenerated from a template DO NOT EDIT **
** Changes should be made to the original source (.src) file **
*
*/
#line 1
/*
* vim:syntax=c
* A small module to implement missing C99 math capabilities required by numpy
*
* Please keep this independant of python ! Only basic types (npy_longdouble)
* can be used, otherwise, pure C, without any use of Python facilities
*
* How to add a function to this section
* -
*
* Say you want to add `foo`, these are the steps and the reasons for them.
*
* 1) Add foo to the appropriate list in the configuration system. The
*lists can be found in numpy/core/setup.py lines 63-105. Read the
*comments that come with them, they are very helpful.
*
* 2) The configuration system will define a macro HAVE_FOO if your function
*can be linked from the math library. The result can depend on the
*optimization flags as well as the compiler, so can't be known ahead of
*time. If the function can't be linked, then either it is absent, defined
*as a macro, or is an intrinsic (hardware) function.
*
*i) Undefine any possible macros:
*
*#ifdef foo
*#undef foo
*#endif
*
*ii) Avoid as much as possible to declare any function here. Declaring
*functions is not portable: some platforms define some function inline
*with a non standard identifier, for example, or may put another
*idendifier which changes the calling convention of the function. If you
*really have to, ALWAYS declare it for the one platform you are dealing
*with:
*
*Not ok:
*double exp(double a);
*
*Ok:
*#ifdef SYMBOL_DEFINED_WEIRD_PLATFORM
*double exp(double);
*#endif
*/
#include Python.h
#include math.h
#include config.h
#include numpy/npy_math.h
/*
*
** BASIC MATH FUNCTIONS**
*
*/
/* Original code by Konrad Hinsen. */
#ifndef HAVE_EXPM1
static double expm1(double x)
{
double u = exp(x);
if (u == 1.0) {
return x;
} else if (u-1.0 == -1.0) {
return -1;
} else {
return (u-1.0) * x/log(u);
}
}
#endif
#ifndef HAVE_LOG1P
static double log1p(double x)
{
double u = 1. + x;
if (u == 1.0) {
return x;
} else {
return log(u) * x / (u - 1);
}
}
#endif
#ifndef HAVE_HYPOT
static double hypot(double x, double y)
{
double yx;
x = fabs(x);
y = fabs(y);
if (x y) {
double temp = x;
x = y;
y = temp;
}
if (x == 0.)
return 0.;
else {
yx = y/x;
return x*sqrt(1.+yx*yx);
}
}
#endif
#ifndef HAVE_ACOSH
static double acosh(double x)
{
return 2*log(sqrt((x+1.0)/2)+sqrt((x-1.0)/2));
}
#endif
#ifndef HAVE_ASINH
static double asinh(double xx)
{
double x, d;
int sign;
if (xx 0.0) {
sign = -1;
x = -xx;
}
else {
sign = 1;
x = xx;
}
if (x 1e8) {
d = x;
} else {
d = sqrt(x*x + 1);
}
return sign*log1p(x*(1.0 + x/(d+1)));
}
#endif
#ifndef HAVE_ATANH
static
Re: [Numpy-discussion] Installing numpy under cygwin
130, in run self.build_sources() File /cygdrive/c/cygwin/home/Global/numpy-1.3.0/numpy/distutils/command/build_src.py, line 147, in build_sources self.build_extension_sources(ext) File /cygdrive/c/cygwin/home/Global/numpy-1.3.0/numpy/distutils/command/build_src.py, line 250, in build_extension_sources sources = self.generate_sources(sources, ext) File /cygdrive/c/cygwin/home/Global/numpy-1.3.0/numpy/distutils/command/build_src.py, line 307, in generate_sources source = func(extension, build_dir) File numpy/core/setup.py, line 289, in generate_config_h mathlibs = check_mathlib(config_cmd) File numpy/core/setup.py, line 253, in check_mathlib raise EnvironmentError(math library missing; rerun EnvironmentError: math library missing; rerun setup.py after setting the MATHLIB env variable - Original Message Hi Olivia, On Mon, Nov 23, 2009 at 6:51 AM, Olivia Cheronet wrote: Hello, I attempted to install Numpy for my Cygwin