Thanks again for the help,
Still got the same error I’m afraid.
But I found some more information online.
Here’s what I did:
I had a virtualenv that I pip installed nupic into before. (which was currently
activated)
I ran “pip uninstall nupic” until there was no more nupic. ("pip list" just
shows the installed dependencies)
I had deleted the nupic repo before so I cloned it again, and set $NUPIC.
"cd $NUPIC"
“python setup.py install” (I checked to make sure this python referred to
Homebrew’s python)
It all seemed to build fine. I saw the file being downloaded from AWS S3 ending
in “-darwin64.tar.gz"
I ran the tests “./scripts/run_nupic_tests -u” and it crashed almost immediately
Running "python” then “import nupic.bindings.math” gives the same error as
before:
> Fatal Python error: PyThreadState_Get: no current thread
> Abort trap: 6
I found a stack overflow question with the same error:
> this error shows up when a module tries to use a python library that is
> different than the one the interpreter uses
http://stackoverflow.com/questions/15678153/homebrew-python-on-mac-os-x-10-8-fatal-python-error-pythreadstate-get-no-cu?lq=1
<http://stackoverflow.com/questions/15678153/homebrew-python-on-mac-os-x-10-8-fatal-python-error-pythreadstate-get-no-cu?lq=1>
I had a look at my console output and there’s line referring to
“/System/Library/Frameworks/Python.framework/Versions/2.7/Python” and another
referring to
“/usr/local/Cellar/python/2.7.9/Frameworks/Python.framework/Versions/2.7/Python”.
I’m guessing I need to build nupic.core myself to get it to use homebrew’s
version of python rather than Apple’s.
Cheers,
Ruaridh
> On 27 Jan 2015, at 23:58, Matthew Taylor <[email protected]> wrote:
>
> Well crap. I'd like to step back and try to get you building from the
> source code first. You said you cloned the repo, so be sure to "git
> pull" first, then...
>
> First make sure no old or half-installed versions of nupic are laying around:
>
>> pip uninstall nupic
>
> Run this command several times, until you get an error that "nupic"
> cannot be found. Sometimes you have several versions installed,
> especially if you're been trying to install over time. Then...
>
>> cd $NUPIC
>> python setup.py install --user
>
> No virtualenv required, but feel free to use one and omit the --user
> option. You should notice that the first thing happening is a download
> of the nupic.core binary file for your platform from AWS S3. The
> platform and SHA will be in the filename downloaded. If this command
> runs without an error, try running unit tests:
>
>> ./scripts/run_nupic_tests -u
>
> If you have that _math.so problem, it should pop up here right away.
> If not, and all the tests pass, the next test is to run the simple
> hotgym example:
>
>> python examples/opf/clients/hotgym/simple/hotgym.py
>
> This will output some junk to your console, but should no throw any
> exceptions.
>
> Please tell me how that goes and at what stage you received your first
> error and I'll give you instructions on building nupic.core yourself
> manually (it's not that hard if you have the right compiler).
>
> Thanks for your time,
> ---------
> Matt Taylor
> OS Community Flag-Bearer
> Numenta
>
>
> On Tue, Jan 27, 2015 at 3:39 PM, Ruaridh O'Donnell
> <[email protected]> wrote:
>> Thanks for the reply,
>> I’ve tried a few things, unfortunately none of them have worked.
>>
>> 1) I noticed when pip was downloading nupic from PYPI it was downloading
>> "nupic-0.1.0-cp27-none-macosx_10_9_intel.whl”. I assumed this was meant for
>> mavericks not yosemite, so I tried downloading the 10_10 version and got
>> pip to install it. But I ended with exactly the same error as before.
>>
>> 2) I also tried building nupic from source. I cloned the repo, set up
>> $NUPIC, and build it (inside a virtualenv) using “pip install -e
>> path/to/nupic/repo/“. The -e option in pip apparently just uses "setup.py
>> develop”. It seemed to build OK.
>> But I still ended up with the same error as before.
>>
>> 3) I got your email so I uninstalled home-brew’s python and tried “brew
>> install python-devel”. But brew couldn’t find any formulas with that name.
>> I couldn’t find any reference on development headers for home-brew python
>> through google.
>> So I tried just installing python as I had it before (with "brew install
>> python”) and installing nupic 0.1.2 but again I’m coming up against the same
>> error.
>>
>> Out of curiosity I looked at what point python crashes when running “import
>> nupic.bindings.math”.
>> It looks like it finds a file named _math.so and then crashes when trying to
>> import it.
>>
>> I’m not sure if any of that was helpful, I’m not too knowledgable in this
>> area.
>>
>> Thanks,
>> Ruaridh
>>
>>> On 26 Jan 2015, at 17:50, Matthew Taylor <[email protected]> wrote:
>>>
>>> Ruaridh,
>>>
>>> You may not have python development headers installed. Try "brew
>>> install python-devel", then re-install NuPIC. Let me know if that
>>> helps.
>>> ---------
>>> Matt Taylor
>>> OS Community Flag-Bearer
>>> Numenta
>>>
>>>
>>> On Fri, Jan 23, 2015 at 12:13 PM, Ruaridh O'Donnell
>>> <[email protected]> wrote:
>>>> Hello,
>>>> I’m having trouble installing NuPIC with pip on a new mac with OS X
>>>> Yosemite.
>>>> In python, NuPIC imports OK ("import nupic"), but importing
>>>> nupic.bindings.math and many other modules crashes python.
>>>>
>>>> For example
>>>>
>>>>>>> import nupic.bindings.math
>>>> Fatal Python error: PyThreadState_Get: no current thread
>>>> Abort trap: 6
>>>>
>>>> or
>>>>
>>>>>>> from nupic.frameworks.opf.modelfactory import ModelFactory
>>>> Fatal Python error: PyThreadState_Get: no current thread
>>>> Abort trap: 6
>>>>
>>>> Here’s how I installed everything (on a new mac):
>>>> - I installed home-brew in the standard way (“ruby -e "$(curl -fsSL
>>>> https://raw.githubusercontent.com/Homebrew/install/master/install)"”)
>>>> - installed python 2.7.9 ("homebrew install python”)
>>>> - installed virtualenv ("pip install virtualenv”) (this used the pip
>>>> corresponding to homebrew’s python)
>>>> - set up a virtual env in called ‘all’ in ~/ (“virtualenv all”)
>>>> - installed nupi dependencies ("brew install automake libtool cmake”)
>>>> - activated my virtualenv
>>>> - installed NuPIC ("pip install nupic”)
>>>> Everything seemed to run fine but I now get the errors mentioned above.
>>>>
>>>> I’m trying to use home-brew’s versions of python (2.7.9) rather the system
>>>> one that came pre installed (2.7.6).
>>>> Entering “python” in terminal points to homebrew’s python, not the system
>>>> python.
>>>> I tested out installing other modules with pip (in my virtualenv) and they
>>>> all seem to work fine. (matplotlib)
>>>> Creating a virtualenv uses homebrew's python
>>>>
>>>> Also when pip was installing nupic I noticed the wheel it was downloading
>>>> was the 10_9 file not the 10_10 that is listed on PYPI:
>>>>
>>>> Collecting nupic
>>>> Downloading nupic-0.1.0-cp27-none-macosx_10_9_intel.whl (6.6MB)
>>>> 100% |################################| 6.6MB 848kB/s
>>>>
>>>> Not sure if that’s relevant
>>>>
>>>> Any help/insight into this would be appreciated,
>>>>
>>>> Ruaridh
>>>
>>
