From 7ba5756f635ba9a8c01984220b8e66b7b9e949d7 Mon Sep 17 00:00:00 2001
From: Paul McCarthy <pauld.mccarthy@gmail.com>
Date: Fri, 14 Apr 2017 16:34:01 +0100
Subject: [PATCH] Unit tests for featdesign module. Still need to test
voxelwise EVs
---
tests/test_featdesign.py | 278 +++++++++
.../1stlevel_1.feat/absbrainthresh.txt | 1 +
.../cluster_mask_zstat1.nii.gz | 1 +
.../cluster_mask_zstat2.nii.gz | 1 +
.../1stlevel_1.feat/cluster_zstat1.txt | 2 +
.../1stlevel_1.feat/cluster_zstat1_std.txt | 2 +
.../1stlevel_1.feat/cluster_zstat2.txt | 6 +
.../1stlevel_1.feat/cluster_zstat2_std.txt | 6 +
.../test_feat/1stlevel_1.feat/confoundevs.txt | 45 ++
.../test_feat/1stlevel_1.feat/design.con | 10 +
.../test_feat/1stlevel_1.feat/design.frf | 10 +
.../test_feat/1stlevel_1.feat/design.fsf | 515 ++++++++++++++++
.../test_feat/1stlevel_1.feat/design.mat | 50 ++
.../test_feat/1stlevel_1.feat/design.min | 1 +
.../test_feat/1stlevel_1.feat/design.trg | 10 +
.../1stlevel_1.feat/example_func.nii.gz | 1 +
.../1stlevel_1.feat/filtered_func_data.nii.gz | 1 +
.../test_feat/1stlevel_1.feat/lmax_zstat1.txt | 7 +
.../1stlevel_1.feat/lmax_zstat1_std.txt | 7 +
.../test_feat/1stlevel_1.feat/lmax_zstat2.txt | 22 +
.../1stlevel_1.feat/lmax_zstat2_std.txt | 22 +
.../test_feat/1stlevel_1.feat/mask.nii.gz | 1 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0000 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0001 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0002 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0003 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0004 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0005 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0006 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0007 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0008 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0009 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0010 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0011 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0012 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0013 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0014 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0015 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0016 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0017 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0018 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0019 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0020 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0021 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0022 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0023 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0024 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0025 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0026 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0027 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0028 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0029 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0030 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0031 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0032 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0033 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0034 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0035 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0036 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0037 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0038 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0039 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0040 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0041 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0042 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0043 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0044 | 4 +
.../mc/prefiltered_func_data_mcf.par | 45 ++
.../mc/prefiltered_func_data_mcf_abs.rms | 45 ++
.../mc/prefiltered_func_data_mcf_abs_mean.rms | 1 +
.../mc/prefiltered_func_data_mcf_final.par | 45 ++
.../mc/prefiltered_func_data_mcf_rel.rms | 44 ++
.../mc/prefiltered_func_data_mcf_rel_mean.rms | 1 +
.../1stlevel_1.feat/mean_func.nii.gz | 1 +
.../1stlevel_1.feat/reg/example_func.nii.gz | 1 +
.../reg/example_func2highres.mat | 4 +
.../reg/example_func2highres.nii.gz | 1 +
.../reg/example_func2initial_highres.mat | 4 +
.../reg/example_func2initial_highres.nii.gz | 1 +
.../reg/example_func2standard.mat | 4 +
.../reg/example_func2standard.nii.gz | 1 +
.../1stlevel_1.feat/reg/highres.nii.gz | 1 +
.../reg/highres2example_func.mat | 4 +
.../reg/highres2initial_highres.mat | 4 +
.../1stlevel_1.feat/reg/highres2standard.mat | 4 +
.../reg/highres2standard.nii.gz | 1 +
.../1stlevel_1.feat/reg/highres_head.nii.gz | 1 +
.../reg/initial_highres.nii.gz | 1 +
.../reg/initial_highres2example_func.mat | 4 +
.../reg/initial_highres2highres.mat | 4 +
.../reg/initial_highres2highres.nii.gz | 1 +
...initial_highres2highres_fast_wmedge.nii.gz | 1 +
.../initial_highres2highres_fast_wmseg.nii.gz | 1 +
.../reg/initial_highres2highres_init.mat | 4 +
.../1stlevel_1.feat/reg/standard.nii.gz | 1 +
.../reg/standard2example_func.mat | 4 +
.../1stlevel_1.feat/reg/standard2highres.mat | 4 +
.../reg_standard/example_func.nii.gz | 1 +
.../1stlevel_1.feat/reg_standard/mask.nii.gz | 1 +
.../reg_standard/mean_func.nii.gz | 1 +
.../reg_standard/reg/highres.nii.gz | 1 +
.../reg_standard/stats/cope1.nii.gz | 1 +
.../reg_standard/stats/cope2.nii.gz | 1 +
.../reg_standard/stats/varcope1.nii.gz | 1 +
.../reg_standard/stats/varcope2.nii.gz | 1 +
.../rendered_thresh_zstat1.nii.gz | 1 +
.../rendered_thresh_zstat2.nii.gz | 1 +
.../1stlevel_1.feat/stats/cope1.nii.gz | 1 +
.../1stlevel_1.feat/stats/cope2.nii.gz | 1 +
.../test_feat/1stlevel_1.feat/stats/dof | 1 +
.../test_feat/1stlevel_1.feat/stats/logfile | 3 +
.../1stlevel_1.feat/stats/pe1.nii.gz | 1 +
.../1stlevel_1.feat/stats/pe10.nii.gz | 1 +
.../1stlevel_1.feat/stats/pe2.nii.gz | 1 +
.../1stlevel_1.feat/stats/pe3.nii.gz | 1 +
.../1stlevel_1.feat/stats/pe4.nii.gz | 1 +
.../1stlevel_1.feat/stats/pe5.nii.gz | 1 +
.../1stlevel_1.feat/stats/pe6.nii.gz | 1 +
.../1stlevel_1.feat/stats/pe7.nii.gz | 1 +
.../1stlevel_1.feat/stats/pe8.nii.gz | 1 +
.../1stlevel_1.feat/stats/pe9.nii.gz | 1 +
.../1stlevel_1.feat/stats/res4d.nii.gz | 1 +
.../stats/sigmasquareds.nii.gz | 1 +
.../1stlevel_1.feat/stats/smoothness | 3 +
.../1stlevel_1.feat/stats/threshac1.nii.gz | 1 +
.../1stlevel_1.feat/stats/tstat1.nii.gz | 1 +
.../1stlevel_1.feat/stats/tstat2.nii.gz | 1 +
.../1stlevel_1.feat/stats/varcope1.nii.gz | 1 +
.../1stlevel_1.feat/stats/varcope2.nii.gz | 1 +
.../1stlevel_1.feat/stats/zstat1.nii.gz | 1 +
.../1stlevel_1.feat/stats/zstat2.nii.gz | 1 +
.../1stlevel_1.feat/thresh_zstat1.nii.gz | 1 +
.../1stlevel_1.feat/thresh_zstat1.vol | 1 +
.../1stlevel_1.feat/thresh_zstat2.nii.gz | 1 +
.../1stlevel_1.feat/thresh_zstat2.vol | 1 +
.../1stlevel_2.feat/absbrainthresh.txt | 1 +
.../cluster_mask_zstat1.nii.gz | 1 +
.../cluster_mask_zstat2.nii.gz | 1 +
.../1stlevel_2.feat/cluster_zstat1.txt | 3 +
.../1stlevel_2.feat/cluster_zstat1_std.txt | 3 +
.../1stlevel_2.feat/cluster_zstat2.txt | 3 +
.../1stlevel_2.feat/cluster_zstat2_std.txt | 3 +
.../test_feat/1stlevel_2.feat/confoundevs.txt | 45 ++
.../test_feat/1stlevel_2.feat/design.con | 10 +
.../test_feat/1stlevel_2.feat/design.frf | 11 +
.../test_feat/1stlevel_2.feat/design.fsf | 561 ++++++++++++++++++
.../test_feat/1stlevel_2.feat/design.mat | 50 ++
.../test_feat/1stlevel_2.feat/design.min | 1 +
.../test_feat/1stlevel_2.feat/design.trg | 11 +
.../designInputVoxelwiseEV3.nii.gz | 1 +
.../1stlevel_2.feat/designVoxelwiseEV3.nii.gz | 1 +
.../1stlevel_2.feat/example_func.nii.gz | 1 +
.../1stlevel_2.feat/filtered_func_data.nii.gz | 1 +
.../test_feat/1stlevel_2.feat/lmax_zstat1.txt | 12 +
.../1stlevel_2.feat/lmax_zstat1_std.txt | 12 +
.../test_feat/1stlevel_2.feat/lmax_zstat2.txt | 12 +
.../1stlevel_2.feat/lmax_zstat2_std.txt | 12 +
.../test_feat/1stlevel_2.feat/mask.nii.gz | 1 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0000 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0001 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0002 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0003 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0004 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0005 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0006 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0007 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0008 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0009 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0010 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0011 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0012 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0013 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0014 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0015 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0016 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0017 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0018 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0019 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0020 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0021 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0022 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0023 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0024 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0025 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0026 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0027 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0028 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0029 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0030 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0031 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0032 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0033 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0034 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0035 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0036 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0037 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0038 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0039 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0040 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0041 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0042 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0043 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0044 | 4 +
.../mc/prefiltered_func_data_mcf.par | 45 ++
.../mc/prefiltered_func_data_mcf_abs.rms | 45 ++
.../mc/prefiltered_func_data_mcf_abs_mean.rms | 1 +
.../mc/prefiltered_func_data_mcf_final.par | 45 ++
.../mc/prefiltered_func_data_mcf_rel.rms | 44 ++
.../mc/prefiltered_func_data_mcf_rel_mean.rms | 1 +
.../1stlevel_2.feat/mean_func.nii.gz | 1 +
.../1stlevel_2.feat/reg/example_func.nii.gz | 1 +
.../reg/example_func2highres.mat | 4 +
.../reg/example_func2highres.nii.gz | 1 +
.../reg/example_func2initial_highres.mat | 4 +
.../reg/example_func2initial_highres.nii.gz | 1 +
.../reg/example_func2standard.mat | 4 +
.../reg/example_func2standard.nii.gz | 1 +
.../1stlevel_2.feat/reg/highres.nii.gz | 1 +
.../reg/highres2example_func.mat | 4 +
.../reg/highres2initial_highres.mat | 4 +
.../1stlevel_2.feat/reg/highres2standard.mat | 4 +
.../reg/highres2standard.nii.gz | 1 +
.../1stlevel_2.feat/reg/highres_head.nii.gz | 1 +
.../reg/initial_highres.nii.gz | 1 +
.../reg/initial_highres2example_func.mat | 4 +
.../reg/initial_highres2highres.mat | 4 +
.../reg/initial_highres2highres.nii.gz | 1 +
...initial_highres2highres_fast_wmedge.nii.gz | 1 +