python again, by simply executing: python setup.py install However, I now get the following: File numpy/core/setup.py, line 253, in check_mathlib raise EnvironmentError(math library missing; rerun EnvironmentError: math library missing; rerun setup.py after setting the MATHLIB env variable I have a math library from cygwin (libm.a), but I have not managed to set it. The message is misleading (the message is hopefully improved with the last trunk), and it is almost always caused by a broken toolchain (that is you are missing gcc, or g++, etc...). It would be helpful to have the full build log to help you better, David ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] Installing numpy under cygwin
Hello, I attempted to install Numpy for my Cygwin python again, by simply executing: python setup.py install However, I now get the following: File numpy/core/setup.py, line 253, in check_mathlib raise EnvironmentError(math library missing; rerun EnvironmentError: math library missing; rerun setup.py after setting the MATHLIB env variable I have a math library from cygwin (libm.a), but I have not managed to set it. How should I set this? Thank you for the help, Olivia - Original Message From: David Cournapeau To: Discussion of Numerical Python Sent: Wed, November 18, 2009 9:01:06 AM Subject: Re: [Numpy-discussion] Installing numpy under cygwin Olivia Cheronet wrote: Hello. I am currently trying to install the latest version of NumPy for my cygwin Python, and I am having problems... I have downloaded the source, and unzipped and untarred it in my home directory. Subsequently, I included the following in the site.cfg file: [DEFAULT] library_dirs = /cygdrive/c/cygwin/lib include_dirs = /cygdrive/c/cygwin/usr/local/include [blas_opt] libraries = f77blas, cblas, atlas [lapack_opt] libraries = lapack, f77blas, cblas, atlas In the Cygwin bash shell, after going to my home directory, I have executed: python setup.py config --compiler=mingw32 build --compiler=mingw32 install as instructed in the Installing SciPy/Windows page. If you use cygwin, you should not follow the windows instructions. For most purposes, cygwin works as unix. In particular, you don't think you should not use mingw32 build on cygwin. The -mno-cygwin flag appended to gcc is most likely coming from there, and this looks very wrong for a cygwin build. David ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
[Numpy-discussion] Installing numpy under cygwin
Hello.
I am currently trying to install the latest version of NumPy for my cygwin
Python, and I am having problems...
I have downloaded the source, and unzipped and untarred it in my home directory.
Subsequently, I included the following in the site.cfg file:
[DEFAULT]
library_dirs = /cygdrive/c/cygwin/lib
include_dirs = /cygdrive/c/cygwin/usr/local/include
[blas_opt]
libraries = f77blas, cblas, atlas
[lapack_opt]
libraries = lapack, f77blas, cblas, atlas
In the Cygwin bash shell, after going to my home directory, I have executed:
python setup.py config --compiler=mingw32 build --compiler=mingw32 install
as instructed in the Installing SciPy/Windows page.
The result is the following:
error: Command gcc -mno-cygwin -mdll -O -Wall -Inumpy/core/include -Ibuild/src.
cygwin-1.5.25-i686-2.5/numpy/core/include/numpy -Inumpy/core/src -Inumpy/core/in
clude -I/usr/include/python2.5 -c build/src.cygwin-1.5.25-i686-2.5/numpy/core/sr
c/npy_math.c -o build/temp.cygwin-1.5.25-i686-2.5/build/src.cygwin-1.5.25-i686-2
.5/numpy/core/src/npy_math.o failed with exit status 1
I have included below the complete output (and error) I get.
What could be the problem?
