[pymvpa] PyMVPA for Python 3 -- second report
Yaroslav Halchenko
debian at onerussian.com
Sat Apr 21 01:24:11 UTC 2012
thank you Tiziano!
I have started to glance over the changes -- lots of nice ones -- thanks again,
and we should finalize/merge asap - may be some skype/shared screen
sprintee next week over remaining issues etc?
There is a bulk of changes in some guys feature branches and if we do not
merge now, later it might not be as easy ;) I guess I would also need to check
how changes affect minimal compatible version in 2.x series (if affect at all).
FWIC (for what i care) 2.6 should be good enough for me ;)
but at times going through changes I got a bit scared ;-) e.g.
1.
- self._unique_values = np.unique(self.value)
+ # get a 1-D array
+ arrvalue = np.asarray(self.value).ravel()
+ # check if we have None somewhere
+ nones = np.equal(arrvalue, None)
+ if nones.any():
+ uniques = np.unique(arrvalue[nones == False])
+ # put back one None
+ self._unique_values = np.insert(uniques, 0, None)
+ else:
+ self._unique_values = np.unique(arrvalue)
does numpy handles its own arrays differently among pythons or what is
the reason?
2.
- sample += random.sample((targets == r).nonzero()[0], npertarget[i] )
+ sample += random.sample(list((targets == r).nonzero()[0]), npertarget[i] )
why does it need explicit conversion to list, are numpy arrays not
iterables any longer, or random.sample now can't tollerate them... in either
case sounds inferior to what python 2.x provided
3.
+Convert *py files with lib2to3.
+Taken from MDP and numpy.
so -- copyright of numpy and MDP developers? years? (BSD-3 I guess ;) )
On Fri, 20 Apr 2012, Tiziano Zito wrote:
> hi all,
> with my today's efforts I got down to 13 errors and 15 failures out
> of 284 tests, so it's getting better :)
> on the same branch the same set of unittests passes without errors
> or failures with python 2.7, so I assume I did not break anything
> important.
> I attach here the error logs in case someone else feels like having
> a look.
> the remaining errors and failures are probably out of my reach, as
> fixing them requires a much deeper understanding of the very rich
> data types structure of PyMVPA ;) I am available for a short sprint
> in case someone is orbiting around northern germany...
> there are some commits that I think would require a deeper review by
> some core developer, as I am not 100% sure those changes are really
> as neutral as the lack of failures in the unittests seems to suggest.
> I had to disable a test that was hanging in an infinite loop:
> test_nfold_random_counted_selection_partitioner
> no idea what the problem there is, really.
> one point where I can directly ask for a solution is the usage of
> the variable nproc in BaseSearchlight (mvpa2/measures/searchlight.py):
> the doc-string seems to imply that setting it to None would use all
> available cores, but if the pprocess module is not installed this is
> not true, and an error is spit only in the case nproc > 1
> (which is false if nproc is None). so maybe the doc-string could be
> updated to say something like:
> nproc : None or int
> How many processes to use for computation. Requires `pprocess`
> external module. If None -- all available cores will be used
> if `pprocess` is available, a single core will be used otherwise.
> ciao,
> tiziano
> python3 setup.py config --noisy
> Converting to Python3 via 2to3...
> running config
> python3 setup.py build_ext --inplace
> Converting to Python3 via 2to3...
> running build_ext
> running build_src
> build_src
> building extension "mvpa2.clfs.libsmlrc.smlrc" sources
> building extension "mvpa2.clfs.libsvmc._svmc" sources
> building data_files sources
> build_src: building npy-pkg config files
> customize UnixCCompiler
> customize UnixCCompiler using build_ext
> customize UnixCCompiler
> customize UnixCCompiler using build_ext
> running scons
> touch build3-stamp
> I: Running py3-compatible unittests. None of them should ever fail.
> T: MVPA_SEED=1251509818
> T: Testing for availability of external software packages.
> WARNING: libsvm verbosity control is not available.
> * Please note: warnings are printed only once, but underlying problem might occur many times *
> test_externals (mvpa2.tests.test_externals.TestExternals) ... ok
> test_externals_correct2nd_invocation (mvpa2.tests.test_externals.TestExternals) ... ok
> test_externals_no_double_invocation (mvpa2.tests.test_externals.TestExternals) ... ok
> test_basic (mvpa2.tests.test_dochelpers.DochelpersTests) ... ok
> test_borrow_doc (mvpa2.tests.test_dochelpers.DochelpersTests) ... ok
> test_borrow_kwargs (mvpa2.tests.test_dochelpers.DochelpersTests) ... ok
> test_searchlight_doc (mvpa2.tests.test_dochelpers.DochelpersTests) ... ok
> test_simple_som (mvpa2.tests.test_som.SOMMapperTests) ... ERROR
> test_blank_state (mvpa2.tests.test_state.StateTests) ... ok
> test_deep_copying_state_variable (mvpa2.tests.test_state.StateTests) ... ok
> Check if we can store/restore set of enabled ca ... ok
> test_parametrized (mvpa2.tests.test_state.StateTests) ... ERROR
> test_proper_state (mvpa2.tests.test_state.StateTests) ... ok
> Simple test if child gets conditional attributes from the parent as well ... ok
> test_read_only (mvpa2.tests.test_state.StateTests) ... ok
> To test new ca ... ok
> test_stored_temporarily (mvpa2.tests.test_state.StateTests) ... ok
> test_value_in_constructor (mvpa2.tests.test_state.StateTests) ... ok
> test_blank (mvpa2.tests.test_params.ParamsTests) ... ok
> test_classifier (mvpa2.tests.test_params.ParamsTests) ... ok