.../initial_highres2highres_fast_wmseg.nii.gz | 1 +
.../reg/initial_highres2highres_init.mat | 4 +
.../1stlevel_2.feat/reg/standard.nii.gz | 1 +
.../reg/standard2example_func.mat | 4 +
.../1stlevel_2.feat/reg/standard2highres.mat | 4 +
.../rendered_thresh_zstat1.nii.gz | 1 +
.../rendered_thresh_zstat2.nii.gz | 1 +
.../1stlevel_2.feat/stats/cope1.nii.gz | 1 +
.../1stlevel_2.feat/stats/cope2.nii.gz | 1 +
.../test_feat/1stlevel_2.feat/stats/dof | 1 +
.../test_feat/1stlevel_2.feat/stats/logfile | 3 +
.../1stlevel_2.feat/stats/pe1.nii.gz | 1 +
.../1stlevel_2.feat/stats/pe10.nii.gz | 1 +
.../1stlevel_2.feat/stats/pe11.nii.gz | 1 +
.../1stlevel_2.feat/stats/pe2.nii.gz | 1 +
.../1stlevel_2.feat/stats/pe3.nii.gz | 1 +
.../1stlevel_2.feat/stats/pe4.nii.gz | 1 +
.../1stlevel_2.feat/stats/pe5.nii.gz | 1 +
.../1stlevel_2.feat/stats/pe6.nii.gz | 1 +
.../1stlevel_2.feat/stats/pe7.nii.gz | 1 +
.../1stlevel_2.feat/stats/pe8.nii.gz | 1 +
.../1stlevel_2.feat/stats/pe9.nii.gz | 1 +
.../1stlevel_2.feat/stats/res4d.nii.gz | 1 +
.../stats/sigmasquareds.nii.gz | 1 +
.../1stlevel_2.feat/stats/smoothness | 3 +
.../1stlevel_2.feat/stats/threshac1.nii.gz | 1 +
.../1stlevel_2.feat/stats/tstat1.nii.gz | 1 +
.../1stlevel_2.feat/stats/tstat2.nii.gz | 1 +
.../1stlevel_2.feat/stats/varcope1.nii.gz | 1 +
.../1stlevel_2.feat/stats/varcope2.nii.gz | 1 +
.../1stlevel_2.feat/stats/zstat1.nii.gz | 1 +
.../1stlevel_2.feat/stats/zstat2.nii.gz | 1 +
.../1stlevel_2.feat/thresh_zstat1.nii.gz | 1 +
.../1stlevel_2.feat/thresh_zstat1.vol | 1 +
.../1stlevel_2.feat/thresh_zstat2.nii.gz | 1 +
.../1stlevel_2.feat/thresh_zstat2.vol | 1 +
.../1stlevel_3.feat/InputconfoundEV1.nii.gz | 1 +
.../1stlevel_3.feat/absbrainthresh.txt | 1 +
.../cluster_mask_zstat1.nii.gz | 1 +
.../cluster_mask_zstat2.nii.gz | 1 +
.../1stlevel_3.feat/cluster_zstat1.txt | 4 +
.../1stlevel_3.feat/cluster_zstat2.txt | 6 +
.../1stlevel_3.feat/confoundEV1.nii.gz | 1 +
.../test_feat/1stlevel_3.feat/confoundevs.txt | 45 ++
.../test_feat/1stlevel_3.feat/design.con | 10 +
.../test_feat/1stlevel_3.feat/design.frf | 32 +
.../test_feat/1stlevel_3.feat/design.fsf | 503 ++++++++++++++++
.../test_feat/1stlevel_3.feat/design.mat | 50 ++
.../test_feat/1stlevel_3.feat/design.min | 1 +
.../test_feat/1stlevel_3.feat/design.trg | 32 +
.../1stlevel_3.feat/example_func.nii.gz | 1 +
.../1stlevel_3.feat/filtered_func_data.nii.gz | 1 +
.../test_feat/1stlevel_3.feat/lmax_zstat1.txt | 7 +
.../test_feat/1stlevel_3.feat/lmax_zstat2.txt | 20 +
.../test_feat/1stlevel_3.feat/mask.nii.gz | 1 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0000 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0001 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0002 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0003 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0004 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0005 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0006 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0007 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0008 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0009 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0010 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0011 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0012 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0013 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0014 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0015 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0016 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0017 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0018 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0019 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0020 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0021 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0022 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0023 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0024 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0025 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0026 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0027 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0028 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0029 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0030 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0031 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0032 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0033 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0034 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0035 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0036 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0037 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0038 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0039 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0040 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0041 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0042 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0043 | 4 +
.../mc/prefiltered_func_data_mcf.mat/MAT_0044 | 4 +
.../mc/prefiltered_func_data_mcf.par | 45 ++
.../mc/prefiltered_func_data_mcf_abs.rms | 45 ++
.../mc/prefiltered_func_data_mcf_abs_mean.rms | 1 +
.../mc/prefiltered_func_data_mcf_diff.dat | 45 ++
.../mc/prefiltered_func_data_mcf_final.par | 45 ++
.../mc/prefiltered_func_data_mcf_rel.rms | 44 ++
.../mc/prefiltered_func_data_mcf_rel_mean.rms | 1 +
.../1stlevel_3.feat/meanConfounds.dat | 45 ++
.../1stlevel_3.feat/mean_func.nii.gz | 1 +
.../rendered_thresh_zstat1.nii.gz | 1 +
.../rendered_thresh_zstat2.nii.gz | 1 +
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create mode 100644 tests/testdata/test_feat/2ndlevel_2.gfeat/design.lcon
create mode 100644 tests/testdata/test_feat/2ndlevel_2.gfeat/design.mat
create mode 100644 tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/masksum.nii.gz
create mode 100644 tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/masksum_overlay.nii.gz
create mode 100644 tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/maskunique.nii.gz
create mode 100644 tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/maskunique_overlay.nii.gz
create mode 100644 tests/testdata/test_feat/2ndlevel_2.gfeat/mask.nii.gz
create mode 100644 tests/testdata/test_feat/2ndlevel_2.gfeat/mean_func.nii.gz
diff --git a/tests/test_featdesign.py b/tests/test_featdesign.py
new file mode 100644
index 000000000..4866a6ea2
--- /dev/null
+++ b/tests/test_featdesign.py
@@ -0,0 +1,278 @@
+#!/usr/bin/env python
+#
+# test_featdesign.py -
+#
+# Author: Paul McCarthy <pauldmccarthy@gmail.com>
+#
+"""Test data sets (in testdata/test_feat) were generated with FSL 5.0.9, and
+then 'cleaned' to remove unnecessary files and reduce size, with the following
+commands:
+
+First level analyses:
+
+ find . -name "*png" -delete
+ find . -name "*ppm" -delete
+ find . -name "*html" -delete
+ rm -r logs .files tsplot .ramp.gif
+ for f in `find . -name "*nii.gz"`; do
+ echo $f > $f
+ done
+
+Second level analyses:
+
+ find . -name "*png" -delete
+ find . -name "*ppm" -delete
+ find . -name "*html" -delete
+ rm -r logs .files .ramp.gif
+ for f in `find . -name "*nii.gz"`; do
+ echo $f > $f
+ done
+
+Second level cope?.feats:
+ rm -r logs .files tsplot .ramp.gif
+
+
+
+`1stlevel_1.feat`
+
+ - 45 time points
+ - 10 EVs in total:
+ - 2 stimulus EVs
+ - 2 temporal derivative EVs
+ - 6 Standard motion parameters
+ - 2 contrasts - one on each stimulus EV
+
+`1stlevel_2.feat`
+
+ - 45 time points
+ - 11 EVs in total:
+ - 2 stimulus EVs
+ - 2 temporal derivative EVs
+ - 1 voxelwise EV
+ - 6 Standard motion parameters
+ - 2 contrasts - one on each stimulus EV
+
+`1stlevel_3.feat`
+ - 45 time points
+ - 32 EVs in total:
+ - 2 stimulus EVs
+ - 1 Temporal derivative EV on first
+ - 2 gamma basis functions on second
+ - 24 Standard+extended motion parameters
+ - 2 Confound EVs
+ - 1 Voxelwise confound EV
+ - 2 contrasts - one on each stimulus EV
+
+`2ndlevel_1.feat`
+ - Three inputs
+ - Two copes
+ - One main EV - group average
+
+`2ndlevel_1.feat`
+ - Three inputs
+ - Two copes
+ - One main EV - group average
+ - One voxelwise EV
+"""
+
+
+import os.path as op
+
+import pytest
+
+import fsl.data.featdesign as featdesign
+import fsl.data.featanalysis as featanalysis
+
+
+datadir = op.join(op.dirname(__file__), 'testdata', 'test_feat')
+
+
+
+def test_FeatFSFDesign():
+
+ featdirs = ['1stlevel_1.feat', '1stlevel_2.feat', '1stlevel_3.feat',
+ '2ndlevel_1.gfeat', '2ndlevel_2.gfeat']
+ nevs = [10, 11, 32, 1, 2]
+ shapes = [(45, 10), (45, 11), (45, 32), (3, 1), (3, 2)]
+
+ for featdir, nev, shape in zip(featdirs, nevs, shapes):
+ featdir = op.join(datadir, featdir)
+ settings = featanalysis.loadSettings(featdir)
+
+ # We can't load the voxelwise EVs
+ # here, because all of the .nii.gz
+ # files in the test directory are
+ # stubs.
+ #
+ # See the test_firstLevelVoxelwiseEV
+ # function
+ des = featdesign.FEATFSFDesign(featdir,
+ loadVoxelwiseEVs=False)
+
+ # Can also specify the design.fsf settings
+ featdesign.FEATFSFDesign(featdir,
+ settings=settings,
+ loadVoxelwiseEVs=False)
+
+ assert len(des.getEVs()) == nev
+ assert des.getDesign().shape == shape
+ assert des.getDesign((10, 10, 3)).shape == shape
+
+
+def test_getFirstLevelEVs_1():
+ featdir = op.join(datadir, '1stlevel_1.feat')
+ settings = featanalysis.loadSettings(featdir)
+ matrix = featdesign.loadDesignMat(op.join(featdir, 'design.mat'))
+
+ expected = [(featdesign.NormalEV, {'index' : 0, 'origIndex' : 0}),
+ (featdesign.TemporalDerivativeEV, {'index' : 1}),
+ (featdesign.NormalEV, {'index' : 2, 'origIndex' : 1}),
+ (featdesign.TemporalDerivativeEV, {'index' : 3}),
+ (featdesign.MotionParameterEV, {'index' : 4, 'motionIndex' : 0}),
+ (featdesign.MotionParameterEV, {'index' : 5, 'motionIndex' : 1}),
+ (featdesign.MotionParameterEV, {'index' : 6, 'motionIndex' : 2}),
+ (featdesign.MotionParameterEV, {'index' : 7, 'motionIndex' : 3}),
+ (featdesign.MotionParameterEV, {'index' : 8, 'motionIndex' : 4}),
+ (featdesign.MotionParameterEV, {'index' : 9, 'motionIndex' : 5})]
+
+ evs = featdesign.getFirstLevelEVs(featdir, settings, matrix)
+ assert len(evs) == 10
+
+ for i, (evtype, atts) in enumerate(expected):
+
+ assert isinstance(evs[i], evtype)
+ for k, v in atts.items():
+ assert getattr(evs[i], k) == v
+
+
+def test_getFirstLevelEVs_2():
+ featdir = op.join(datadir, '1stlevel_2.feat')
+ settings = featanalysis.loadSettings(featdir)
+ matrix = featdesign.loadDesignMat(op.join(featdir, 'design.mat'))
+
+ expected = [(featdesign.NormalEV, {'index' : 0, 'origIndex' : 0}),
+ (featdesign.TemporalDerivativeEV, {'index' : 1}),
+ (featdesign.NormalEV, {'index' : 2, 'origIndex' : 1}),
+ (featdesign.TemporalDerivativeEV, {'index' : 3}),
+ (featdesign.VoxelwiseEV, {'index' : 4, 'origIndex' : 2}),
+ (featdesign.MotionParameterEV, {'index' : 5, 'motionIndex' : 0}),
+ (featdesign.MotionParameterEV, {'index' : 6, 'motionIndex' : 1}),
+ (featdesign.MotionParameterEV, {'index' : 7, 'motionIndex' : 2}),
+ (featdesign.MotionParameterEV, {'index' : 8, 'motionIndex' : 3}),
+ (featdesign.MotionParameterEV, {'index' : 9, 'motionIndex' : 4}),
+ (featdesign.MotionParameterEV, {'index' : 10, 'motionIndex' : 5})]
+
+ evs = featdesign.getFirstLevelEVs(featdir, settings, matrix)
+ assert len(evs) == 11
+
+ for i, (evtype, atts) in enumerate(expected):
+
+ assert isinstance(evs[i], evtype)
+ for k, v in atts.items():
+ assert getattr(evs[i], k) == v
+
+
+def test_getFirstLevelEVs_3():
+ featdir = op.join(datadir, '1stlevel_3.feat')
+ settings = featanalysis.loadSettings(featdir)
+ matrix = featdesign.loadDesignMat(op.join(featdir, 'design.mat'))
+
+ expected = [(featdesign.NormalEV, {'index' : 0, 'origIndex' : 0}),
+ (featdesign.TemporalDerivativeEV, {'index' : 1}),
