[pymvpa] Hyperalignment error: "For now do not handle invariant in time datasets"

[Dmitrii Paniukov]

You probably have zero voxels in your data. Use a mask that would exclude
them. It worked for me when i had the same error.
On Sun, Nov 4, 2018 at 6:52 AM Chang Wenshuo <mystery.jazz at hotmail.com>
wrote:

> Dear all,
>
> I am running hyperalignment between-subject analysis. Before calling Hyperalignment(), I stacked the
>
> datasets across the subjects with all runs and did Anova-based feature selection. Hyperalignment() fails
>
> for the dataset with the error message: "For now do not handle invariant in time datasets".
>
>
> It would be great if somebody has any kind of information about what causes this issue, and ways to
>
> solve it. The problem is not fixed after I removed invariant features by using remove_invariant_features()
>
> or set the svd in ProcrusteanMapper() to 'dgesvd'.
>
>
> My codes are as follow:
>
> # split in training and testing sets
> ds_train = dscon[np.array([r != test_run for r in dscon.sa.chunks], dtype='bool'),:]
> ds_test = dscon[np.array([r == test_run for r in dscon.sa.chunks], dtype='bool'),:]
> ds_train = remove_invariant_features(ds_train)
>
> # manual feature selection for every individual dataset in the list
> anova = OneWayAnova(space='reg')
> fscores = [anova(sd) for sd in ds_train]
> eatsels = [StaticFeatureSelection(feature_selector(fscore)) for fscore in fscores]
> ds_train_fs = [fs.forward(sd) for fs, sd in zip(featsels, ds_train)]
>
> # Perform hyperalignment on the training data
> hyper = Hyperalignment(alignment=ProcrusteanMapper(sspace='reg'))
> hypmaps = hyper(ds_train_fs)
>
>
> The error message is:
>
> Traceback (most recent call last):
>
>   File "<ipython-input-377-74fee538844a>", line 2, in <module>
>     hypmaps = hyper(ds_train_fs)
>
>   File "/usr/local/Anaconda/lib/python2.7/site-packages/mvpa2/algorithms/hyperalignment.py", line 339, in __call__
>     self.train(datasets)
>
>   File "/usr/local/Anaconda/lib/python2.7/site-packages/mvpa2/algorithms/hyperalignment.py", line 313, in train
>     residuals)
>
>   File "/usr/local/Anaconda/lib/python2.7/site-packages/mvpa2/algorithms/hyperalignment.py", line 419, in _level1
>     m.train(ds_new)
>
>   File "/usr/local/Anaconda/lib/python2.7/site-packages/mvpa2/base/learner.py", line 137, in train
>     self._train(ds)
>
>   File "/usr/local/Anaconda/lib/python2.7/site-packages/mvpa2/mappers/procrustean.py", line 123, in _train
>     raise ValueError, "For now do not handle invariant in time datasets"
>
> ValueError: For now do not handle invariant in time datasets
>
>
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