> test_incorrect_parameter_error (mvpa2.tests.test_params.ParamsTests) ... ok
> test_mixed (mvpa2.tests.test_params.ParamsTests) ... ok
> test_simple (mvpa2.tests.test_params.ParamsTests) ... ok
> test_config (mvpa2.tests.test_config.ConfigTests) ... ok
> test_asobjarray (mvpa2.tests.test_support.SupportFxTests) ... ok
> test_break_points (mvpa2.tests.test_support.SupportFxTests) ... ok
> test_correlation (mvpa2.tests.test_support.SupportFxTests) ... ok
> test_event (mvpa2.tests.test_support.SupportFxTests) ... ok
> test_id_hash (mvpa2.tests.test_support.SupportFxTests) ... FAIL
> test_map_overlap (mvpa2.tests.test_support.SupportFxTests) ... ok
> test_mof_n_combinations (mvpa2.tests.test_support.SupportFxTests) ... ok
> Test our ad-hoc SmartVersion ... ERROR
> test_transform_with_boxcar (mvpa2.tests.test_support.SupportFxTests) ... ok
> Test conversion of versions from strings ... ok
> test_xrandom_unique_combinations (mvpa2.tests.test_support.SupportFxTests) ... ok
> mvpa2.tests.test_support.test_value2idx ... ok
> mvpa2.tests.test_support.test_limit_filter ... ok
> Test if works fine with carriage return (cr) symbol ... ok
> test_debug (mvpa2.tests.test_verbosity.VerboseOutputTest) ... ok
> test_debug_rgexp (mvpa2.tests.test_verbosity.VerboseOutputTest) ... ok
> Test error message ... ok
> Test if it works fine with no newline (LF) symbol ... ok
> Test once logger ... ok
> Test if it doesn't output at higher levels ... ok
> Test if outputs at lower levels and indents ... ok
> Test indent symbol ... ok
> Test if chokes on negative level ... ok
> Test all available reports, real or dummy for just working ... T: Tests from "test_ridge" are skipped due to missing externals: scipy
> T: Tests from "test_gpr" are skipped due to missing externals: scipy
> T: Tests from "test_hamster" are skipped due to missing externals: ['cPickle', 'gzip']
> T: Warning -- following test files were found but will not be tested: test_gpr.py, test_hamster.py, test_atlases.py, test_ridge.py
> WARNING: You are using DummyReport - no action will be taken. Please install reportlab to enjoy reporting facility within PyMVPA
> ok
> Test if we are not missing basic parts ... ok
> Test if we are not missing basic parts ... ok
> Test the group_kwargs decorator ... ok
> test_tuebingen_meg (mvpa2.tests.test_meg.MEGTests) ... ok
> test_binary_decorator (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> test_boosted (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> test_boosted_state_propagation (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> Simple test if classifiers can generalize ok on simple data ... ok
> To check if known/present Classifiers are working properly ... ok
> Simple test if a learner could cope with custom sa not targets ... ok
> Test how clf handles degenerate cases ... WARNING: SMLR: detected ties in categories ['L0' 'L1']. Small amount of noise will be injected into result estimates upon prediction to break the ties
> ok
> test_dummy (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> test_feature_selection_classifier (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> test_feature_selection_classifier_with_regression (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> Test all classifiers for conformant behavior ... WARNING: kNN: input data is in integers. Overflow on arithmetic operations might result in errors. Please convert dataset's samples into floating datatype if any error is reported.
> WARNING: kNN: input data is in integers. Overflow on arithmetic operations might result in errors. Please convert dataset's samples into floating datatype if any error is reported.
> WARNING: kNN: input data is in integers. Overflow on arithmetic operations might result in errors. Please convert dataset's samples into floating datatype if any error is reported.
> WARNING: kNN: input data is in integers. Overflow on arithmetic operations might result in errors. Please convert dataset's samples into floating datatype if any error is reported.
> WARNING: kNN: input data is in integers. Overflow on arithmetic operations might result in errors. Please convert dataset's samples into floating datatype if any error is reported.
> WARNING: SMLR: detected ties in categories [2]. Small amount of noise will be injected into result estimates upon prediction to break the ties
> WARNING: kNN: input data is in integers. Overflow on arithmetic operations might result in errors. Please convert dataset's samples into floating datatype if any error is reported.
> WARNING: kNN: input data is in integers. Overflow on arithmetic operations might result in errors. Please convert dataset's samples into floating datatype if any error is reported.
> WARNING: SMLR: detected ties in categories [2]. Small amount of noise will be injected into result estimates upon prediction to break the ties
> WARNING: SMLR: detected ties in categories [2]. Small amount of noise will be injected into result estimates upon prediction to break the ties
> WARNING: kNN: input data is in integers. Overflow on arithmetic operations might result in errors. Please convert dataset's samples into floating datatype if any error is reported.
> WARNING: kNN: input data is in integers. Overflow on arithmetic operations might result in errors. Please convert dataset's samples into floating datatype if any error is reported.
> WARNING: kNN: input data is in integers. Overflow on arithmetic operations might result in errors. Please convert dataset's samples into floating datatype if any error is reported.