+ (featdesign.NormalEV, {'index' : 2, 'origIndex' : 1}),
+ (featdesign.BasisFunctionEV, {'index' : 3}),
+ (featdesign.BasisFunctionEV, {'index' : 4}),
+ (featdesign.VoxelwiseConfoundEV, {'index' : 5, 'voxIndex' : 0}),
+ (featdesign.MotionParameterEV, {'index' : 6, 'motionIndex' : 0}),
+ (featdesign.MotionParameterEV, {'index' : 7, 'motionIndex' : 1}),
+ (featdesign.MotionParameterEV, {'index' : 8, 'motionIndex' : 2}),
+ (featdesign.MotionParameterEV, {'index' : 9, 'motionIndex' : 3}),
+ (featdesign.MotionParameterEV, {'index' : 10, 'motionIndex' : 4}),
+ (featdesign.MotionParameterEV, {'index' : 11, 'motionIndex' : 5}),
+ (featdesign.MotionParameterEV, {'index' : 12, 'motionIndex' : 6}),
+ (featdesign.MotionParameterEV, {'index' : 13, 'motionIndex' : 7}),
+ (featdesign.MotionParameterEV, {'index' : 14, 'motionIndex' : 8}),
+ (featdesign.MotionParameterEV, {'index' : 15, 'motionIndex' : 9}),
+ (featdesign.MotionParameterEV, {'index' : 16, 'motionIndex' : 10}),
+ (featdesign.MotionParameterEV, {'index' : 17, 'motionIndex' : 11}),
+ (featdesign.MotionParameterEV, {'index' : 18, 'motionIndex' : 12}),
+ (featdesign.MotionParameterEV, {'index' : 19, 'motionIndex' : 13}),
+ (featdesign.MotionParameterEV, {'index' : 20, 'motionIndex' : 14}),
+ (featdesign.MotionParameterEV, {'index' : 21, 'motionIndex' : 15}),
+ (featdesign.MotionParameterEV, {'index' : 22, 'motionIndex' : 16}),
+ (featdesign.MotionParameterEV, {'index' : 23, 'motionIndex' : 17}),
+ (featdesign.MotionParameterEV, {'index' : 24, 'motionIndex' : 18}),
+ (featdesign.MotionParameterEV, {'index' : 25, 'motionIndex' : 19}),
+ (featdesign.MotionParameterEV, {'index' : 26, 'motionIndex' : 20}),
+ (featdesign.MotionParameterEV, {'index' : 27, 'motionIndex' : 21}),
+ (featdesign.MotionParameterEV, {'index' : 28, 'motionIndex' : 22}),
+ (featdesign.MotionParameterEV, {'index' : 29, 'motionIndex' : 23}),
+ (featdesign.ConfoundEV, {'index' : 30, 'confIndex' : 0}),
+ (featdesign.ConfoundEV, {'index' : 31, 'confIndex' : 1})]
+
+
+ evs = featdesign.getFirstLevelEVs(featdir, settings, matrix)
+
+ assert len(evs) == 32
+
+ for i, (evtype, atts) in enumerate(expected):
+
+ print(i, evs[i])
+
+ assert isinstance(evs[i], evtype)
+ for k, v in atts.items():
+ assert getattr(evs[i], k) == v
+
+
+def test_getHigherLevelEVs_1():
+
+ featdir = op.join(datadir, '2ndlevel_1.gfeat')
+ settings = featanalysis.loadSettings(featdir)
+ matrix = featdesign.loadDesignMat(op.join(featdir, 'design.mat'))
+
+ evs = featdesign.getHigherLevelEVs(featdir, settings, matrix)
+
+ assert len(evs) == 1
+ assert isinstance(evs[0], featdesign.NormalEV)
+ assert evs[0].index == 0
+ assert evs[0].origIndex == 0
+
+
+
+
+def test_getHigherLevelEVs_2():
+
+ featdir = op.join(datadir, '2ndlevel_2.gfeat')
+ settings = featanalysis.loadSettings(featdir)
+ matrix = featdesign.loadDesignMat(op.join(featdir, 'design.mat'))
+
+ evs = featdesign.getHigherLevelEVs(featdir, settings, matrix)
+
+ assert len(evs) == 2
+ assert isinstance(evs[0], featdesign.NormalEV)
+ assert evs[0].index == 0
+ assert evs[0].origIndex == 0
+ assert isinstance(evs[1], featdesign.VoxelwiseEV)
+
+
+
+def test_loadDesignMat():
+
+ analyses = ['1stlevel_1.feat', '1stlevel_2.feat', '1stlevel_3.feat',
+ '2ndlevel_1.gfeat', '2ndlevel_2.gfeat']
+ shapes = [(45, 10), (45, 11), (45, 32), (3, 1), (3, 2)]
+
+ for analysis, shape in zip(analyses, shapes):
+ featdir = op.join(datadir, analysis)
+ fname = op.join(featdir, 'design.mat')
+ mat = featdesign.loadDesignMat(fname)
+
+ assert mat.shape == shape
+
+ nonfile = op.join(datadir, 'non-existent-file')
+ badfile = op.join(datadir, '1stlevel_1.feat', 'design.fsf')
+ with pytest.raises(Exception):
+ featdesign.loadDesignMat(nonfile)
+
+ with pytest.raises(Exception):
+ featdesign.loadDesignMat(badfile)
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/absbrainthresh.txt b/tests/testdata/test_feat/1stlevel_1.feat/absbrainthresh.txt
new file mode 100644
index 000000000..69b63cb36
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/absbrainthresh.txt
@@ -0,0 +1 @@
+1000.0
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/cluster_mask_zstat1.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/cluster_mask_zstat1.nii.gz
new file mode 100644
index 000000000..e98358baa
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/cluster_mask_zstat1.nii.gz
@@ -0,0 +1 @@
+./cluster_mask_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/cluster_mask_zstat2.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/cluster_mask_zstat2.nii.gz
new file mode 100644
index 000000000..57069c3db
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/cluster_mask_zstat2.nii.gz
@@ -0,0 +1 @@
+./cluster_mask_zstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/cluster_zstat1.txt b/tests/testdata/test_feat/1stlevel_1.feat/cluster_zstat1.txt
new file mode 100644
index 000000000..a33800ef0
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/cluster_zstat1.txt
@@ -0,0 +1,2 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (vox) Z-MAX Y (vox) Z-MAX Z (vox) Z-COG X (vox) Z-COG Y (vox) Z-COG Z (vox) COPE-MAX COPE-MAX X (vox) COPE-MAX Y (vox) COPE-MAX Z (vox) COPE-MEAN
+1 296 1.79e-27 26.7 6.03 34 10 1 31.4 12.3 1.72 612 34 10 1 143
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/cluster_zstat1_std.txt b/tests/testdata/test_feat/1stlevel_1.feat/cluster_zstat1_std.txt
new file mode 100644
index 000000000..b79e659e0
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/cluster_zstat1_std.txt
@@ -0,0 +1,2 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (mm) Z-MAX Y (mm) Z-MAX Z (mm) Z-COG X (mm) Z-COG Y (mm) Z-COG Z (mm) COPE-MAX COPE-MAX X (mm) COPE-MAX Y (mm) COPE-MAX Z (mm) COPE-MEAN
+1 296 1.79e-27 26.7 6.03 -8.41 -89.9 -2.42 3.01 -81.2 2.15 612 -8.41 -89.9 -2.42 143
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/cluster_zstat2.txt b/tests/testdata/test_feat/1stlevel_1.feat/cluster_zstat2.txt
new file mode 100644
index 000000000..5890c1ea9
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/cluster_zstat2.txt
@@ -0,0 +1,6 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (vox) Z-MAX Y (vox) Z-MAX Z (vox) Z-COG X (vox) Z-COG Y (vox) Z-COG Z (vox) COPE-MAX COPE-MAX X (vox) COPE-MAX Y (vox) COPE-MAX Z (vox) COPE-MEAN
+5 271 7.77e-26 25.1 6.27 47 27 2 44.3 29.7 1.72 468 46 25 3 113
+4 169 1.53e-18 17.8 5.75 20 32 2 23.9 28.4 1.45 304 19 31 1 100
+3 24 0.000341 3.47 4.58 17 39 3 18.8 38.3 2.23 157 22 39 0 62
+2 19 0.00202 2.69 4.88 25 44 0 26.3 42.1 0 197 26 43 0 118
+1 13 0.0213 1.67 3.73 26 19 2 26.6 21.3 1.85 97.1 26 19 2 69.2
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/cluster_zstat2_std.txt b/tests/testdata/test_feat/1stlevel_1.feat/cluster_zstat2_std.txt
new file mode 100644
index 000000000..935613370
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/cluster_zstat2_std.txt
@@ -0,0 +1,6 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (mm) Z-MAX Y (mm) Z-MAX Z (mm) Z-COG X (mm) Z-COG Y (mm) Z-COG Z (mm) COPE-MAX COPE-MAX X (mm) COPE-MAX Y (mm) COPE-MAX Z (mm) COPE-MEAN
+5 271 7.77e-26 25.1 6.27 -63.6 -21.8 4 -51.3 -11.2 1.84 468 -59.6 -29.9 10.8 113
+4 169 1.53e-18 17.8 5.75 55.4 -4.27 2.45 37.9 -18.1 -0.842 304 59.8 -8.19 -4.25 100
+3 24 0.000341 3.47 4.58 69.3 23 8.65 61.3 20.6 3.62 157 47.6 23.8 -11.3 62
+2 19 0.00202 2.69 4.88 35 43.8 -11.4 29.3 36.5 -11.2 197 30.5 39.9 -11.3 118
+1 13 0.0213 1.67 3.73 27.6 -55.1 3.43 25.3 -46.1 2.31 97.1 27.6 -55.1 3.43 69.2
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/confoundevs.txt b/tests/testdata/test_feat/1stlevel_1.feat/confoundevs.txt
new file mode 100644
index 000000000..449893f03
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/confoundevs.txt
@@ -0,0 +1,45 @@
+0 -0.000264589 0.000183168 0.0217952 -0.0424268 -0.0254739
+0.00070214 -0.000526306 0.000397315 0.0337431 -0.0193044 -0.0283846
+0.000498598 -0.000809397 0 0.0395197 -0.0131337 -0.0452989
+0.000579988 -0.000221715 8.21135e-05 0.0258738 0.0348006 -0.0129759
+0.000381893 -0.000506425 0 0.0167397 0.0709324 -0.0453051
+0.000388283 -0.000809397 0 0.0215977 -0.00161064 -0.0651091
+0.00028076 -0.000604851 0 0.0241783 -0.0191748 -0.0536596
+0 -0.000155116 0 0.0128543 -0.0191748 -0.0452136
+0.000384396 -7.84812e-05 0 0.00734347 0.021921 -0.0415896
+0.000321737 -0.000393791 0 0.00375303 -0.0230888 -0.0415753
+0 0.000111998 0 -0.000902616 0.0727951 -0.0415698
+0.000215285 -0.000136386 0 -0.00282623 -0.0354858 -0.0415777
+0.000261125 -9.06374e-05 0 0.000629449 -0.0731166 -0.0415577
+0.000486193 -0.000133878 0 0.00314586 0.000714271 -0.0452225
+5.40494e-05 -2.19574e-05 0 0.00489143 -0.0056629 0.0214406
+0.000459199 0.0004553 -0.000374243 -0.031751 -0.075842 0.0214637
+0.000347496 0.000667638 -0.000316943 -0.0241288 -0.0550503 0.052287
+0.000153477 -2.19574e-05 -0.000196968 -0.0113862 -0.0806421 0.0129587
+0.000459199 0.000326759 -0.000257516 -0.018521 -0.0673269 0.0310445
+-0.00010422 -0.000709562 -0.000551959 -0.0343409 -0.0673334 0.0190272
+-4.78084e-05 -0.000709562 -0.000167275 -0.00978313 -0.0746766 -0.00060184
+0.000459199 -0.000265855 -8.30117e-05 -0.00650845 -0.0269721 -0.00502952
+-7.98919e-06 -0.000265855 9.6357e-06 -0.00184664 0.000679341 0.000189414
+8.2695e-05 7.07945e-05 9.6357e-06 0.00353303 -0.0269518 -0.00502371
+0.000151626 -0.000265855 -9.28369e-05 -0.00184551 -0.0269531 -0.012929
+0.000381967 -0.000265855 -4.45114e-07 0.00220544 -0.0269575 -0.00503093
+0.000198744 0.000212547 -4.45114e-07 -0.00184187 -0.0334269 0.0113516
+-7.04892e-05 -0.000265855 -0.000111352 -0.00183592 -0.0434752 -0.0156616
+0.000118964 -0.000265855 -4.45114e-07 -0.00184005 -0.0223293 -0.00503604
+0.000458349 -0.000265855 -4.45114e-07 0.0217036 -0.00490347 -0.00509171
+0.000571088 0.000180565 -0.000332005 0.0027614 -0.0223381 -0.00508851
+0.000362825 0.000104016 -4.45114e-07 -0.0050014 -0.0505434 -0.00502399
+0.00036589 -7.31897e-05 3.36877e-05 0.00123403 -0.0879296 -0.0285882
+0.000133338 -0.000211688 -0.000144184 -0.00941317 -0.0856607 -0.00688414
+0.000177832 0.000215669 -0.000185755 -0.0128922 -0.0856624 0.0114737
+-0.000130942 -8.65635e-05 -1.11437e-05 -0.0021262 -0.0156379 -0.0286166
+4.3281e-05 0.000387841 -0.00013645 -0.00962933 -0.0459189 0.0222458
+-2.70728e-05 0.000729944 -0.000153679 -0.0179646 -0.0459249 0.0222224
+4.3281e-05 0.000247161 -0.000452448 -0.0306068 -0.0621157 0.00586292
+0.000128363 0.000237582 -0.00027413 -0.0180748 -0.065616 -0.00337989
+4.3281e-05 0.000239086 -0.000195342 -0.018503 -0.0773948 -0.0033793
+0.00038521 0.000105191 -0.000219467 -0.0197604 -0.0525178 -0.00335665
+0.000186606 -0.000411083 -0.000184065 -0.0228653 -0.059242 -0.00333508
+0.000446345 -0.000305936 -0.000125382 -0.0135317 -0.0429802 0.00123055
+0.000197933 -0.000176617 -0.000408 -0.0193382 -0.0681025 1.65356e-05
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/design.con b/tests/testdata/test_feat/1stlevel_1.feat/design.con
new file mode 100644
index 000000000..24fe7d4e9
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/design.con
@@ -0,0 +1,10 @@
+/ContrastName1 auditory
+/ContrastName2 visual
+/NumWaves 10
+/NumContrasts 2
+/PPheights 1.470856e+00 1.389712e+00
+/RequiredEffect 3.840 3.963
+
+/Matrix
+1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
+0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/design.frf b/tests/testdata/test_feat/1stlevel_1.feat/design.frf
new file mode 100644
index 000000000..6ac64a71f
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/design.frf
@@ -0,0 +1,10 @@
+1
+1
+2
+2
+3
+3
+3
+3
+3
+3
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/design.fsf b/tests/testdata/test_feat/1stlevel_1.feat/design.fsf
new file mode 100644
index 000000000..f2ac0328d
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/design.fsf
@@ -0,0 +1,515 @@
+
+# FEAT version number
+set fmri(version) 6.00
+
+# Are we in MELODIC?
