Hello,
Im running the searchlight algorithm on some data and it gets stuck
right around 68% complete.
Ive zscored and detrended the dataset before preprocessing. the error
that is issued says that the SVM classifier cannot converge because of
zero norm.
here's the code ive used to preprocess the data:
if __debug__:
debug.active += ["SLC"]
attr = SampleAttributes('FFA_class_25jan10sf0')
dataset = NiftiDataset(samples='25jan10sf.nii', labels=attr.labels,
chunks=attr.chunks, mask = 'mask.nii')
detrend(dataset, perchunk=True, model="linear", polyord = 1)
zscore(dataset, perchunk=True,targetdtype= 'float16')
dataset = dataset.select( labels = [1,2] )
clf = LinearCSVMC()
cv = CrossValidatedTransferError(TransferError(clf), NFoldSplitter())
s1 = Searchlight(cv, radius=9)
s1_map = s1(dataset)
orig_s1_map = dataset.mapReverse(N.array(s1_map))
data_hdr = dataset.niftihdr
NiftiImage(orig_s1_map,header=data_hdr).save('9mmSL_SVM_tr1_facevshouse.nii.gz')
thanks very much for your help,
Sergey.
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