> ok
> Test if MappedClassifier could handle a mapper altering number of samples ... ERROR
> test_mapped_classifier (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> test_multiclass_classifier (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> Basic tests of metaclass for using regressions as classifiers ... ok
> test_retrainables (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> Test if binary and multiclass can handle single class training/testing ... WARNING: SMLR: detected ties in categories ['L0']. Small amount of noise will be injected into result estimates upon prediction to break the ties
> ok
> test_split_classifier (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> test_split_classifier_extended (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> Basic testing of the clf summary ... ok
> test_svms (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> Basic tests for TreeClassifier ... ERROR
> test_values (mvpa2.tests.test_clf.ClassifiersTests) ... ok
> Test If binary regression-based classifiers have proper tag ... ok
> Simple tests on regressions ... ok
> Simple tests on regressions being used as classifiers ... ok
> Test "sensitivities" provided by regressions ... ok
> test_knn_state (mvpa2.tests.test_knn.KNNTests) ... ok
> test_multivariate (mvpa2.tests.test_knn.KNNTests) ... ok
> test_gnb (mvpa2.tests.test_gnb.GNBTests) ... ok
> test_cper_class (mvpa2.tests.test_svm.SVMTests) ... ok
> test_multivariate (mvpa2.tests.test_svm.SVMTests) ... ERROR
> Test if we raise exceptions on incorrect specifications ... ok
> test_plr (mvpa2.tests.test_plr.PLRTests) ... ok
> test_plr_state (mvpa2.tests.test_plr.PLRTests) ... ok
> test_smlr (mvpa2.tests.test_smlr.SMLRTests) ... ok
> test_smlr_sensitivities (mvpa2.tests.test_smlr.SMLRTests) ... ok
> test_smlr_state (mvpa2.tests.test_smlr.SMLRTests) ... ok
> test_more_svd (mvpa2.tests.test_svdmapper.SVDMapperTests) ... ok
> test_simple_svd (mvpa2.tests.test_svdmapper.SVDMapperTests) ... ok
> test_simple (mvpa2.tests.test_procrust.ProcrusteanMapperTests) ... ok
> test_basic_functioning (mvpa2.tests.test_hyperalignment.HyperAlignmentTests) ... ok
> test_absolute (mvpa2.tests.test_transformers.TransformerTests) ... ok
> test_absolute2 (mvpa2.tests.test_transformers.TransformerTests) ... ok
> Basic testing of DistPValue ... ok
> test_first_axis_sum_not_zero (mvpa2.tests.test_transformers.TransformerTests) ... ok
> test_l1_norm (mvpa2.tests.test_transformers.TransformerTests) ... ok
> test_l2_norm (mvpa2.tests.test_transformers.TransformerTests) ... ok
> test_over_axis (mvpa2.tests.test_transformers.TransformerTests) ... ok
> test_rank_order (mvpa2.tests.test_transformers.TransformerTests) ... ok
> test_1d_multispace_searchlight (mvpa2.tests.test_searchlight.SearchlightTests) ... ok
> test_chi_square_searchlight (mvpa2.tests.test_searchlight.SearchlightTests) ... ok
> test_gnbsearchlight_doc (mvpa2.tests.test_searchlight.SearchlightTests) ... ok
> test_partial_searchlight_with_confusion_matrix (mvpa2.tests.test_searchlight.SearchlightTests) ... ok
> test_partial_searchlight_with_full_report (mvpa2.tests.test_searchlight.SearchlightTests) ... ok
> test_regression_with_additional_sa (mvpa2.tests.test_searchlight.SearchlightTests) ... ERROR
> Tests both generic and GNBSearchlight ... FAIL
> test_usecase_concordancesl (mvpa2.tests.test_searchlight.SearchlightTests) ... ERROR
> test_best_detector (mvpa2.tests.test_rfe.RFETests) ... ok
> test_feature_selection_pipeline (mvpa2.tests.test_rfe.RFETests) ... ok
> Test feature selector ... ok
> Test stopping criterion ... ok
> test_james_problem (mvpa2.tests.test_rfe.RFETests) ... ERROR
> test_james_problem_multiclass (mvpa2.tests.test_rfe.RFETests) ... ERROR
> Test multiple stop criteria ... ok
> Test stopping criterion ... ok
> Test stopping criterion ... ok
> test_rfe (mvpa2.tests.test_rfe.RFETests) ... ok
> test_sensitivity_based_feature_selection (mvpa2.tests.test_rfe.RFETests) ... ok
> test_ifs (mvpa2.tests.test_ifs.IFSTests) ... ok
> test_perturbation_sensitivity_analyzer (mvpa2.tests.test_perturbsensana.PerturbationSensitivityAnalyzerTests) ... ok
> test_docstrings (mvpa2.tests.test_suite.SuiteTest) ... FAIL
> Test if we are loading fine ... ok
> Very basic testing -- just to see if it doesn't crash ... ok
> mvpa2.tests.test_collections.test_basic_collectable ... ok
> mvpa2.tests.test_collections.test_array_collectable ... ok
> mvpa2.tests.test_collections.test_collections ... ok
> mvpa2.tests.test_collections.test_conditional_attr ... ok
> mvpa2.tests.test_attrmap.test_attrmap ... FAIL
> mvpa2.tests.test_attrmap.test_attrmap_conflicts ... ok
> mvpa2.tests.test_attrmap.test_attrmap_repr ... ok
> mvpa2.tests.test_datasetng.test_from_wizard ... ok
> mvpa2.tests.test_datasetng.test_ds_array ... ok
> mvpa2.tests.test_datasetng.test_labelschunks_access ... ok
> mvpa2.tests.test_datasetng.test_ex_from_masked ... ok
> mvpa2.tests.test_datasetng.test_shape_conversion ... ok
> mvpa2.tests.test_datasetng.test_multidim_attrs ... ok
> mvpa2.tests.test_datasetng.test_samples_shape ... ok
> mvpa2.tests.test_datasetng.test_basic_datamapping ... ok
> mvpa2.tests.test_datasetng.test_ds_shallowcopy ... ok
> mvpa2.tests.test_datasetng.test_ds_deepcopy ... ok
> mvpa2.tests.test_datasetng.test_mergeds ... ok
> Additional tests for hstacking of datasets ... ok
> Test composition of new datasets by addition of existing ones ... ok
> mvpa2.tests.test_datasetng.test_combined_samplesfeature_selection ... ok
> mvpa2.tests.test_datasetng.test_labelpermutation_randomsampling ... ok
> mvpa2.tests.test_datasetng.test_masked_featureselection ... ok
> mvpa2.tests.test_datasetng.test_origmask_extraction ... ok
> mvpa2.tests.test_datasetng.test_feature_masking ... ok
> mvpa2.tests.test_datasetng.test_origid_handling ... ok
> mvpa2.tests.test_datasetng.test_idhash ... FAIL
> mvpa2.tests.test_datasetng.test_arrayattributes ... ok
> mvpa2.tests.test_datasetng.test_repr ... ok
> mvpa2.tests.test_datasetng.test_str ... ok
> mvpa2.tests.test_datasetng.test_other_samples_dtypes ... SKIP: External scipy is not present thus tests battery skipped
