[pymvpa] MemoryError

McKell Carter mckellcarter at gmail.com
Fri Jul 2 13:32:51 UTC 2010

I will probably stay with the uncompressed large files for the time
being. We are definitely looking forward to the 0.5 release though :)


On Tue, Jun 29, 2010 at 10:52 PM, Yaroslav Halchenko
<debian at onerussian.com> wrote:
> ok -- quick update:
>  As far as I can see issue boiled down to lack of support for such large
>  data "files" in zlib (compression library used by libnifti).  I am not
>  sure how quickly issue would get resolved since it requires breaking an
>  ABI of the library (and may be more).  I've emailed the authors,
>  waiting for reply.
>  On a good side:  there is a pure Python reimplementation of pynifti by
>  Matthew Brett and Michael Hanke (yes yes -- the same PyMVPA Michael) --
>  it is coming to replace current pynifti, and is already supported in
>  our development (0.5) branch of PyMVPA.  On my quick trials nibabel
>  (and new mri_dataset) seems to support large files without any
>  problem ;)
>  Both nibabel and development snapshot of PyMVPA are available from
>  our NeuroDebian repository if you are using Debian-derived system, so
>  you could give them a try if you desperately need to work with
>  compressed large nifti files. Be warned though, that development
>  version of PyMVPA, although quite usable and somewhat stable, is still
>  in a fluid state and API might change (not to say that it is already
>  different from 0.4.x versions PyMVPA).  But you can use dev.pymvpa.org
>  as the ultimate source of documentation and inspiration.
> With best regards,
> Yarik
> On Sun, 27 Jun 2010, McKell Carter wrote:
>> Wow, very quick work tracking it! When I load the uncompressed file
>> I'm able to access the full array. I'm running a couple tests with
>> pymvpa now to make sure, but that seems a good way to get things
>> working for now. Please do let me know of any updates.
>> Cheers,
>> McKell
> --
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