+set fmri(inmelodic) 0
+
+# Analysis level
+# 1 : First-level analysis
+# 2 : Higher-level analysis
+set fmri(level) 1
+
+# Which stages to run
+# 0 : No first-level analysis (registration and/or group stats only)
+# 7 : Full first-level analysis
+# 1 : Pre-processing
+# 2 : Statistics
+set fmri(analysis) 7
+
+# Use relative filenames
+set fmri(relative_yn) 0
+
+# Balloon help
+set fmri(help_yn) 1
+
+# Run Featwatcher
+set fmri(featwatcher_yn) 1
+
+# Cleanup first-level standard-space images
+set fmri(sscleanup_yn) 0
+
+# Output directory
+set fmri(outputdir) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri"
+
+# TR(s)
+set fmri(tr) 3.000000
+
+# Total volumes
+set fmri(npts) 45
+
+# Delete volumes
+set fmri(ndelete) 0
+
+# Perfusion tag/control order
+set fmri(tagfirst) 1
+
+# Number of first-level analyses
+set fmri(multiple) 3
+
+# Higher-level input type
+# 1 : Inputs are lower-level FEAT directories
+# 2 : Inputs are cope images from FEAT directories
+set fmri(inputtype) 2
+
+# Carry out pre-stats processing?
+set fmri(filtering_yn) 1
+
+# Brain/background threshold, %
+set fmri(brain_thresh) 10
+
+# Critical z for design efficiency calculation
+set fmri(critical_z) 5.3
+
+# Noise level
+set fmri(noise) 0.66
+
+# Noise AR(1)
+set fmri(noisear) 0.34
+
+# Motion correction
+# 0 : None
+# 1 : MCFLIRT
+set fmri(mc) 1
+
+# Spin-history (currently obsolete)
+set fmri(sh_yn) 0
+
+# B0 fieldmap unwarping?
+set fmri(regunwarp_yn) 0
+
+# EPI dwell time (ms)
+set fmri(dwell) 0.7
+
+# EPI TE (ms)
+set fmri(te) 35
+
+# % Signal loss threshold
+set fmri(signallossthresh) 10
+
+# Unwarp direction
+set fmri(unwarp_dir) y-
+
+# Slice timing correction
+# 0 : None
+# 1 : Regular up (0, 1, 2, 3, ...)
+# 2 : Regular down
+# 3 : Use slice order file
+# 4 : Use slice timings file
+# 5 : Interleaved (0, 2, 4 ... 1, 3, 5 ... )
+set fmri(st) 0
+
+# Slice timings file
+set fmri(st_file) ""
+
+# BET brain extraction
+set fmri(bet_yn) 1
+
+# Spatial smoothing FWHM (mm)
+set fmri(smooth) 5
+
+# Intensity normalization
+set fmri(norm_yn) 0
+
+# Perfusion subtraction
+set fmri(perfsub_yn) 0
+
+# Highpass temporal filtering
+set fmri(temphp_yn) 1
+
+# Lowpass temporal filtering
+set fmri(templp_yn) 0
+
+# MELODIC ICA data exploration
+set fmri(melodic_yn) 0
+
+# Carry out main stats?
+set fmri(stats_yn) 1
+
+# Carry out prewhitening?
+set fmri(prewhiten_yn) 1
+
+# Add motion parameters to model
+# 0 : No
+# 1 : Yes
+set fmri(motionevs) 1
+set fmri(motionevsbeta) ""
+set fmri(scriptevsbeta) ""
+
+# Robust outlier detection in FLAME?
+set fmri(robust_yn) 0
+
+# Higher-level modelling
+# 3 : Fixed effects
+# 0 : Mixed Effects: Simple OLS
+# 2 : Mixed Effects: FLAME 1
+# 1 : Mixed Effects: FLAME 1+2
+set fmri(mixed_yn) 2
+
+# Number of EVs
+set fmri(evs_orig) 2
+set fmri(evs_real) 4
+set fmri(evs_vox) 0
+
+# Number of contrasts
+set fmri(ncon_orig) 2
+set fmri(ncon_real) 2
+
+# Number of F-tests
+set fmri(nftests_orig) 0
+set fmri(nftests_real) 0
+
+# Add constant column to design matrix? (obsolete)
+set fmri(constcol) 0
+
+# Carry out post-stats steps?
+set fmri(poststats_yn) 1
+
+# Pre-threshold masking?
+set fmri(threshmask) ""
+
+# Thresholding
+# 0 : None
+# 1 : Uncorrected
+# 2 : Voxel
+# 3 : Cluster
+set fmri(thresh) 3
+
+# P threshold
+set fmri(prob_thresh) 0.05
+
+# Z threshold
+set fmri(z_thresh) 2.3
+
+# Z min/max for colour rendering
+# 0 : Use actual Z min/max
+# 1 : Use preset Z min/max
+set fmri(zdisplay) 0
+
+# Z min in colour rendering
+set fmri(zmin) 2
+
+# Z max in colour rendering
+set fmri(zmax) 8
+
+# Colour rendering type
+# 0 : Solid blobs
+# 1 : Transparent blobs
+set fmri(rendertype) 1
+
+# Background image for higher-level stats overlays
+# 1 : Mean highres
+# 2 : First highres
+# 3 : Mean functional
+# 4 : First functional
+# 5 : Standard space template
+set fmri(bgimage) 1
+
+# Create time series plots
+set fmri(tsplot_yn) 1
+
+# Registration to initial structural
+set fmri(reginitial_highres_yn) 1
+
+# Search space for registration to initial structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reginitial_highres_search) 90
+
+# Degrees of Freedom for registration to initial structural
+set fmri(reginitial_highres_dof) 3
+
+# Registration to main structural
+set fmri(reghighres_yn) 1
+
+# Search space for registration to main structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reghighres_search) 90
+
+# Degrees of Freedom for registration to main structural
+set fmri(reghighres_dof) BBR
+
+# Registration to standard image?
+set fmri(regstandard_yn) 1
+
+# Use alternate reference images?
+set fmri(alternateReference_yn) 0
+
+# Standard image
+set fmri(regstandard) "/Users/paulmc/fsl_builds/fsl-5_0_9/data/standard/MNI152_T1_2mm_brain"
+
+# Search space for registration to standard space
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(regstandard_search) 90
+
+# Degrees of Freedom for registration to standard space
+set fmri(regstandard_dof) 12
+
+# Do nonlinear registration from structural to standard space?