> mvpa2.tests.test_datasetng.test_dataset_summary ... ok
> mvpa2.tests.test_datasetng.test_h5py_io ... SKIP: External h5py is not present thus tests battery skipped
> mvpa2.tests.test_datasetng.test_hollow_samples ... ok
> test_aggregation (mvpa2.tests.test_datasetfx.MiscDatasetFxTests) ... ok
> test_binds (mvpa2.tests.test_datasetfx.MiscDatasetFxTests) ... ok
> Just basic testing for now ... ok
> test_invar_features_removal (mvpa2.tests.test_datasetfx.MiscDatasetFxTests) ... ok
> Test sequence statistics ... ok
> mvpa2.tests.test_dataset_formats.test_format_lightsvm_basic ... ERROR
> test_counted_splitting (mvpa2.tests.test_splitter.SplitterTests) ... FAIL
> test_custom_split (mvpa2.tests.test_splitter.SplitterTests) ... FAIL
> test_discarded_boundaries (mvpa2.tests.test_splitter.SplitterTests) ... ok
> test_half_split (mvpa2.tests.test_splitter.SplitterTests) ... FAIL
> test_label_splitter (mvpa2.tests.test_splitter.SplitterTests) ... ok
> Test NGroupSplitter alongside with the reversal of the ... FAIL
> test_nfold_random_counted_selection_partitioner (mvpa2.tests.test_splitter.SplitterTests) ... ok
> test_nfold_random_counted_selection_partitioner_huge (mvpa2.tests.test_splitter.SplitterTests) ... ok
> test_odd_even_split (mvpa2.tests.test_splitter.SplitterTests) ... FAIL
> test_reprs (mvpa2.tests.test_splitter.SplitterTests) ... ok
> test_simplest_cv_pat_gen (mvpa2.tests.test_splitter.SplitterTests) ... FAIL
> test_slicing (mvpa2.tests.test_splitter.SplitterTests) ... ok
> test_splitattr_deprecation (mvpa2.tests.test_splitter.SplitterTests) ... ok
> mvpa2.tests.test_generators.test_splitter ... FAIL
> mvpa2.tests.test_generators.test_partitionmapper ... ok
> mvpa2.tests.test_generators.test_attrpermute ... ok
> mvpa2.tests.test_generators.test_balancer ... FAIL
> mvpa2.tests.test_generators.test_repeater ... ok
> mvpa2.tests.test_generators.test_sifter ... ok
> mvpa2.tests.test_generators.test_exclude_targets_combinations ... ok
> mvpa2.tests.test_eepdataset.test_eep_load ... ok
> mvpa2.tests.test_eepdataset.test_eep_bin ... ok
> mvpa2.tests.test_erdataset.test_erdataset ... ok
> mvpa2.tests.test_multiclf.test_multiclass_ties ... ok
> mvpa2.tests.test_neighborhood.test_distances ... ok
> mvpa2.tests.test_neighborhood.test_sphere ... ok
> mvpa2.tests.test_neighborhood.test_sphere_distance_func ... ok
> mvpa2.tests.test_neighborhood.test_sphere_scaled ... ok
> mvpa2.tests.test_neighborhood.test_hollowsphere_basic ... ok
> Test either we sustain empty neighborhoods ... WARNING: HollowSphere(radius=1, inner_radius=0, element_sizes=(3, 3, 3)) defines no neighbors
> ok
> mvpa2.tests.test_neighborhood.test_query_engine ... ok
> Test cached query engine ... ERROR
> Do some extended testing of OneWayAnova ... ok
> Testing null dist probability ... ok
> mvpa2.tests.test_mapper.test_flatten ... ok
> mvpa2.tests.test_mapper.test_subset ... ok
> mvpa2.tests.test_mapper.test_subset_filler ... ok
> mvpa2.tests.test_mapper.test_repr ... ok
> mvpa2.tests.test_mapper.test_chainmapper ... ok
> mvpa2.tests.test_mapper.test_sampleslicemapper ... ok
> mvpa2.tests.test_mapper.test_strip_boundary ... ok
> mvpa2.tests.test_arraymapper.test_forward_dense_array_mapper ... ok
> mvpa2.tests.test_arraymapper.test_reverse_dense_array_mapper ... ok
> mvpa2.tests.test_arraymapper.test_mapper_aliases ... ok
> mvpa2.tests.test_arraymapper.test_selects ... ok
> mvpa2.tests.test_boxcarmapper.test_simpleboxcar ... ok
> mvpa2.tests.test_boxcarmapper.test_datasetmapping ... ok
> test_size (mvpa2.tests.test_prototypemapper.PrototypeMapperTests) ... ok
> test_size_random_prototypes (mvpa2.tests.test_prototypemapper.PrototypeMapperTests) ... ok
> test_streamline_equal_mapper (mvpa2.tests.test_prototypemapper.PrototypeMapperTests) ... ok
> test_streamline_random_mapper (mvpa2.tests.test_prototypemapper.PrototypeMapperTests) ... ok
> test_symmetry (mvpa2.tests.test_prototypemapper.PrototypeMapperTests) ... ok
> mvpa2.tests.test_fxmapper.test_samplesgroup_mapper ... FAIL
> mvpa2.tests.test_fxmapper.test_fx_native_calls ... ok
> mvpa2.tests.test_fxmapper.test_featuregroup_mapper ... FAIL
> mvpa2.tests.test_fxmapper.test_fxmapper ... ok
> mvpa2.tests.test_fxmapper.test_features01 ... ok
> Test by comparing to results of elderly z-score function ... ok
> mvpa2.tests.test_zscoremapper.test_zcore_repr ... ok
> Test z-scoring transformation ... WARNING: Z-scoring chunk-wise having a chunk with less than three samples will set features in these samples to either zero (with 1 sample in a chunk) or -1/+1 (with 2 samples in a chunk). You have chunks with following number of samples: {0: 1, 1: 1}
> WARNING: Z-scoring chunk-wise having a chunk with less than three samples will set features in these samples to either zero (with 1 sample in a chunk) or -1/+1 (with 2 samples in a chunk). You have chunks with following number of samples: {0: 2, 1: 2}
> WARNING: Z-scoring chunk-wise having a chunk with only 3 samples is 'discouraged'. You have chunks with following number of samples: {0: 3, 1: 3}
> ok
> Disabled the test since we have no SpAM yet ... SKIP: skipped SPaM since no SPaM
> test_cached_kernel (mvpa2.tests.test_kernel.KernelTests) ... ok
> Euclidean distance kernel testing ... ok
> Simplistic testing of linear kernel ... ok
> test_pnorm_w (mvpa2.tests.test_kernel.KernelTests) ... ok
> Statistic Kernels ... ok
> mvpa2.tests.test_senses.test_splitclf_sensitivities ... ok
> test_noise_classification (mvpa2.tests.test_clfcrossval.CrossValidationTests) ... ok
> test_simple_n_minus_one_cv (mvpa2.tests.test_clfcrossval.CrossValidationTests) ... ok
> Simple testing of reading RTC files from BrainVoyager ... ok
> test_column_data_from_file (mvpa2.tests.test_iohelpers.IOHelperTests) ... ok
> test_fsl_ev (mvpa2.tests.test_iohelpers.IOHelperTests) ... ok
> test_fsl_ev2 (mvpa2.tests.test_iohelpers.IOHelperTests) ... ok
> test_fsl_glm_design (mvpa2.tests.test_iohelpers.IOHelperTests) ... ok
> test_read_fsl_design (mvpa2.tests.test_iohelpers.IOHelperTests) ... ok
