Dear experts,
I was trying to follow the tutorial step by step, but got stuck because the
scripts can not find the file named "mask_vt.nii.gz". I was using neurodebian,
and I think I installed everything mentioned in the documentation. Could
anybody please point out to me what I missed, or where I can download the
tutorial dataset? many thanks!
Mike
here is the error message:
In [2]: ds = get_haxby2001_data()ERROR: An unexpected error occurred while
tokenizing inputThe following traceback may be corrupted or invalidThe error
message is: ('EOF in multi-line statement', (96, 0))
---------------------------------------------------------------------------IOError
Traceback (most recent call last)
/usr/share/pyshared/mvpa/<ipython console> in <module>()
/usr/lib/pymodules/python2.6/mvpa2/tutorial_suite.pyc in
get_haxby2001_data(path, roi) 40 def get_haxby2001_data(path=None,
roi='vt'): 41 if path is None:---> 42 ds =
get_raw_haxby2001_data(roi=roi) 43 else: 44 ds =
get_raw_haxby2001_data(path, roi=roi)
/usr/lib/pymodules/python2.6/mvpa2/tutorial_suite.pyc in
get_raw_haxby2001_data(path, roi) 35 return ds 36 else:--->
37 return load_datadb_tutorial_data(path=path, roi=roi) 38 39
/usr/lib/pymodules/python2.6/mvpa2/misc/data_generators.pyc in
load_datadb_tutorial_data(path, roi) 377 ds =
fmri_dataset(samples=os.path.join(path, 'bold.nii.gz'), 378
targets=attr.targets, chunks=attr.chunks,--> 379
mask=mask) 380 return ds 381
/usr/lib/pymodules/python2.6/mvpa2/datasets/mri.pyc in fmri_dataset(samples,
targets, chunks, mask, sprefix, tprefix, add_fa) 204 # figure out what
the mask is, but only handle known cases, the rest
205 # goes directly into the mapper which maybe knows more
--> 206 maskimg = _load_anyimg(mask) 207 if maskimg is None: 208
pass
/usr/lib/pymodules/python2.6/mvpa2/datasets/mri.pyc in _load_anyimg(src,
ensure, enforce_dim) 335 # try opening the beast; this might yield
none in case of an unsupported
336 # argument and is handled accordingly below
--> 337 data = _img2data(src) 338 if not data is None:
339 imgdata, imghdr, imgtype = data
/usr/lib/pymodules/python2.6/mvpa2/datasets/mri.pyc in _img2data(src) 58
if isinstance(src, str): 59 # filename
---> 60 img = nibabel.load(src) 61 else: 62 #
assume this is an image already
/usr/lib/pymodules/python2.6/nibabel/loadsave.pyc in load(filename) 51
else: 52 klass = spm2.Spm2AnalyzeImage---> 53 return
klass.from_filename(filename) 54 55
/usr/lib/pymodules/python2.6/nibabel/spatialimages.pyc in from_filename(klass,
filename) 395 def from_filename(klass, filename): 396
file_map = klass.filespec_to_file_map(filename)--> 397 return
klass.from_file_map(file_map) 398 399 @classmethod
/usr/lib/pymodules/python2.6/nibabel/analyze.pyc in from_file_map(klass,
file_map) 1303 ''' 1304 hdr_fh, img_fh =
klass._get_fileholders(file_map)-> 1305 hdrf =
hdr_fh.get_prepare_fileobj(mode='rb') 1306 header =
klass.header_class.from_fileobj(hdrf) 1307 if hdr_fh.fileobj is None:
# was filename
/usr/lib/pymodules/python2.6/nibabel/fileholders.pyc in
get_prepare_fileobj(self, *args, **kwargs) 67
obj.seek(self.pos) 68 elif self.filename is not None:---> 69
obj = allopen(self.filename, *args, **kwargs) 70 if
self.pos != 0: 71 obj.seek(self.pos)
/usr/lib/pymodules/python2.6/nibabel/volumeutils.pyc in allopen(fname, *args,
**kwargs) 847 else: 848 opener = open--> 849 return
opener(fname, *args, **kwargs) 850 851
/usr/lib/python2.6/gzip.pyc in open(filename, mode, compresslevel) 31
32 """---> 33 return GzipFile(filename, mode, compresslevel) 34
35 class GzipFile:
/usr/lib/python2.6/gzip.pyc in __init__(self, filename, mode, compresslevel,
fileobj) 77 mode += 'b' 78 if fileobj is None:--->
79 fileobj = self.myfileobj = __builtin__.open(filename, mode or
'rb') 80 if filename is None: 81 if
hasattr(fileobj, 'name'): filename = fileobj.name
IOError: [Errno 2] No such file or directory: './data/mask_vt.nii.gz'
_______________________________________________
Pkg-ExpPsy-PyMVPA mailing list
[email protected]
http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/pkg-exppsy-pymvpa
