[pymvpa] Recovering original image dimensions after remove_invariant_features

[Yaroslav Halchenko]

On Fri, 24 Oct 2014, Shane Hoversten wrote:
>    In [20]: dsinv.a.mapper
>    Out[20]: ChainMapper(nodes=[FlattenMapper(shape=(73, 87, 73),
>    auto_train=True, space='voxel_indices'),
>    StaticFeatureSelection(dshape=(463623,), slicearg=array([ 53391, 53462,
>    53463, ..., 415980, 415981, 416053]))])


>    An additional note, in case it matters: this dataset is the result of
>    vstacking two datasets (the same subject on two scanning days; the masks
>    on both days are the same.A  The subject's brain is also, presumably, the
>    same.) using this command
>    agg_ds = vstack((ds1, ds2), a=0)
>    And as a reminder, here's how I write this thing to disk after processing
>    with it:
>    res = sl(dsinv)
>    nimg = map2nifti(dsinv, res.samples[0])
>    filename = "{}.agg.{}.r{}.c{}__{}".format(subj, contrast, radius_size,
>    clfName, maskName)
>    nimg.to_filename(filename)
>    Does that help any?A  Am I doing anything obviously wrong?

I do not see anything obviously wrong and I always leave a possibility
for a bug to creep in ;)  dsinv has all the information (FlattenMapper)
to bring it back to proper 3d space but somehow it doesn't :-/

1. what is the output of

map2nifti(dsinv, res.samples[0]).get_shape()
map2nifti(dsinv, res[0]).get_shape()
map2nifti(dsinv, res).get_shape()


2. if above would not give us a relief, would you mind sharing
those two datasets?

h5save('/tmp/datasets.hdf5', {'dsinv': dsinv, 'res': res})

and send me (mailing list would not allow heavy attachments) the
'/tmp/datasets.hdf5' or post it online -- unlikely any private
information remained in them at this stage ;)

Also I believe we haven't heard yet about what version of pymvpa you
are using ;)?

>    Thanks for your help and suggestions.A  PyMVPA is such a cool community.

oh -- thank you for the warm words ;-)

-- 
Yaroslav O. Halchenko, Ph.D.
http://neuro.debian.net http://www.pymvpa.org http://www.fail2ban.org
Research Scientist,            Psychological and Brain Sciences Dept.
Dartmouth College, 419 Moore Hall, Hinman Box 6207, Hanover, NH 03755
Phone: +1 (603) 646-9834                       Fax: +1 (603) 646-1419
WWW:   http://www.linkedin.com/in/yarik