> test_samples_attributes (mvpa2.tests.test_iohelpers.IOHelperTests) ... ok
> test_sensor_locations (mvpa2.tests.test_iohelpers.IOHelperTests) ... ok
> Simple testing of helper Design2Labels ... ok
> testlabels2chunks (mvpa2.tests.test_iohelpers.IOHelperTests) ... ok
> Test AUC computation ... ok
> test_confusion_based_error (mvpa2.tests.test_transerror.ErrorsTests) ... ok
> test_confusion_call (mvpa2.tests.test_transerror.ErrorsTests) ... ok
> test_confusion_matrix (mvpa2.tests.test_transerror.ErrorsTests) ... WARNING: ROC was asked to be evaluated on data with 0 labels which is a degenerate case.
> ok
> test_confusion_matrix_acc (mvpa2.tests.test_transerror.ErrorsTests) ... SKIP: External scipy is not present thus tests battery skipped
> Test confusions addition inconsistent results (GH #51) ... ok
> test_confusion_matrix_with_mappings (mvpa2.tests.test_transerror.ErrorsTests) ... ok
> Basic test of confusion plot ... ok
> test_confusion_plot2 (mvpa2.tests.test_transerror.ErrorsTests) ... ok
> test_confusionmatrix_nulldist (mvpa2.tests.test_transerror.ErrorsTests) ... ok
> test_degenerate_confusion (mvpa2.tests.test_transerror.ErrorsTests) ... WARNING: ROC was asked to be evaluated on data with 1 labels which is a degenerate case.
> WARNING: ROC was asked to be evaluated on data with 1 labels which is a degenerate case.
> WARNING: ROC was asked to be evaluated on data with 1 labels which is a degenerate case.
> WARNING: ROC was asked to be evaluated on data with 1 labels which is a degenerate case.
> ok
> test_null_dist_prob (mvpa2.tests.test_transerror.ErrorsTests) ... ok
> Test analyzers in split classifier ... ok
> Additional aspects of OnewayAnova ... ok
> test_basic (mvpa2.tests.test_datameasure.SensitivityAnalysersTests) ... ERROR
> test_clf_transfer_measure (mvpa2.tests.test_datameasure.SensitivityAnalysersTests) ... ok
> Test combination of the selectors in a single function ... ok
> test_linear_svm_weights (mvpa2.tests.test_datameasure.SensitivityAnalysersTests) ... ok
> test_linear_svm_weights_per_class (mvpa2.tests.test_datameasure.SensitivityAnalysersTests) ... ok
> Test sensitivity of the mapped classifier ... ok
> test_pseudo_cv_measure (mvpa2.tests.test_datameasure.SensitivityAnalysersTests) ... ok
> test_repeated_features (mvpa2.tests.test_datameasure.SensitivityAnalysersTests) ... ok
> test_split_featurewise_dataset_measure (mvpa2.tests.test_datameasure.SensitivityAnalysersTests) ... ok
> test_transfer_measure (mvpa2.tests.test_datameasure.SensitivityAnalysersTests) ... ok
> test_union_feature_selection (mvpa2.tests.test_datameasure.SensitivityAnalysersTests) ... ok
> mvpa2.tests.test_misc.test_dual_gaussian ... SKIP: 1 tests were skipped in testing test_dual_gaussian
> Failure: SkipTest () ... SKIP
> Failure: SkipTest (External scipy is not present thus tests battery skipped) ... SKIP: External scipy is not present thus tests battery skipped
> Failure: SkipTest (External scipy is not present thus tests battery skipped) ... SKIP: External scipy is not present thus tests battery skipped
> Failure: SkipTest (External pywt is not present thus tests battery skipped) ... SKIP: External pywt is not present thus tests battery skipped
> Failure: SkipTest (External mdp is not present thus tests battery skipped) ... SKIP: External mdp is not present thus tests battery skipped
> Failure: SkipTest (External scipy is not present thus tests battery skipped) ... SKIP: External scipy is not present thus tests battery skipped
> Failure: SkipTest (External elasticnet is not present thus tests battery skipped) ... SKIP: External elasticnet is not present thus tests battery skipped
> Failure: SkipTest (External lars is not present thus tests battery skipped) ... SKIP: External lars is not present thus tests battery skipped
> Failure: SkipTest (External glmnet is not present thus tests battery skipped) ... SKIP: External glmnet is not present thus tests battery skipped
> Failure: SkipTest (External shogun is not present thus tests battery skipped) ... SKIP: External shogun is not present thus tests battery skipped
> Failure: SkipTest (External scipy is not present thus tests battery skipped) ... SKIP: External scipy is not present thus tests battery skipped
> Failure: SkipTest (External h5py is not present thus tests battery skipped) ... SKIP: External h5py is not present thus tests battery skipped
> Failure: SkipTest (External h5py is not present thus tests battery skipped) ... SKIP: External h5py is not present thus tests battery skipped
> ======================================================================
> ERROR: test_simple_som (mvpa2.tests.test_som.SOMMapperTests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_som.py", line 31, in test_simple_som
> som.train(colors)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/learner.py", line 131, in train
> result = self._train(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/types.py", line 36, in extract_samples
> return fx(obj, data)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/mappers/som.py", line 127, in _train
> unit_deltas += infl[:,:,np.newaxis] * (s - self._K)
> ValueError: operands could not be broadcast together with shapes (9,5,1) (10,5,3)
> ======================================================================
> ERROR: test_parametrized (mvpa2.tests.test_state.StateTests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_state.py", line 292, in test_parametrized
> a2_str = repr(a2)
> NameError: global name 'a2' is not defined
> ======================================================================
> ERROR: Test our ad-hoc SmartVersion
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_support.py", line 222, in test_smart_version
> self.assertTrue(SV(v1) < SV(v2),
> File "/usr/lib/python3.2/distutils/version.py", line 58, in __lt__
> c = self._cmp(other)
> AttributeError: 'SmartVersion' object has no attribute '_cmp'
> ======================================================================
> ERROR: Test if MappedClassifier could handle a mapper altering number of samples
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/testing/tools.py", line 158, in newfunc