Thank you,
Olivia
==
libraries lapack_atlas not found in /cygdrive/c/cygwin/lib
numpy.distutils.system_info.atlas_threads_info
NOT AVAILABLE
atlas_info:
libraries f77blas,cblas,atlas not found in /cygdrive/c/cygwin/lib
libraries lapack_atlas not found in /cygdrive/c/cygwin/lib
numpy.distutils.system_info.atlas_info
NOT AVAILABLE
/cygdrive/c/cygwin/home/Global/numpy-1.3.0/numpy/distutils/system_info.py:1290:
UserWarning:
Atlas (http://math-atlas.sourceforge.net/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [atlas]) or by setting
the ATLAS environment variable.
warnings.warn(AtlasNotFoundError.__doc__)
lapack_info:
FOUND:
libraries = ['lapack']
library_dirs = ['/cygdrive/c/cygwin/lib']
language = f77
FOUND:
libraries = ['lapack', 'blas']
library_dirs = ['/cygdrive/c/cygwin/lib']
define_macros = [('NO_ATLAS_INFO', 1)]
language = f77
running config
running build
running config_cc
unifing config_cc, config, build_clib, build_ext, build commands --compiler opti
ons
running config_fc
unifing config_fc, config, build_clib, build_ext, build commands --fcompiler opt
ions
running build_src
building py_modules sources
building library npymath sources
building extension numpy.core._sort sources
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/config.h' to
sources.
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/numpyconfig.
h' to sources.
executing numpy/core/code_generators/generate_numpy_api.py
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/__multiarray
_api.h' to sources.
numpy.core - nothing done with h_files = ['build/src.cygwin-1.5.25-i686-2.5/nump
y/core/include/numpy/config.h', 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/inc
lude/numpy/numpyconfig.h', 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/
numpy/__multiarray_api.h']
building extension numpy.core.multiarray sources
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/config.h' to
sources.
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/numpyconfig.
h' to sources.
executing numpy/core/code_generators/generate_numpy_api.py
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/__multiarray
_api.h' to sources.
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/src' to include_dirs.
numpy.core - nothing done with h_files = ['build/src.cygwin-1.5.25-i686-2.5/nump
y/core/src/scalartypes.inc', 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/src/ar
raytypes.inc', 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/config
.h', 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/numpyconfig.h',
'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/__multiarray_api.h']
building extension numpy.core.umath sources
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/config.h' to
sources.
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/numpyconfig.
h' to sources.
executing numpy/core/code_generators/generate_ufunc_api.py
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/__ufunc_api.
h' to sources.
adding 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/src' to include_dirs.
numpy.core - nothing done with h_files = ['build/src.cygwin-1.5.25-i686-2.5/nump
y/core/src/scalartypes.inc', 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/src/ar
raytypes.inc', 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/src/umath_funcs.inc'
, 'build/src.cygwin-1.5.25-i686-2.5/numpy/core/src/umath_loops.inc', 'build/src.
cygwin-1.5.25-i686-2.5/numpy/core/include/numpy/config.h', 'build/src.cygwin-1.5
Re: [Numpy-discussion] Installing numpy under cygwin
Hi, I have started again, simply executing: python setup.py install However, I now get the following: File numpy/core/setup.py, line 253, in check_mathlib raise EnvironmentError(math library missing; rerun EnvironmentError: math library missing; rerun setup.py after setting the MATHLIB env variable I have a math library from cygwin (libm.a). How should I set this? Thank you, Olivia - Original Message From: David Cournapeau da...@ar.media.kyoto-u.ac.jp To: Discussion of Numerical Python numpy-discussion@scipy.org Sent: Wed, November 18, 2009 9:01:06 AM Subject: Re: [Numpy-discussion] Installing numpy under cygwin Olivia Cheronet wrote: Hello. I am currently trying to install the latest version of NumPy for my cygwin Python, and I am having problems... I have downloaded the source, and unzipped and untarred it in my home directory. Subsequently, I included the following in the site.cfg file: [DEFAULT] library_dirs = /cygdrive/c/cygwin/lib include_dirs = /cygdrive/c/cygwin/usr/local/include [blas_opt] libraries = f77blas, cblas, atlas [lapack_opt] libraries = lapack, f77blas, cblas, atlas In the Cygwin bash shell, after going to my home directory, I have executed: python setup.py config --compiler=mingw32 build --compiler=mingw32 install as instructed in the Installing SciPy/Windows page. If you use cygwin, you should not follow the windows instructions. For most purposes, cygwin works as unix. In particular, you don't think you should not use mingw32 build on cygwin. The -mno-cygwin flag appended to gcc is most likely coming from there, and this looks very wrong for a cygwin build. David ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