+set fmri(regstandard_nonlinear_yn) 0
+
+# Control nonlinear warp field resolution
+set fmri(regstandard_nonlinear_warpres) 10
+
+# High pass filter cutoff
+set fmri(paradigm_hp) 100
+
+# Total voxels
+set fmri(totalVoxels) 921600
+
+
+# Number of lower-level copes feeding into higher-level analysis
+set fmri(ncopeinputs) 0
+
+# 4D AVW data or FEAT directory (1)
+set feat_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri1"
+
+# 4D AVW data or FEAT directory (2)
+set feat_files(2) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri2"
+
+# 4D AVW data or FEAT directory (3)
+set feat_files(3) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri3"
+
+# Add confound EVs text file
+set fmri(confoundevs) 0
+
+# Session's structural image for analysis 1
+set initial_highres_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/epiwholehead"
+
+# Session's structural image for analysis 2
+set initial_highres_files(2) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/epiwholehead"
+
+# Session's structural image for analysis 3
+set initial_highres_files(3) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/epiwholehead"
+
+# Subject's structural image for analysis 1
+set highres_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/structural_brain"
+
+# Subject's structural image for analysis 2
+set highres_files(2) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/structural_brain"
+
+# Subject's structural image for analysis 3
+set highres_files(3) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/structural_brain"
+
+# EV 1 title
+set fmri(evtitle1) "visual"
+
+# Basic waveform shape (EV 1)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape1) 0
+
+# Convolution (EV 1)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve1) 2
+
+# Convolve phase (EV 1)
+set fmri(convolve_phase1) 0
+
+# Apply temporal filtering (EV 1)
+set fmri(tempfilt_yn1) 1
+
+# Add temporal derivative (EV 1)
+set fmri(deriv_yn1) 1
+
+# Skip (EV 1)
+set fmri(skip1) 0
+
+# Off (EV 1)
+set fmri(off1) 30
+
+# On (EV 1)
+set fmri(on1) 30
+
+# Phase (EV 1)
+set fmri(phase1) 30
+
+# Stop (EV 1)
+set fmri(stop1) -1
+
+# Gamma sigma (EV 1)
+set fmri(gammasigma1) 3
+
+# Gamma delay (EV 1)
+set fmri(gammadelay1) 6
+
+# Orthogonalise EV 1 wrt EV 0
+set fmri(ortho1.0) 0
+
+# Orthogonalise EV 1 wrt EV 1
+set fmri(ortho1.1) 0
+
+# Orthogonalise EV 1 wrt EV 2
+set fmri(ortho1.2) 0
+
+# EV 2 title
+set fmri(evtitle2) "auditory"
+
+# Basic waveform shape (EV 2)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape2) 0
+
+# Convolution (EV 2)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve2) 2
+
+# Convolve phase (EV 2)
+set fmri(convolve_phase2) 0
+
+# Apply temporal filtering (EV 2)
+set fmri(tempfilt_yn2) 1
+
+# Add temporal derivative (EV 2)
+set fmri(deriv_yn2) 1
+
+# Skip (EV 2)
+set fmri(skip2) 0
+
+# Off (EV 2)
+set fmri(off2) 45
+
+# On (EV 2)
+set fmri(on2) 45
+
+# Phase (EV 2)
+set fmri(phase2) 45
+
+# Stop (EV 2)
+set fmri(stop2) -1
+
+# Gamma sigma (EV 2)
+set fmri(gammasigma2) 3
+
+# Gamma delay (EV 2)
+set fmri(gammadelay2) 6
+
+# Orthogonalise EV 2 wrt EV 0
+set fmri(ortho2.0) 0
+
+# Orthogonalise EV 2 wrt EV 1
+set fmri(ortho2.1) 0
+
+# Orthogonalise EV 2 wrt EV 2
+set fmri(ortho2.2) 0
+
+# Contrast & F-tests mode
+# real : control real EVs
+# orig : control original EVs
+set fmri(con_mode_old) orig
+set fmri(con_mode) orig
+
+# Display images for contrast_real 1
+set fmri(conpic_real.1) 1
+
+# Title for contrast_real 1
+set fmri(conname_real.1) "auditory"
+
+# Real contrast_real vector 1 element 1
+set fmri(con_real1.1) 1
+
+# Real contrast_real vector 1 element 2
+set fmri(con_real1.2) 0
+
+# Real contrast_real vector 1 element 3
+set fmri(con_real1.3) 0
+
+# Real contrast_real vector 1 element 4
+set fmri(con_real1.4) 0
+
+# Display images for contrast_real 2
+set fmri(conpic_real.2) 1
+
+# Title for contrast_real 2
+set fmri(conname_real.2) "visual"
+
+# Real contrast_real vector 2 element 1
+set fmri(con_real2.1) 0
+
+# Real contrast_real vector 2 element 2
+set fmri(con_real2.2) 0
+
+# Real contrast_real vector 2 element 3
+set fmri(con_real2.3) 1
+
+# Real contrast_real vector 2 element 4
+set fmri(con_real2.4) 0
+
+# Display images for contrast_orig 1
+set fmri(conpic_orig.1) 1
+
+# Title for contrast_orig 1
+set fmri(conname_orig.1) "auditory"
+
+# Real contrast_orig vector 1 element 1
+set fmri(con_orig1.1) 1
+
+# Real contrast_orig vector 1 element 2
+set fmri(con_orig1.2) 0
+
+# Display images for contrast_orig 2
+set fmri(conpic_orig.2) 1
+
+# Title for contrast_orig 2
+set fmri(conname_orig.2) "visual"
+
+# Real contrast_orig vector 2 element 1
+set fmri(con_orig2.1) 0
+
+# Real contrast_orig vector 2 element 2
+set fmri(con_orig2.2) 1
+
+# Contrast masking - use >0 instead of thresholding?
+set fmri(conmask_zerothresh_yn) 0
+
+# Mask real contrast/F-test 1 with real contrast/F-test 2?
+set fmri(conmask1_2) 0
+
+# Mask real contrast/F-test 2 with real contrast/F-test 1?
+set fmri(conmask2_1) 0
+
+# Do contrast masking at all?
+set fmri(conmask1_1) 0
+
+##########################################################
+# Now options that don't appear in the GUI
+
+# Alternative (to BETting) mask image
+set fmri(alternative_mask) ""
+
+# Initial structural space registration initialisation transform
+set fmri(init_initial_highres) ""
+
+# Structural space registration initialisation transform
+set fmri(init_highres) ""
+
+# Standard space registration initialisation transform
+set fmri(init_standard) ""
+
+# For full FEAT analysis: overwrite existing .feat output dir?
+set fmri(overwrite_yn) 0
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/design.mat b/tests/testdata/test_feat/1stlevel_1.feat/design.mat
new file mode 100644
index 000000000..efe12825c
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/design.mat
@@ -0,0 +1,50 @@
+/NumWaves 10
+/NumPoints 45
+/PPheights 1.000000e+00 7.177538e-01 1.000000e+00 7.176320e-01 8.330820e-04 1.539341e-03 9.492741e-04 7.386060e-02 1.607247e-01 1.173961e-01
+
+/Matrix
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new file mode 100644
index 000000000..19c7bdba7
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new file mode 100644
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new file mode 100644
index 000000000..b0fb8bbd1
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+++ b/tests/testdata/test_feat/1stlevel_1.feat/example_func.nii.gz
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diff --git a/tests/testdata/test_feat/1stlevel_1.feat/filtered_func_data.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/filtered_func_data.nii.gz
new file mode 100644
index 000000000..a7aa69e43
--- /dev/null
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diff --git a/tests/testdata/test_feat/1stlevel_1.feat/lmax_zstat1.txt b/tests/testdata/test_feat/1stlevel_1.feat/lmax_zstat1.txt
new file mode 100644
index 000000000..d7180f3c0
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/lmax_zstat1.txt
@@ -0,0 +1,7 @@
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diff --git a/tests/testdata/test_feat/1stlevel_1.feat/lmax_zstat1_std.txt b/tests/testdata/test_feat/1stlevel_1.feat/lmax_zstat1_std.txt
new file mode 100644
index 000000000..8ce7c23ad
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/lmax_zstat1_std.txt
@@ -0,0 +1,7 @@
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diff --git a/tests/testdata/test_feat/1stlevel_1.feat/lmax_zstat2.txt b/tests/testdata/test_feat/1stlevel_1.feat/lmax_zstat2.txt
new file mode 100644
index 000000000..b19b375f0
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/lmax_zstat2.txt
@@ -0,0 +1,22 @@
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diff --git a/tests/testdata/test_feat/1stlevel_1.feat/lmax_zstat2_std.txt b/tests/testdata/test_feat/1stlevel_1.feat/lmax_zstat2_std.txt
new file mode 100644
index 000000000..a1d7f248f
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/lmax_zstat2_std.txt
@@ -0,0 +1,22 @@
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diff --git a/tests/testdata/test_feat/1stlevel_1.feat/mask.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/mask.nii.gz
new file mode 100644
index 000000000..6ded8cbea
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/mask.nii.gz
@@ -0,0 +1 @@
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new file mode 100644
index 000000000..ebc952a3a
--- /dev/null
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diff --git a/tests/testdata/test_feat/1stlevel_1.feat/mc/prefiltered_func_data_mcf.mat/MAT_0001 b/tests/testdata/test_feat/1stlevel_1.feat/mc/prefiltered_func_data_mcf.mat/MAT_0001
new file mode 100644
index 000000000..a5dc87c3e
--- /dev/null
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new file mode 100644
index 000000000..487b34bac
--- /dev/null
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diff --git a/tests/testdata/test_feat/1stlevel_1.feat/mc/prefiltered_func_data_mcf.mat/MAT_0003 b/tests/testdata/test_feat/1stlevel_1.feat/mc/prefiltered_func_data_mcf.mat/MAT_0003
new file mode 100644
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--- /dev/null
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new file mode 100644
index 000000000..ef58d994a
--- /dev/null
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new file mode 100644
index 000000000..8406afad0
--- /dev/null
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new file mode 100644
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new file mode 100644
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new file mode 100644
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--- /dev/null
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new file mode 100644
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--- /dev/null
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new file mode 100644
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--- /dev/null
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new file mode 100644
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new file mode 100644
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--- /dev/null
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new file mode 100644
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new file mode 100644
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new file mode 100644
index 000000000..648e200a3
--- /dev/null
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new file mode 100644
index 000000000..100f629cf
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/mc/prefiltered_func_data_mcf_rel_mean.rms
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new file mode 100644
index 000000000..2f367aa5b
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/mean_func.nii.gz
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new file mode 100644
index 000000000..708b372aa
--- /dev/null
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new file mode 100644
index 000000000..1143554ba
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index 000000000..e06698e6d
--- /dev/null
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new file mode 100644
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index 000000000..588f53371
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index 000000000..57838cbd6
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new file mode 100644
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index 000000000..ca1359757
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+./rendered_thresh_zstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/cope1.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/cope1.nii.gz
new file mode 100644
index 000000000..d893a878b
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/cope1.nii.gz
@@ -0,0 +1 @@
+./stats/cope1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/cope2.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/cope2.nii.gz
new file mode 100644
index 000000000..8c1b3322d
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/cope2.nii.gz
@@ -0,0 +1 @@
+./stats/cope2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/dof b/tests/testdata/test_feat/1stlevel_1.feat/stats/dof
new file mode 100644
index 000000000..f6cfba66e
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/dof
@@ -0,0 +1 @@
+35
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/logfile b/tests/testdata/test_feat/1stlevel_1.feat/stats/logfile
new file mode 100644
index 000000000..81c832a19
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/logfile
@@ -0,0 +1,3 @@
+/Users/paulmc/fsl_builds/fsl-5_0_9/bin/film_gls --in=filtered_func_data --rn=stats --pd=design.mat --thr=1000.0 --sa --ms=5 --con=design.con
+---------------------------------------------
+
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/pe1.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe1.nii.gz
new file mode 100644
index 000000000..2339a74dc
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe1.nii.gz
@@ -0,0 +1 @@
+./stats/pe1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/pe10.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe10.nii.gz
new file mode 100644
index 000000000..351a40d68
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe10.nii.gz
@@ -0,0 +1 @@
+./stats/pe10.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/pe2.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe2.nii.gz
new file mode 100644
index 000000000..5f437afbf
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe2.nii.gz