> return func(*arg, **kwargs)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_clf.py", line 1015, in test_gideon_weird_case
> errors.append(np.asscalar(te(ds_meaned)))
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/learner.py", line 237, in __call__
> return super(Learner, self).__call__(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/node.py", line 80, in __call__
> result = self._call(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/measures/base.py", line 548, in _call
> dstrain = next(dsgen)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/generators/splitters.py", line 102, in generate
> cfgs = splattr.unique
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/collections.py", line 237, in unique
> self._unique_values = np.unique(arrvalue)
> File "/usr/lib/python3/dist-packages/numpy/lib/arraysetops.py", line 191, in unique
> ar.sort()
> ValueError: operands could not be broadcast together with shapes (9) (90)
> ======================================================================
> ERROR: Basic tests for TreeClassifier
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/testing/tools.py", line 158, in newfunc
> return func(*arg, **kwargs)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_clf.py", line 584, in test_tree_classifier
> cverror = cv(ds).samples.squeeze()
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/learner.py", line 237, in __call__
> return super(Learner, self).__call__(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/node.py", line 80, in __call__
> result = self._call(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/measures/base.py", line 467, in _call
> return super(CrossValidation, self)._call(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/measures/base.py", line 300, in _call
> result = node(sds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/learner.py", line 237, in __call__
> return super(Learner, self).__call__(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/node.py", line 80, in __call__
> result = self._call(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/measures/base.py", line 555, in _call
> measure.train(dstrain)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/learner.py", line 121, in train
> result = self._train(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/clfs/meta.py", line 866, in _train
> clf.train(ds_group)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/learner.py", line 121, in train
> result = self._train(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/clfs/plr.py", line 75, in _train
> %(set(d),))
> ValueError: Regressors for logistic regression should be [0,1]. Got {'L2', 'L3'}
> ======================================================================
> ERROR: test_multivariate (mvpa2.tests.test_svm.SVMTests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_svm.py", line 31, in test_multivariate
> l_clf = clfswh['linear', 'svm'][0]
> IndexError: list index out of range
> ======================================================================
> ERROR: test_regression_with_additional_sa (mvpa2.tests.test_searchlight.SearchlightTests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/testing/tools.py", line 158, in newfunc
> return func(*arg, **kwargs)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_searchlight.py", line 320, in test_regression_with_additional_sa
> regr = regrswh[:][0]
> IndexError: list index out of range
> ======================================================================
> ERROR: test_usecase_concordancesl (mvpa2.tests.test_searchlight.SearchlightTests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_searchlight.py", line 389, in test_usecase_concordancesl
> ds_both = vstack((ds1, ds2))# join 2 images into a single dataset
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/dataset.py", line 675, in vstack
> [ds.sa[attr].value for ds in datasets], axis=0)
> ValueError: arrays must have same number of dimensions
> ======================================================================
> ERROR: test_james_problem (mvpa2.tests.test_rfe.RFETests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_rfe.py", line 385, in test_james_problem
> rfesvm_split = LinearCSVMC()
> NameError: global name 'LinearCSVMC' is not defined
> ======================================================================
> ERROR: test_james_problem_multiclass (mvpa2.tests.test_rfe.RFETests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_rfe.py", line 433, in test_james_problem_multiclass
> rfesvm_split = LinearCSVMC()
> NameError: global name 'LinearCSVMC' is not defined
> ======================================================================
> ERROR: mvpa2.tests.test_dataset_formats.test_format_lightsvm_basic
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/usr/lib/python3/dist-packages/nose/case.py", line 198, in runTest
> self.test(*self.arg)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_dataset_formats.py", line 26, in test_format_lightsvm_basic
> am = to_lightsvm_format(ds, f)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/datasets/formats.py", line 116, in to_lightsvm_format
> for i,v in zip(list(range(1, dataset.nfeatures+1)), s))))
> TypeError: a float is required
> ======================================================================
> ERROR: Test cached query engine
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/usr/lib/python3/dist-packages/nose/case.py", line 198, in runTest
> self.test(*self.arg)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_neighborhood.py", line 238, in test_cached_query_engine
> res_kw = [q(myspace=x) for x in ds.fa.myspace]
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_neighborhood.py", line 238, in <listcomp>
> res_kw = [q(myspace=x) for x in ds.fa.myspace]
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/misc/neighborhood.py", line 330, in __call__
> return self.query(**kwargs)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/misc/neighborhood.py", line 652, in query
> v = self._lookup.get(k, None)
