-
Notifications
You must be signed in to change notification settings - Fork 10
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
Merge pull request #23 from nicholst/SnPM13.1.5
SnPM 13.1.5: hot fix for two-sample test
- Loading branch information
Showing
9 changed files
with
217 additions
and
25 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,100 @@ | ||
| % Perform tests on error and warnings thrown by snpm_pp | ||
| %_______________________________________________________________________ | ||
| % Copyright (C) 2016 The University of Warwick | ||
| % Camille Maumet | ||
| classdef test_snpm_pp < matlab.unittest.TestCase | ||
| properties | ||
| testDataDir; | ||
| batchResDir; | ||
| parentDataDir; | ||
| matlabbatch; | ||
| testName; | ||
| SnPMrefVersion; | ||
| warningId; | ||
| end | ||
|
|
||
| methods (TestMethodSetup) | ||
|
|
||
| function setGlobals(testCase) | ||
| % Random number generator should not be initialised with a | ||
| % shuffled seed | ||
| global SnPMdefs | ||
| SnPMdefs.shuffle_seed = false; | ||
|
|
||
| % Run the tests in command line mode (no display) | ||
| global defaults; | ||
| defaults.cmdline = true; | ||
|
|
||
| % Disable warning on very small number of permutations | ||
| warning('off','SnPM:VeryFewPermsCoarseExactPValues') | ||
|
|
||
| snpm_test_config; | ||
| cd(spm_str_manip(which('snpm_test_config'), 'h')) | ||
| global testDataDir; | ||
| global SnPMrefVersion; | ||
| testCase.SnPMrefVersion = SnPMrefVersion; | ||
|
|
||
| if isempty(testDataDir) | ||
| error('SnPM:NotTestDataDir', 'Test data directory not set, please update snpm_test_config'); | ||
| end | ||
|
|
||
| testCase.parentDataDir = spm_str_manip(testDataDir, 'h'); | ||
| testCase.testDataDir = testDataDir; | ||
|
|
||
| testCase.warningId = ''; | ||
| end | ||
| end | ||
|
|
||
| methods (Test) | ||
| % Test error: No covariate, no variance smoothing and cluster stat | ||
| % and huge SnPM_ST file leading to Matlab error | ||
| function test_onesample_cluster_err_bigfile(testCase) | ||
| testCase.testName = 'onesample_cluster_err_bigfile'; | ||
| batch_dir = fullfile(testCase.parentDataDir, 'results', 'batch'); | ||
| testCase.batchResDir = fullfile(batch_dir, testCase.testName); | ||
|
|
||
| % Assumes that the onesample_cluster test has been computed | ||
| cluster_dir = fullfile(batch_dir, 'onesample_cluster'); | ||
| if ~isdir(cluster_dir) | ||
| error('SnPM:test:MissingOneSampleClusterTest', ... | ||
| 'One-sample cluster test is missing: Test of the snpm_pp cannot be computed') | ||
| end | ||
|
|
||
| copyfile(fullfile(cluster_dir),testCase.batchResDir) | ||
|
|
||
| % Create very big SnPM.mat | ||
| snpmmatfile = fullfile(testCase.batchResDir, 'SnPM_ST.mat'); | ||
| load(snpmmatfile); | ||
| init_ST = SnPM_ST; | ||
|
|
||
| SnPM_ST = init_ST; | ||
| SnPM_ST = [SnPM_ST; SnPM_ST]; | ||
| % save(fullfile(testCase.batchResDir, 'SnPM_ST.mat'), 'SnPM_ST') | ||
|
|
||
| fid = fopen(snpmmatfile,'a'); | ||
| fwrite(fid,SnPM_ST,'double'); | ||
| fclose(fid); | ||
|
|
||
| % MATLAB:load:unableToReadMatFile | ||
|
|
||
| testCase.matlabbatch{1}.spm.tools.snpm.inference.SnPMmat = {fullfile(testCase.batchResDir, 'SnPM.mat')}; | ||
| testCase.matlabbatch{1}.spm.tools.snpm.inference.Thr.Clus.ClusSize.CFth = 4; | ||
| testCase.matlabbatch{1}.spm.tools.snpm.inference.Thr.Clus.ClusSize.ClusSig.PthC = 0.1; | ||
| testCase.matlabbatch{1}.spm.tools.snpm.inference.WriteFiltImg.name = 'SnPMt_filtered_clus_4_unc_p10.nii'; | ||
|
|
||
| testCase.warningId = 'SnPM:SnPMSTFileNotLOaded'; | ||
| end | ||
| end | ||
|
|
||
| methods (TestMethodTeardown) % Start with last method... | ||
| function run_batch_and_test(testCase) | ||
| verifyError(testCase, @()(spm_jobman('run', testCase.matlabbatch)),'matlabbatch:run:jobfailederr') | ||
| % Check manually for warning as is overwritten by error and | ||
| % therefore cannot be checked directly with verifyWarning | ||
| [~, msgid] = lastwarn; | ||
| if ~msgid == testCase.warningId | ||
| error(['SnPM:test:MissingWarwning:' testCase.warningId], ['Missing warning: ' testCase.warningId]); | ||
| end | ||
| end | ||
| end | ||
| end |
Oops, something went wrong.