Am I right in assuming that modules in sklearn extend functionality in scipy?
If that is the case, it seems there is an explicit link to a version of scipy
with atlas within the decomposition module. Rather than linking to atlas in the
build of sklearn, switching to the atlas version of scipy r
On Oct 18, 2012, at 16:58 , Gael Varoquaux
wrote:
> On Thu, Oct 18, 2012 at 05:56:23PM +0200, Olivier Grisel wrote:
>> Even though it's not officially supported by Apple, the "bug" seems to
>> have been fixed in 10.8.
>
> Awesome, that's good news!
It's not completely true: the minimal reprod
On Thu, Oct 18, 2012 at 05:56:23PM +0200, Olivier Grisel wrote:
> Even though it's not officially supported by Apple, the "bug" seems to
> have been fixed in 10.8.
Awesome, that's good news!
Gael
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2012/10/18 Gael Varoquaux :
> On Thu, Oct 18, 2012 at 07:02:41AM +0100, Andreas Mueller wrote:
>> In principle I think it should be possible to run with the standard numpy as
>> well.
>
> One thing to keep in mind is that accelerate leads to crashes after doing
> a fork. Thus if you want to do mult
On Thu, Oct 18, 2012 at 07:02:41AM +0100, Andreas Mueller wrote:
> In principle I think it should be possible to run with the standard numpy as
> well.
One thing to keep in mind is that accelerate leads to crashes after doing
a fork. Thus if you want to do multiprocessing/joblib-based parallel
com
Glad you sorted it out!
In principle I think it should be possible to run with the standard
numpy as well.
At least you are up and running now, which is the most important thing :)
Andy
On 10/18/2012 12:23 AM, Andrew Godbehere wrote:
Problem solved.
Brief: sklearn depends on builds of numpy a
Problem solved.
Brief: sklearn depends on builds of numpy and scipy that link to atlas. On
MacOSX, default builds of numpy and scipy through macports link to the
Accelerate framework, and not to atlas. After forcing the atlas variants of
numpy and scipy, sklearn works fine.
Action: The implic
How exactly would I link this manually? My sense is that I'd need to edit the
setup.py script. Is there another way?
Thanks,
Andrew
On Oct 17, 2012, at 2:01 PM, [email protected] wrote:
> can you try linking against libatlas manually? that should do it. then i'll
> to fix the setup.py
can you try linking against libatlas manually? that should do it. then i'll to
fix the setup.py
Andrew Godbehere schrieb:
>Hi Andy,
>
>I found _ATL_drotg defined in /opt/local/lib/libatlas.a.
>_ATL_drotg is listed as an undefined reference in libcblas.a,
>libf77blas.a, and libptcblas.a.
>
>T
Hi Andy,
I found _ATL_drotg defined in /opt/local/lib/libatlas.a.
_ATL_drotg is listed as an undefined reference in libcblas.a, libf77blas.a, and
libptcblas.a.
That said, I'm mystified as to why these symbols cannot be located. Does this
hint at a potential problem in linking?
Thanks again,
A
On Tue, Oct 16, 2012 at 03:26:57PM -0700, Andrew Godbehere wrote:
> Also, for some reason, scikit-learn tries to build for posix on my system,
> rather than mac osx.
Isn't mac osX posix?
G
PS: clueless so far on the other aspects of the discussion, but my brain
is working slow motion lately
---
Also, for some reason, scikit-learn tries to build for posix on my system,
rather than mac osx.
On Oct 16, 2012, at 3:07 PM, Andrew Godbehere
wrote:
> Hi Andy,
>
> I was suspicious of clang, I'd rather this build with gcc. I'll look into
> changing that.
>
>
> Here's the output from distut
Hi Andy,
I was suspicious of clang, I'd rather this build with gcc. I'll look into
changing that.
Here's the output from distutils on blas_opt:
{'extra_link_args': ['-Wl,-framework', '-Wl,Accelerate'], 'extra_compile_args':
['-msse3', '-I/System/Library/Frameworks/vecLib.framework/Headers'],
Hi Andrew.
Let's see if we can get to the bottom of this.
I'm really no expert here.
On 10/16/2012 09:01 PM, Andrew Godbehere wrote:
otools (as opposed to ldd) on arrayfuncs.so yields:
(1) /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current
version 169.3.0)
(2) /System/Library/Fram
otools (as opposed to ldd) on arrayfuncs.so yields:
(1) /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current
version 169.3.0)
(2)
/System/Library/Frameworks/Accelerate.framework/Versions/A/Accelerate
(compatibility version 1.0.0, current version 4.0.0)
I'm hoping thi
Also
ldd arrayfuncs.so
might be helpful.
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Hi Andrew.
Unfortunately the atlas support across platforms often makes problems.
Could you please provide the linker flags that arrayfuncs.so was build
against?
You should be able to get that using
|make 2>/dev/null | grep arrayfuncs
|||in the source directory.
Thanks,
Andy
||
On 10/16/2012 08:
Hello sklearn community,
I've just encountered a frustrating problem, and I'm wondering if anyone has
encountered the same.
The following fails:
> from sklearn import decomposition
Specific error: "Symbol not found: _ATL_drotg
Referenced from: sklearn/utils/arrayfuncs.so
Expected in: flat
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