> TypeError: unhashable type: 'numpy.ndarray'
> ======================================================================
> ERROR: test_basic (mvpa2.tests.test_datameasure.SensitivityAnalysersTests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/testing/sweepargs.py", line 67, in do_sweep
> method(*args_, **kwargs_)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_datameasure.py", line 79, in test_basic
> self.assertTrue(f[0] > 0.1) # some reasonably large value
> TypeError: unorderable types: Dataset() > float()
> ======================================================================
> FAIL: test_id_hash (mvpa2.tests.test_support.SupportFxTests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/testing/tools.py", line 158, in newfunc
> return func(*arg, **kwargs)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/testing/sweepargs.py", line 133, in do_sweep
> raise AssertionError(estr).with_traceback(etb)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_support.py", line 159, in test_id_hash
> self.assertTrue(a_1 != a_2, msg="Idhash must change")
> AssertionError:
> Single scenario lead to failures of unittest test_id_hash:
> on
> pair=(array([[ -8.67732246e-01, 2.30164844e-01, -1.42720211e+00,
> 3.14619183e-01, 1.76 ... :
> False is not true : Idhash must change
> ======================================================================
> FAIL: Tests both generic and GNBSearchlight
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/testing/sweepargs.py", line 133, in do_sweep
> raise AssertionError(estr).with_traceback(etb)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/testing/sweepargs.py", line 133, in do_sweep
> raise AssertionError(estr).with_traceback(etb)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/testing/tools.py", line 158, in newfunc
> return func(*arg, **kwargs)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_searchlight.py", line 105, in test_spatial_searchlight
> results = sl(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/learner.py", line 237, in __call__
> return super(Learner, self).__call__(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/base/node.py", line 80, in __call__
> result = self._call(ds)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/measures/searchlight.py", line 122, in _call
> results, roi_sizes = self._sl_call(dataset, roi_ids, nproc)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/measures/gnbsearchlight.py", line 372, in _sl_call
> assert(block_labels.dtype.kind is 'i')
> AssertionError:
> Single scenario lead to failures of unittest test_spatial_searchlight:
> on
> common_variance=True :
> Single scenario lead to failures of unittest test_spatial_searchlight:
> on
> do_roi=False
> ======================================================================
> FAIL: test_docstrings (mvpa2.tests.test_suite.SuiteTest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_suite.py", line 93, in test_docstrings
> self.fail('\n'.join(sfailures))
> AssertionError: Some items have missing docstrings:
> functions: isSequenceType
> ======================================================================
> FAIL: mvpa2.tests.test_attrmap.test_attrmap
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/usr/lib/python3/dist-packages/nose/case.py", line 198, in runTest
> self.test(*self.arg)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_attrmap.py", line 30, in test_attrmap
> assert_array_equal(am.to_numeric(literal), num_default)
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 707, in assert_array_equal
> verbose=verbose, header='Arrays are not equal')
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 636, in assert_array_compare
> raise AssertionError(msg)
> AssertionError:
> Arrays are not equal
> (mismatch 100.0%)
> x: array(['eins', 'zwei', 'sieben', 'eins', 'sieben', 'eins'],
> dtype='<U6')
> y: array([0, 2, 1, 0, 1, 0])
> ======================================================================
> FAIL: mvpa2.tests.test_datasetng.test_idhash
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/usr/lib/python3/dist-packages/nose/case.py", line 198, in runTest
> self.test(*self.arg)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_datasetng.py", line 665, in test_idhash
> msg="Changing value in attribute should change idhash")
> File "/usr/lib/python3/dist-packages/nose/tools.py", line 25, in ok_
> assert expr, msg
> AssertionError: Changing value in attribute should change idhash
> ======================================================================
> FAIL: test_counted_splitting (mvpa2.tests.test_splitter.SplitterTests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_splitter.py", line 323, in test_counted_splitting
> self.assertEqual(chosenchunks, list(range(target)))
> AssertionError: Lists differ: [0, 0, 0, 0, 0, 0, 0, 0, 0, 0,... != [0, 1, 2, 3, 4, 5, 6, 7, 8, 9,...
> First differing element 1:
> 0
> 1
> Diff is 1284 characters long. Set self.maxDiff to None to see it.
> ======================================================================
> FAIL: test_custom_split (mvpa2.tests.test_splitter.SplitterTests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_splitter.py", line 248, in test_custom_split
> self.assertTrue( p[0].nsamples == 50 )
> AssertionError: False is not true
> ======================================================================
> FAIL: test_half_split (mvpa2.tests.test_splitter.SplitterTests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_splitter.py", line 105, in test_half_split
> assert_array_equal(splits[0][1].sa['chunks'].unique, [0, 1, 2, 3, 4])
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 707, in assert_array_equal
> verbose=verbose, header='Arrays are not equal')
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 600, in assert_array_compare
> raise AssertionError(msg)
> AssertionError:
> Arrays are not equal
> (shapes (50,), (5,) mismatch)
> x: array([ 0. , 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1. ,
> 1.1, 1.2, 1.3, 1.4, 1.5, 1.6, 1.7, 1.8, 1.9, 2. , 2.1,
> 2.2, 2.3, 2.4, 2.5, 2.6, 2.7, 2.8, 2.9, 3. , 3.1, 3.2,...