@@ -0,0 +1 @@
+./stats/pe2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/pe3.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe3.nii.gz
new file mode 100644
index 000000000..8989fafe9
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe3.nii.gz
@@ -0,0 +1 @@
+./stats/pe3.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/pe4.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe4.nii.gz
new file mode 100644
index 000000000..3a9e39de8
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe4.nii.gz
@@ -0,0 +1 @@
+./stats/pe4.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/pe5.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe5.nii.gz
new file mode 100644
index 000000000..1637cac32
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe5.nii.gz
@@ -0,0 +1 @@
+./stats/pe5.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/pe6.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe6.nii.gz
new file mode 100644
index 000000000..d0baf6910
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe6.nii.gz
@@ -0,0 +1 @@
+./stats/pe6.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/pe7.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe7.nii.gz
new file mode 100644
index 000000000..c2ec876e4
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe7.nii.gz
@@ -0,0 +1 @@
+./stats/pe7.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/pe8.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe8.nii.gz
new file mode 100644
index 000000000..649619a80
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe8.nii.gz
@@ -0,0 +1 @@
+./stats/pe8.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/pe9.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe9.nii.gz
new file mode 100644
index 000000000..0e7e6ac5e
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/pe9.nii.gz
@@ -0,0 +1 @@
+./stats/pe9.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/res4d.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/res4d.nii.gz
new file mode 100644
index 000000000..977739c60
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/res4d.nii.gz
@@ -0,0 +1 @@
+./stats/res4d.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/sigmasquareds.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/sigmasquareds.nii.gz
new file mode 100644
index 000000000..fff3f4a70
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/sigmasquareds.nii.gz
@@ -0,0 +1 @@
+./stats/sigmasquareds.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/smoothness b/tests/testdata/test_feat/1stlevel_1.feat/stats/smoothness
new file mode 100644
index 000000000..5d43660f5
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/smoothness
@@ -0,0 +1,3 @@
+DLH 1.8921
+VOLUME 5428
+RESELS 2.4675
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/threshac1.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/threshac1.nii.gz
new file mode 100644
index 000000000..783a06e93
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/threshac1.nii.gz
@@ -0,0 +1 @@
+./stats/threshac1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/tstat1.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/tstat1.nii.gz
new file mode 100644
index 000000000..4be0a9559
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/tstat1.nii.gz
@@ -0,0 +1 @@
+./stats/tstat1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/tstat2.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/tstat2.nii.gz
new file mode 100644
index 000000000..401803626
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/tstat2.nii.gz
@@ -0,0 +1 @@
+./stats/tstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/varcope1.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/varcope1.nii.gz
new file mode 100644
index 000000000..2ffc7b105
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/varcope1.nii.gz
@@ -0,0 +1 @@
+./stats/varcope1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/varcope2.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/varcope2.nii.gz
new file mode 100644
index 000000000..29e4117b7
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/varcope2.nii.gz
@@ -0,0 +1 @@
+./stats/varcope2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/zstat1.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/zstat1.nii.gz
new file mode 100644
index 000000000..46ad8b415
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/zstat1.nii.gz
@@ -0,0 +1 @@
+./stats/zstat1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/stats/zstat2.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/stats/zstat2.nii.gz
new file mode 100644
index 000000000..ebd81b58f
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/stats/zstat2.nii.gz
@@ -0,0 +1 @@
+./stats/zstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/thresh_zstat1.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/thresh_zstat1.nii.gz
new file mode 100644
index 000000000..c4bd92498
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/thresh_zstat1.nii.gz
@@ -0,0 +1 @@
+./thresh_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/thresh_zstat1.vol b/tests/testdata/test_feat/1stlevel_1.feat/thresh_zstat1.vol
new file mode 100644
index 000000000..999779ae9
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/thresh_zstat1.vol
@@ -0,0 +1 @@
+5428
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/thresh_zstat2.nii.gz b/tests/testdata/test_feat/1stlevel_1.feat/thresh_zstat2.nii.gz
new file mode 100644
index 000000000..3cca62c63
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/thresh_zstat2.nii.gz
@@ -0,0 +1 @@
+./thresh_zstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_1.feat/thresh_zstat2.vol b/tests/testdata/test_feat/1stlevel_1.feat/thresh_zstat2.vol
new file mode 100644
index 000000000..999779ae9
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_1.feat/thresh_zstat2.vol
@@ -0,0 +1 @@
+5428
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/absbrainthresh.txt b/tests/testdata/test_feat/1stlevel_2.feat/absbrainthresh.txt
new file mode 100644
index 000000000..69b63cb36
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/absbrainthresh.txt
@@ -0,0 +1 @@
+1000.0
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/cluster_mask_zstat1.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/cluster_mask_zstat1.nii.gz
new file mode 100644
index 000000000..e98358baa
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/cluster_mask_zstat1.nii.gz
@@ -0,0 +1 @@
+./cluster_mask_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/cluster_mask_zstat2.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/cluster_mask_zstat2.nii.gz
new file mode 100644
index 000000000..57069c3db
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/cluster_mask_zstat2.nii.gz
@@ -0,0 +1 @@
+./cluster_mask_zstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/cluster_zstat1.txt b/tests/testdata/test_feat/1stlevel_2.feat/cluster_zstat1.txt
new file mode 100644
index 000000000..bb1688fc6
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/cluster_zstat1.txt
@@ -0,0 +1,3 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (vox) Z-MAX Y (vox) Z-MAX Z (vox) Z-COG X (vox) Z-COG Y (vox) Z-COG Z (vox) COPE-MAX COPE-MAX X (vox) COPE-MAX Y (vox) COPE-MAX Z (vox) COPE-MEAN
+2 355 2.41e-34 33.6 5.91 34 10 1 31.6 12.4 1.72 593 34 10 1 133
+1 28 2.94e-05 4.53 3.44 28 25 3 29 26.3 2.86 257 32 28 4 87.1
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/cluster_zstat1_std.txt b/tests/testdata/test_feat/1stlevel_2.feat/cluster_zstat1_std.txt
new file mode 100644
index 000000000..22fe4708a
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/cluster_zstat1_std.txt
@@ -0,0 +1,3 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (mm) Z-MAX Y (mm) Z-MAX Z (mm) Z-COG X (mm) Z-COG Y (mm) Z-COG Z (mm) COPE-MAX COPE-MAX X (mm) COPE-MAX Y (mm) COPE-MAX Z (mm) COPE-MEAN
+2 355 2.41e-34 33.6 5.91 -8.41 -89.9 -2.34 2.18 -80.6 2.28 593 -8.41 -89.9 -2.34 133
+1 28 2.94e-05 4.53 3.44 19.4 -31.4 10 15 -26 9.05 257 2.11 -19.3 16.7 87.1
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/cluster_zstat2.txt b/tests/testdata/test_feat/1stlevel_2.feat/cluster_zstat2.txt
new file mode 100644
index 000000000..947357ea5
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/cluster_zstat2.txt
@@ -0,0 +1,3 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (vox) Z-MAX Y (vox) Z-MAX Z (vox) Z-COG X (vox) Z-COG Y (vox) Z-COG Z (vox) COPE-MAX COPE-MAX X (vox) COPE-MAX Y (vox) COPE-MAX Z (vox) COPE-MEAN
+2 530 2.8e-45 44.5 6.1 47 27 2 37.6 29.5 1.64 439 46 25 3 95
+1 30 1.45e-05 4.84 4.7 27 42 0 26.1 42.2 0 186 25 44 0 109
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/cluster_zstat2_std.txt b/tests/testdata/test_feat/1stlevel_2.feat/cluster_zstat2_std.txt
new file mode 100644
index 000000000..d2c7546eb
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/cluster_zstat2_std.txt
@@ -0,0 +1,3 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (mm) Z-MAX Y (mm) Z-MAX Z (mm) Z-COG X (mm) Z-COG Y (mm) Z-COG Z (mm) COPE-MAX COPE-MAX X (mm) COPE-MAX Y (mm) COPE-MAX Z (mm) COPE-MEAN
+2 530 2.8e-45 44.5 6.1 -63.6 -21.8 4.08 -21.9 -12.7 1.08 439 -59.6 -29.9 10.9 95
+1 30 1.45e-05 4.84 4.7 26 36 -11.1 30.1 36.9 -11.2 186 35 43.8 -11.3 109
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/confoundevs.txt b/tests/testdata/test_feat/1stlevel_2.feat/confoundevs.txt
new file mode 100644
index 000000000..5181d8e24
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/confoundevs.txt
@@ -0,0 +1,45 @@
+0.000303952 -0.000297053 0.000193907 0.0218541 -0.0443158 -0.0366471
+0.000811876 -0.000815632 0.000623843 0.0366495 -0.0230403 -0.0298914
+0.000693817 -0.000815632 0 0.040386 -0.0131664 -0.0226266
+0.000511907 -0.000208093 0 0.0243109 0.0358388 -0.0145418
+0.000659269 -0.000815632 0 0.0156305 0.0728754 -0.046388
+0.000567123 -0.000815632 0 0.0214912 -0.0016908 -0.0648964
+0.000530161 -0.000815632 0 0.0278986 -0.0187562 -0.0530222
+0 -0.000131815 0 0.0124423 -0.0187562 -0.0621235
+0.000576842 -5.01211e-05 0 0.00734382 0.0220558 -0.0396869
+0.000403254 -0.000327643 -0.000102093 0.00395935 -0.0187529 -0.0396589
+-6.3064e-05 -0.000327643 0 -0.00167947 0.0699847 -0.0396518
+0.000368784 -0.000327643 2.64698e-23 -0.00167947 -0.0356566 -0.0281413
+0.000200489 -0.000327643 0 -0.00167947 -0.0741883 -0.0396405
+0.00049913 -0.000196967 0 -0.00167957 0.00482878 -0.0396549
+0 -0.000327643 0 0.0147763 -0.00415845 0.0047113
+0.000479488 0.000190926 -0.000375111 -0.0242924 -0.0868408 0.0349901
+0.000387015 0.000616553 -0.000312203 -0.0243052 -0.0538302 0.0349638
+-2.64698e-23 -0.000563035 -0.000306591 -0.0243039 -0.0638429 0.00966909
+0.000578582 0.000297736 -0.000259412 -0.0243205 -0.06383 0.0349991
+0 -0.000171752 -0.000213376 -0.0115954 -0.0638442 0.0237956
+1.32349e-23 -0.000435903 -0.000248484 -0.0147358 -0.0764502 0.00564598
+0.000255907 -3.23026e-05 -8.50082e-06 -0.00641835 -0.0369308 0.00913675
+-0.000140277 -4.85486e-05 -8.50082e-06 -0.000366427 0.00507539 0.00913063
+0.000111398 -4.85486e-05 -8.50082e-06 -0.00116714 -0.0174174 0.00913281
+0.000319316 -4.85486e-05 -0.000193327 -0.00172273 -0.0302012 -0.0147271
+0.000367537 -4.85486e-05 1.99936e-05 0.00737567 -0.017423 -0.012757
+0.000238192 -4.85486e-05 1.99936e-05 -0.00568606 -0.031289 0.00523993
+0 -4.85486e-05 1.99936e-05 0.0123764 -0.0430755 -0.00873561
+0 0.000212507 1.99936e-05 0.0123757 -0.0238375 -0.00873298
+0.000256957 -4.85486e-05 1.99936e-05 0.0175721 -0.00566201 -0.00876582
+0.000553586 0.000802901 1.99936e-05 0.0123806 -0.0238402 -0.00879369
+0.000224791 -4.85486e-05 -0.000310369 -0.0218409 -0.0509695 -0.00872916
+0.000336385 -0.000335473 -0.000238823 -0.00828165 -0.0910863 -0.00869397
+0.000120452 -0.000452979 -0.000310565 -0.0211923 -0.074497 -0.00873028
+0.000198051 -0.00010411 -0.000357939 -0.0257555 -0.0822753 -0.00872648
+-0.000153452 9.52965e-05 3.90821e-05 -0.00812256 -0.0157715 -0.0297258
+3.30872e-24 0.000413797 3.90821e-05 -0.00814195 -0.0439892 0.0258066
+0.000311057 0.000421127 3.90821e-05 -0.0241814 -0.0439864 0.0258152
+0 9.32085e-05 -0.000136227 -0.0170497 -0.067216 0.00317816
+-2.06795e-25 1.2088e-05 -0.000131398 -0.0174833 -0.0659019 0.00247483
+0.000206615 0.000213449 -0.000159892 -0.0130991 -0.0787215 0.00257981
+0.00038846 -0.00012573 -0.000209242 -0.0166085 -0.0628478 -0.015157
+-6.61744e-24 -0.000234081 -0.000179805 -0.0197793 -0.0569092 -0.00750921
+-3.30872e-24 -0.000641609 -4.63632e-05 -0.0193964 -0.0282191 -0.00748984
+0.000212963 -0.000343347 -0.000242499 -0.0196569 -0.0774142 2.37317e-05
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/design.con b/tests/testdata/test_feat/1stlevel_2.feat/design.con
new file mode 100644
index 000000000..6d9ab603e
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/design.con
@@ -0,0 +1,10 @@
+/ContrastName1 auditory
+/ContrastName2 visual
+/NumWaves 11
+/NumContrasts 2
+/PPheights 1.474891e+00 1.460354e+00
+/RequiredEffect 4.065 4.203
+
+/Matrix
+1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
+0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/design.frf b/tests/testdata/test_feat/1stlevel_2.feat/design.frf
new file mode 100644
index 000000000..26f4e1cbf
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/design.frf
@@ -0,0 +1,11 @@
+1
+1
+2
+2
+3
+4
+4
+4
+4
+4
+4
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/design.fsf b/tests/testdata/test_feat/1stlevel_2.feat/design.fsf
new file mode 100644
index 000000000..9922a2aee
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/design.fsf
@@ -0,0 +1,561 @@
+
+# FEAT version number
+set fmri(version) 6.00
+
+# Are we in MELODIC?
