I gave this a shot but it seems its not trivial to install.
1) I installed pymvpa with:
pymvpa-0.4.2: sage -python setup.py build_ext
2) I installed the nifti c libraries with:
nifticlib-1.1.0: make all
2b) then I copied everything in the bin, lib, and include directories
into the corresponding SAGE_LOCAL places.
3) Then I tried to install pynifti but had trouble. Going into a sage
shell:
pynifti-0.20090303.1: sage -sh
building with:
pynifti-0.20090303.1: python setup.py build
and installing with:
pynifti-0.20090303.1: python setup.py install
seems to go OK but when I try to test I get an error:
pynifti-0.20090303.1: sage -python
Python 2.6.2 (r262:71600, Jul 16 2009, 10:01:32)
[GCC 4.0.1 (Apple Inc. build 5465)] on darwin
Type "help", "copyright", "credits" or "license" for more information.
>>> import nifti
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "nifti/__init__.py", line 21, in <module>
from nifti.image import NiftiImage, MemMappedNiftiImage
File "nifti/image.py", line 27, in <module>
import nifti.clib as ncl
ImportError: No module named clib
...I'm not sure how to proceed.
This looks like a nice opportunity for Sage to become more relevant in
biomedical imaging.
-Marshall Hampton
On Aug 5, 1:46 pm, Harald Schilly <[email protected]> wrote:
> On Aug 5, 8:36 pm, Arvid <[email protected]> wrote:
>
> > Will it be possible to incorporate access to NIfTI and ANALYZE files
> > in SAGE through PyNIfTI (http://niftilib.sourceforge.net/pynifti/)?
>
> Hi, I can't access the sourceforge website right now, but it is "easy"
> to install additional python packages in sage. They don't need to be
> included or packaged. Just go into the "sage environment" with "sage -
> sh" and install the package there. Background: Sage has it's own
> python and you have to install it there, not system wide python
> installation.
> Your actual problem seems to be that additional C/C++ software is
> missing, it can be installed in the same way.
> And, I don't think this will be included in sage, soon. The general
> process is, to first create an experimental or optional package, that
> can be downloaded and installed. Once many users need it and after a
> voting it is included as a standard package.
>
> H
--~--~---------~--~----~------------~-------~--~----~
To post to this group, send email to [email protected]
To unsubscribe from this group, send email to
[email protected]
For more options, visit this group at
http://groups.google.com/group/sage-support
URLs: http://www.sagemath.org
-~----------~----~----~----~------~----~------~--~---