> y: array([0, 1, 2, 3, 4])
> ======================================================================
> FAIL: Test NGroupSplitter alongside with the reversal of the
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_splitter.py", line 138, in test_n_group_split
> [0, 1, 2, 3, 4])
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 707, in assert_array_equal
> verbose=verbose, header='Arrays are not equal')
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 600, in assert_array_compare
> raise AssertionError(msg)
> AssertionError:
> Arrays are not equal
> (shapes (50,), (5,) mismatch)
> x: array([ 0. , 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1. ,
> 1.1, 1.2, 1.3, 1.4, 1.5, 1.6, 1.7, 1.8, 1.9, 2. , 2.1,
> 2.2, 2.3, 2.4, 2.5, 2.6, 2.7, 2.8, 2.9, 3. , 3.1, 3.2,...
> y: array([0, 1, 2, 3, 4])
> ======================================================================
> FAIL: test_odd_even_split (mvpa2.tests.test_splitter.SplitterTests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_splitter.py", line 79, in test_odd_even_split
> assert_array_equal(splits[0][1].sa['chunks'].unique, [1, 3, 5, 7, 9])
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 707, in assert_array_equal
> verbose=verbose, header='Arrays are not equal')
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 600, in assert_array_compare
> raise AssertionError(msg)
> AssertionError:
> Arrays are not equal
> (shapes (50,), (5,) mismatch)
> x: array([ 0.1, 0.3, 0.5, 0.7, 0.9, 1.1, 1.3, 1.5, 1.7, 1.9, 2.1,
> 2.3, 2.5, 2.7, 2.9, 3.1, 3.3, 3.5, 3.7, 3.9, 4.1, 4.3,
> 4.5, 4.7, 4.9, 5.1, 5.3, 5.5, 5.7, 5.9, 6.1, 6.3, 6.5,...
> y: array([1, 3, 5, 7, 9])
> ======================================================================
> FAIL: test_simplest_cv_pat_gen (mvpa2.tests.test_splitter.SplitterTests)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_splitter.py", line 57, in test_simplest_cv_pat_gen
> self.assertTrue( len(xvpat) == 10 )
> AssertionError: False is not true
> ======================================================================
> FAIL: mvpa2.tests.test_generators.test_splitter
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/usr/lib/python3/dist-packages/nose/case.py", line 198, in runTest
> self.test(*self.arg)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/testing/tools.py", line 158, in newfunc
> return func(*arg, **kwargs)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_generators.py", line 62, in test_splitter
> assert_equal(len(split.sa['chunks'].unique), 10)
> AssertionError: 25 != 10
> ======================================================================
> FAIL: mvpa2.tests.test_generators.test_balancer
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/usr/lib/python3/dist-packages/nose/case.py", line 198, in runTest
> self.test(*self.arg)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/testing/tools.py", line 158, in newfunc
> return func(*arg, **kwargs)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_generators.py", line 165, in test_balancer
> assert_almost_equal(np.mean(res.sa.balanced_set), 0.8)
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 468, in assert_almost_equal
> raise AssertionError(msg)
> AssertionError:
> Arrays are not almost equal to 7 decimals
> ACTUAL: 1.0
> DESIRED: 0.8
> ======================================================================
> FAIL: mvpa2.tests.test_fxmapper.test_samplesgroup_mapper
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/usr/lib/python3/dist-packages/nose/case.py", line 198, in runTest
> self.test(*self.arg)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_fxmapper.py", line 56, in test_samplesgroup_mapper
> assert_array_equal(mapped.targets, clabels)
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 707, in assert_array_equal
> verbose=verbose, header='Arrays are not equal')
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 600, in assert_array_compare
> raise AssertionError(msg)
> AssertionError:
> Arrays are not equal
> (shapes (4, 2), (4,) mismatch)
> x: array([[0, 0],
> [1, 1],
> [0, 0],
> [1, 1]])
> y: array([0, 1, 0, 1])
> ======================================================================
> FAIL: mvpa2.tests.test_fxmapper.test_featuregroup_mapper
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/usr/lib/python3/dist-packages/nose/case.py", line 198, in runTest
> self.test(*self.arg)
> File "/home/tiziano/git/PyMVPA/build/py3k/mvpa2/tests/test_fxmapper.py", line 83, in test_featuregroup_mapper
> assert_array_equal(mds.fa.roi, np.unique([0, 1] * 4))
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 707, in assert_array_equal
> verbose=verbose, header='Arrays are not equal')
> File "/usr/lib/python3/dist-packages/numpy/testing/utils.py", line 600, in assert_array_compare
> raise AssertionError(msg)
> AssertionError:
> Arrays are not equal
> (shapes (2, 4), (2,) mismatch)
> x: array([[0, 0, 0, 0],
> [1, 1, 1, 1]])
> y: array([0, 1])
> ----------------------------------------------------------------------
> Ran 284 tests in 18.166s
> FAILED (SKIP=18, errors=13, failures=15)
> make: *** [unittest-py3] Error 1
> _______________________________________________
> Pkg-ExpPsy-PyMVPA mailing list
> Pkg-ExpPsy-PyMVPA at lists.alioth.debian.org
> http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/pkg-exppsy-pymvpa
--
=------------------------------------------------------------------=
Keep in touch www.onerussian.com
Yaroslav Halchenko www.ohloh.net/accounts/yarikoptic
More information about the Pkg-ExpPsy-PyMVPA
mailing list