+set fmri(inmelodic) 0
+
+# Analysis level
+# 1 : First-level analysis
+# 2 : Higher-level analysis
+set fmri(level) 1
+
+# Which stages to run
+# 0 : No first-level analysis (registration and/or group stats only)
+# 7 : Full first-level analysis
+# 1 : Pre-processing
+# 2 : Statistics
+set fmri(analysis) 7
+
+# Use relative filenames
+set fmri(relative_yn) 0
+
+# Balloon help
+set fmri(help_yn) 1
+
+# Run Featwatcher
+set fmri(featwatcher_yn) 1
+
+# Cleanup first-level standard-space images
+set fmri(sscleanup_yn) 0
+
+# Output directory
+set fmri(outputdir) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri"
+
+# TR(s)
+set fmri(tr) 3.000000
+
+# Total volumes
+set fmri(npts) 45
+
+# Delete volumes
+set fmri(ndelete) 0
+
+# Perfusion tag/control order
+set fmri(tagfirst) 1
+
+# Number of first-level analyses
+set fmri(multiple) 1
+
+# Higher-level input type
+# 1 : Inputs are lower-level FEAT directories
+# 2 : Inputs are cope images from FEAT directories
+set fmri(inputtype) 2
+
+# Carry out pre-stats processing?
+set fmri(filtering_yn) 1
+
+# Brain/background threshold, %
+set fmri(brain_thresh) 10
+
+# Critical z for design efficiency calculation
+set fmri(critical_z) 5.3
+
+# Noise level
+set fmri(noise) 0.66
+
+# Noise AR(1)
+set fmri(noisear) 0.34
+
+# Motion correction
+# 0 : None
+# 1 : MCFLIRT
+set fmri(mc) 1
+
+# Spin-history (currently obsolete)
+set fmri(sh_yn) 0
+
+# B0 fieldmap unwarping?
+set fmri(regunwarp_yn) 0
+
+# EPI dwell time (ms)
+set fmri(dwell) 0.7
+
+# EPI TE (ms)
+set fmri(te) 35
+
+# % Signal loss threshold
+set fmri(signallossthresh) 10
+
+# Unwarp direction
+set fmri(unwarp_dir) y-
+
+# Slice timing correction
+# 0 : None
+# 1 : Regular up (0, 1, 2, 3, ...)
+# 2 : Regular down
+# 3 : Use slice order file
+# 4 : Use slice timings file
+# 5 : Interleaved (0, 2, 4 ... 1, 3, 5 ... )
+set fmri(st) 0
+
+# Slice timings file
+set fmri(st_file) ""
+
+# BET brain extraction
+set fmri(bet_yn) 1
+
+# Spatial smoothing FWHM (mm)
+set fmri(smooth) 5
+
+# Intensity normalization
+set fmri(norm_yn) 0
+
+# Perfusion subtraction
+set fmri(perfsub_yn) 0
+
+# Highpass temporal filtering
+set fmri(temphp_yn) 1
+
+# Lowpass temporal filtering
+set fmri(templp_yn) 0
+
+# MELODIC ICA data exploration
+set fmri(melodic_yn) 0
+
+# Carry out main stats?
+set fmri(stats_yn) 1
+
+# Carry out prewhitening?
+set fmri(prewhiten_yn) 1
+
+# Add motion parameters to model
+# 0 : No
+# 1 : Yes
+set fmri(motionevs) 1
+set fmri(motionevsbeta) ""
+set fmri(scriptevsbeta) ""
+
+# Robust outlier detection in FLAME?
+set fmri(robust_yn) 0
+
+# Higher-level modelling
+# 3 : Fixed effects
+# 0 : Mixed Effects: Simple OLS
+# 2 : Mixed Effects: FLAME 1
+# 1 : Mixed Effects: FLAME 1+2
+set fmri(mixed_yn) 2
+
+# Number of EVs
+set fmri(evs_orig) 3
+set fmri(evs_real) 5
+set fmri(evs_vox) 0
+
+# Number of contrasts
+set fmri(ncon_orig) 2
+set fmri(ncon_real) 2
+
+# Number of F-tests
+set fmri(nftests_orig) 0
+set fmri(nftests_real) 0
+
+# Add constant column to design matrix? (obsolete)
+set fmri(constcol) 0
+
+# Carry out post-stats steps?
+set fmri(poststats_yn) 1
+
+# Pre-threshold masking?
+set fmri(threshmask) ""
+
+# Thresholding
+# 0 : None
+# 1 : Uncorrected
+# 2 : Voxel
+# 3 : Cluster
+set fmri(thresh) 3
+
+# P threshold
+set fmri(prob_thresh) 0.05
+
+# Z threshold
+set fmri(z_thresh) 2.3
+
+# Z min/max for colour rendering
+# 0 : Use actual Z min/max
+# 1 : Use preset Z min/max
+set fmri(zdisplay) 0
+
+# Z min in colour rendering
+set fmri(zmin) 2
+
+# Z max in colour rendering
+set fmri(zmax) 8
+
+# Colour rendering type
+# 0 : Solid blobs
+# 1 : Transparent blobs
+set fmri(rendertype) 1
+
+# Background image for higher-level stats overlays
+# 1 : Mean highres
+# 2 : First highres
+# 3 : Mean functional
+# 4 : First functional
+# 5 : Standard space template
+set fmri(bgimage) 1
+
+# Create time series plots
+set fmri(tsplot_yn) 1
+
+# Registration to initial structural
+set fmri(reginitial_highres_yn) 1
+
+# Search space for registration to initial structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reginitial_highres_search) 90
+
+# Degrees of Freedom for registration to initial structural
+set fmri(reginitial_highres_dof) 3
+
+# Registration to main structural
+set fmri(reghighres_yn) 1
+
+# Search space for registration to main structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reghighres_search) 90
+
+# Degrees of Freedom for registration to main structural
+set fmri(reghighres_dof) BBR
+
+# Registration to standard image?
+set fmri(regstandard_yn) 1
+
+# Use alternate reference images?
+set fmri(alternateReference_yn) 0
+
+# Standard image
+set fmri(regstandard) "/Users/paulmc/fsl_builds/fsl-5_0_9/data/standard/MNI152_T1_2mm_brain"
+
+# Search space for registration to standard space
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(regstandard_search) 90
+
+# Degrees of Freedom for registration to standard space
+set fmri(regstandard_dof) 12
+
+# Do nonlinear registration from structural to standard space?
+set fmri(regstandard_nonlinear_yn) 0
+
+# Control nonlinear warp field resolution
+set fmri(regstandard_nonlinear_warpres) 10
+
+# High pass filter cutoff
+set fmri(paradigm_hp) 100
+
+# Total voxels
+set fmri(totalVoxels) 921600
+
+
+# Number of lower-level copes feeding into higher-level analysis
+set fmri(ncopeinputs) 0
+
+# 4D AVW data or FEAT directory (1)
+set feat_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri3"
+
+# Add confound EVs text file
+set fmri(confoundevs) 0
+
+# Session's structural image for analysis 1
+set initial_highres_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/epiwholehead"
+
+# Subject's structural image for analysis 1
+set highres_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/structural_brain"
+
+# EV 1 title
+set fmri(evtitle1) "visual"
+
+# Basic waveform shape (EV 1)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape1) 0
+
+# Convolution (EV 1)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve1) 2
+
+# Convolve phase (EV 1)
+set fmri(convolve_phase1) 0
+
+# Apply temporal filtering (EV 1)
+set fmri(tempfilt_yn1) 1
+
+# Add temporal derivative (EV 1)
+set fmri(deriv_yn1) 1
+
+# Skip (EV 1)
+set fmri(skip1) 0
+
+# Off (EV 1)
+set fmri(off1) 30
+
+# On (EV 1)
+set fmri(on1) 30
+
+# Phase (EV 1)
+set fmri(phase1) 30
+
+# Stop (EV 1)
+set fmri(stop1) -1
+
+# Gamma sigma (EV 1)
+set fmri(gammasigma1) 3
+
+# Gamma delay (EV 1)
+set fmri(gammadelay1) 6
+
+# Orthogonalise EV 1 wrt EV 0
+set fmri(ortho1.0) 0
+
+# Orthogonalise EV 1 wrt EV 1
+set fmri(ortho1.1) 0
+
+# Orthogonalise EV 1 wrt EV 2
+set fmri(ortho1.2) 0
+
+# Orthogonalise EV 1 wrt EV 3
+set fmri(ortho1.3) 0
+
+# EV 2 title
+set fmri(evtitle2) "auditory"
+
+# Basic waveform shape (EV 2)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape2) 0
+
+# Convolution (EV 2)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve2) 2
+
+# Convolve phase (EV 2)
+set fmri(convolve_phase2) 0
+
+# Apply temporal filtering (EV 2)
+set fmri(tempfilt_yn2) 1
+
+# Add temporal derivative (EV 2)
+set fmri(deriv_yn2) 1
+
+# Skip (EV 2)
+set fmri(skip2) 0
+
+# Off (EV 2)
+set fmri(off2) 45
+
+# On (EV 2)
+set fmri(on2) 45
+
+# Phase (EV 2)
+set fmri(phase2) 45
+
+# Stop (EV 2)
+set fmri(stop2) -1
+
+# Gamma sigma (EV 2)
+set fmri(gammasigma2) 3
+
+# Gamma delay (EV 2)
+set fmri(gammadelay2) 6
+
+# Orthogonalise EV 2 wrt EV 0
+set fmri(ortho2.0) 0
+
+# Orthogonalise EV 2 wrt EV 1
+set fmri(ortho2.1) 0
+
+# Orthogonalise EV 2 wrt EV 2
+set fmri(ortho2.2) 0
+
+# Orthogonalise EV 2 wrt EV 3
+set fmri(ortho2.3) 0
+
+# EV 3 title
+set fmri(evtitle3) "vox"
+
+# Basic waveform shape (EV 3)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape3) 9
+
+# Convolution (EV 3)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve3) 0
+
+# Convolve phase (EV 3)
+set fmri(convolve_phase3) 0
+
+# Apply temporal filtering (EV 3)
+set fmri(tempfilt_yn3) 1
+
+# Add temporal derivative (EV 3)
+set fmri(deriv_yn3) 0
+
+# EV 3 voxelwise image filename
+set fmri(evs_vox_3) /Users/paulmc/Projects/fslpy/tests/testdata/test_feat/voxelwise_confounds.nii.gz
+
+# Orthogonalise EV 3 wrt EV 0
+set fmri(ortho3.0) 0
+
+# Orthogonalise EV 3 wrt EV 1
+set fmri(ortho3.1) 0
+
+# Orthogonalise EV 3 wrt EV 2
+set fmri(ortho3.2) 0
+
+# Orthogonalise EV 3 wrt EV 3
+set fmri(ortho3.3) 0
+
+# Contrast & F-tests mode
+# real : control real EVs
+# orig : control original EVs
+set fmri(con_mode_old) orig
+set fmri(con_mode) orig
+
+# Display images for contrast_real 1
+set fmri(conpic_real.1) 1
+
+# Title for contrast_real 1
+set fmri(conname_real.1) "auditory"
+
+# Real contrast_real vector 1 element 1
+set fmri(con_real1.1) 1
+
+# Real contrast_real vector 1 element 2
+set fmri(con_real1.2) 0
+
+# Real contrast_real vector 1 element 3
+set fmri(con_real1.3) 0
+
+# Real contrast_real vector 1 element 4
+set fmri(con_real1.4) 0
+
+# Real contrast_real vector 1 element 5
+set fmri(con_real1.5) 0
+
+# Display images for contrast_real 2
+set fmri(conpic_real.2) 1
+
+# Title for contrast_real 2
+set fmri(conname_real.2) "visual"
+
+# Real contrast_real vector 2 element 1
+set fmri(con_real2.1) 0
+
+# Real contrast_real vector 2 element 2
+set fmri(con_real2.2) 0
+
+# Real contrast_real vector 2 element 3
+set fmri(con_real2.3) 1
+
+# Real contrast_real vector 2 element 4
+set fmri(con_real2.4) 0
+
+# Real contrast_real vector 2 element 5
+set fmri(con_real2.5) 0
+
+# Display images for contrast_orig 1
+set fmri(conpic_orig.1) 1
+
+# Title for contrast_orig 1
+set fmri(conname_orig.1) "auditory"
+
+# Real contrast_orig vector 1 element 1
+set fmri(con_orig1.1) 1
+
+# Real contrast_orig vector 1 element 2
+set fmri(con_orig1.2) 0
+
+# Real contrast_orig vector 1 element 3
+set fmri(con_orig1.3) 0
+
+# Display images for contrast_orig 2
+set fmri(conpic_orig.2) 1
+
+# Title for contrast_orig 2
+set fmri(conname_orig.2) "visual"
+
+# Real contrast_orig vector 2 element 1
+set fmri(con_orig2.1) 0
+
+# Real contrast_orig vector 2 element 2
+set fmri(con_orig2.2) 1
+
+# Real contrast_orig vector 2 element 3
+set fmri(con_orig2.3) 0
+
+# Contrast masking - use >0 instead of thresholding?
