On Wed, Aug 5, 2009 at 8:09 PM, Marshall Hampton <hampto...@gmail.com>wrote:
> > 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. I recommend emailing the developers of pynifti and see if they care about getting it to install into Sage. If so, obviously they could install Sage and try the above, but with their added knowledge of pynifti, they might succeed... -- William > > > 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 <harald.schi...@gmail.com> wrote: > > On Aug 5, 8:36 pm, Arvid <arvid.lunderv...@gmail.com> 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 > > > -- William Stein Associate Professor of Mathematics University of Washington http://wstein.org --~--~---------~--~----~------------~-------~--~----~ To post to this group, send email to sage-support@googlegroups.com To unsubscribe from this group, send email to sage-support-unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-support URLs: http://www.sagemath.org -~----------~----~----~----~------~----~------~--~---
