make sure that your mask doesn't include any voxel with 0s (i.e. you've masked them out prior loading with different mask). Or just use 0.4.4 -- that one shouldn't scale C in such cases which would avoid 'getting stuck'
On Tue, 02 Feb 2010, [email protected] wrote: > 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') -- .-. =------------------------------ /v\ ----------------------------= Keep in touch // \\ (yoh@|www.)onerussian.com Yaroslav Halchenko /( )\ ICQ#: 60653192 Linux User ^^-^^ [175555] _______________________________________________ Pkg-ExpPsy-PyMVPA mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/pkg-exppsy-pymvpa