+set fmri(conmask_zerothresh_yn) 0
+
+# Mask real contrast/F-test 1 with real contrast/F-test 2?
+set fmri(conmask1_2) 0
+
+# Mask real contrast/F-test 2 with real contrast/F-test 1?
+set fmri(conmask2_1) 0
+
+# Do contrast masking at all?
+set fmri(conmask1_1) 0
+
+##########################################################
+# Now options that don't appear in the GUI
+
+# Alternative (to BETting) mask image
+set fmri(alternative_mask) ""
+
+# Initial structural space registration initialisation transform
+set fmri(init_initial_highres) ""
+
+# Structural space registration initialisation transform
+set fmri(init_highres) ""
+
+# Standard space registration initialisation transform
+set fmri(init_standard) ""
+
+# For full FEAT analysis: overwrite existing .feat output dir?
+set fmri(overwrite_yn) 0
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/design.mat b/tests/testdata/test_feat/1stlevel_2.feat/design.mat
new file mode 100644
index 000000000..def70013d
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/design.mat
@@ -0,0 +1,50 @@
+/NumWaves 11
+/NumPoints 45
+/PPheights 1.000000e+00 7.177538e-01 1.000000e+00 7.176320e-01 7.744581e-03 9.653280e-04 1.618533e-03 9.989541e-04 6.614150e-02 1.639617e-01 9.989550e-02
+
+/Matrix
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new file mode 100644
index 000000000..dec2bf5d6
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new file mode 100644
index 000000000..05a5d9c96
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new file mode 100644
index 000000000..9a65de153
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/designInputVoxelwiseEV3.nii.gz
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diff --git a/tests/testdata/test_feat/1stlevel_2.feat/designVoxelwiseEV3.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/designVoxelwiseEV3.nii.gz
new file mode 100644
index 000000000..cf680607c
--- /dev/null
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diff --git a/tests/testdata/test_feat/1stlevel_2.feat/example_func.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/example_func.nii.gz
new file mode 100644
index 000000000..b0fb8bbd1
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+++ b/tests/testdata/test_feat/1stlevel_2.feat/example_func.nii.gz
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diff --git a/tests/testdata/test_feat/1stlevel_2.feat/filtered_func_data.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/filtered_func_data.nii.gz
new file mode 100644
index 000000000..a7aa69e43
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/filtered_func_data.nii.gz
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new file mode 100644
index 000000000..50f3140d8
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/lmax_zstat1.txt
@@ -0,0 +1,12 @@
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diff --git a/tests/testdata/test_feat/1stlevel_2.feat/lmax_zstat1_std.txt b/tests/testdata/test_feat/1stlevel_2.feat/lmax_zstat1_std.txt
new file mode 100644
index 000000000..8ff7023cf
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/lmax_zstat1_std.txt
@@ -0,0 +1,12 @@
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diff --git a/tests/testdata/test_feat/1stlevel_2.feat/lmax_zstat2.txt b/tests/testdata/test_feat/1stlevel_2.feat/lmax_zstat2.txt
new file mode 100644
index 000000000..a99190fcd
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/lmax_zstat2.txt
@@ -0,0 +1,12 @@
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+2 6.04 20 32 2
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diff --git a/tests/testdata/test_feat/1stlevel_2.feat/lmax_zstat2_std.txt b/tests/testdata/test_feat/1stlevel_2.feat/lmax_zstat2_std.txt
new file mode 100644
index 000000000..5ea1fc5df
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/lmax_zstat2_std.txt
@@ -0,0 +1,12 @@
+Cluster Index Z x y z
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+2 5.94 -54 5.82 -3.1
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diff --git a/tests/testdata/test_feat/1stlevel_2.feat/mask.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/mask.nii.gz
new file mode 100644
index 000000000..6ded8cbea
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/mask.nii.gz
@@ -0,0 +1 @@
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new file mode 100644
index 000000000..b4353ed5a
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/mc/prefiltered_func_data_mcf.mat/MAT_0000
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diff --git a/tests/testdata/test_feat/1stlevel_2.feat/mc/prefiltered_func_data_mcf.mat/MAT_0001 b/tests/testdata/test_feat/1stlevel_2.feat/mc/prefiltered_func_data_mcf.mat/MAT_0001
new file mode 100644
index 000000000..2c81a6a0c
--- /dev/null
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diff --git a/tests/testdata/test_feat/1stlevel_2.feat/mc/prefiltered_func_data_mcf.mat/MAT_0002 b/tests/testdata/test_feat/1stlevel_2.feat/mc/prefiltered_func_data_mcf.mat/MAT_0002
new file mode 100644
index 000000000..babf69957
--- /dev/null
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new file mode 100644
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--- /dev/null
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new file mode 100644
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--- /dev/null
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new file mode 100644
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--- /dev/null
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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index 000000000..c63379ef1
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index 000000000..4bf703eaa
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index 000000000..5013b6b56
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index 000000000..2f367aa5b
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diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/logfile b/tests/testdata/test_feat/1stlevel_2.feat/stats/logfile
new file mode 100644
index 000000000..8a23bf06b
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/logfile
@@ -0,0 +1,3 @@
+/Users/paulmc/fsl_builds/fsl-5_0_9/bin/film_gls --in=filtered_func_data --rn=stats --pd=design.mat --thr=1000.0 --sa --ms=5 --con=design.con --ven=5 --vef=designVoxelwiseEV3
+---------------------------------------------
+
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/pe1.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe1.nii.gz
new file mode 100644
index 000000000..2339a74dc
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe1.nii.gz
@@ -0,0 +1 @@
+./stats/pe1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/pe10.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe10.nii.gz
new file mode 100644
index 000000000..351a40d68
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe10.nii.gz
@@ -0,0 +1 @@
+./stats/pe10.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/pe11.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe11.nii.gz
new file mode 100644
index 000000000..7099c635d
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe11.nii.gz
@@ -0,0 +1 @@
+./stats/pe11.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/pe2.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe2.nii.gz
new file mode 100644
index 000000000..5f437afbf
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe2.nii.gz
@@ -0,0 +1 @@
+./stats/pe2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/pe3.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe3.nii.gz
new file mode 100644
index 000000000..8989fafe9
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe3.nii.gz
@@ -0,0 +1 @@
+./stats/pe3.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/pe4.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe4.nii.gz
new file mode 100644
index 000000000..3a9e39de8
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe4.nii.gz
@@ -0,0 +1 @@
+./stats/pe4.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/pe5.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe5.nii.gz
new file mode 100644
index 000000000..1637cac32
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe5.nii.gz
@@ -0,0 +1 @@
+./stats/pe5.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/pe6.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe6.nii.gz
new file mode 100644
index 000000000..d0baf6910
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+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe6.nii.gz
@@ -0,0 +1 @@
+./stats/pe6.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/pe7.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe7.nii.gz
new file mode 100644
index 000000000..c2ec876e4
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe7.nii.gz
@@ -0,0 +1 @@
+./stats/pe7.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/pe8.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe8.nii.gz
new file mode 100644
index 000000000..649619a80
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe8.nii.gz
@@ -0,0 +1 @@
+./stats/pe8.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/pe9.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe9.nii.gz
new file mode 100644
index 000000000..0e7e6ac5e
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/pe9.nii.gz
@@ -0,0 +1 @@
+./stats/pe9.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/res4d.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/res4d.nii.gz
new file mode 100644
index 000000000..977739c60
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/res4d.nii.gz
@@ -0,0 +1 @@
+./stats/res4d.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/sigmasquareds.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/sigmasquareds.nii.gz
new file mode 100644
index 000000000..fff3f4a70
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/sigmasquareds.nii.gz
@@ -0,0 +1 @@
+./stats/sigmasquareds.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/smoothness b/tests/testdata/test_feat/1stlevel_2.feat/stats/smoothness
new file mode 100644
index 000000000..ecfe60364
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/smoothness
@@ -0,0 +1,3 @@
+DLH 2.18972
+VOLUME 6262
+RESELS 2.13326
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/threshac1.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/threshac1.nii.gz
new file mode 100644
index 000000000..783a06e93
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/threshac1.nii.gz
@@ -0,0 +1 @@
+./stats/threshac1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/tstat1.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/tstat1.nii.gz
new file mode 100644
index 000000000..4be0a9559
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/tstat1.nii.gz
@@ -0,0 +1 @@
+./stats/tstat1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/tstat2.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/tstat2.nii.gz
new file mode 100644
index 000000000..401803626
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/tstat2.nii.gz
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+./stats/tstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/varcope1.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/varcope1.nii.gz
new file mode 100644
index 000000000..2ffc7b105
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/varcope1.nii.gz
@@ -0,0 +1 @@
+./stats/varcope1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/varcope2.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/varcope2.nii.gz
new file mode 100644
index 000000000..29e4117b7
--- /dev/null
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+./stats/varcope2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/zstat1.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/zstat1.nii.gz
new file mode 100644
index 000000000..46ad8b415
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/zstat1.nii.gz
@@ -0,0 +1 @@
+./stats/zstat1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/stats/zstat2.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/stats/zstat2.nii.gz
new file mode 100644
index 000000000..ebd81b58f
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/stats/zstat2.nii.gz
@@ -0,0 +1 @@
+./stats/zstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/thresh_zstat1.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/thresh_zstat1.nii.gz
new file mode 100644
index 000000000..c4bd92498
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/thresh_zstat1.nii.gz
@@ -0,0 +1 @@
+./thresh_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/thresh_zstat1.vol b/tests/testdata/test_feat/1stlevel_2.feat/thresh_zstat1.vol
new file mode 100644
index 000000000..24a23e17b
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+++ b/tests/testdata/test_feat/1stlevel_2.feat/thresh_zstat1.vol
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+6262
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/thresh_zstat2.nii.gz b/tests/testdata/test_feat/1stlevel_2.feat/thresh_zstat2.nii.gz
new file mode 100644
index 000000000..3cca62c63
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_2.feat/thresh_zstat2.nii.gz
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+./thresh_zstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_2.feat/thresh_zstat2.vol b/tests/testdata/test_feat/1stlevel_2.feat/thresh_zstat2.vol
new file mode 100644
index 000000000..24a23e17b
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diff --git a/tests/testdata/test_feat/1stlevel_3.feat/InputconfoundEV1.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/InputconfoundEV1.nii.gz
new file mode 100644
index 000000000..850339758
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/InputconfoundEV1.nii.gz
@@ -0,0 +1 @@
+./InputconfoundEV1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/absbrainthresh.txt b/tests/testdata/test_feat/1stlevel_3.feat/absbrainthresh.txt
new file mode 100644
index 000000000..69b63cb36
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/absbrainthresh.txt
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diff --git a/tests/testdata/test_feat/1stlevel_3.feat/cluster_mask_zstat1.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/cluster_mask_zstat1.nii.gz
new file mode 100644
index 000000000..e98358baa
--- /dev/null
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@@ -0,0 +1 @@
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diff --git a/tests/testdata/test_feat/1stlevel_3.feat/cluster_mask_zstat2.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/cluster_mask_zstat2.nii.gz
new file mode 100644
index 000000000..57069c3db
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/cluster_mask_zstat2.nii.gz
@@ -0,0 +1 @@
+./cluster_mask_zstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/cluster_zstat1.txt b/tests/testdata/test_feat/1stlevel_3.feat/cluster_zstat1.txt
new file mode 100644
index 000000000..04d722b83
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/cluster_zstat1.txt
@@ -0,0 +1,4 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (vox) Z-MAX Y (vox) Z-MAX Z (vox) Z-COG X (vox) Z-COG Y (vox) Z-COG Z (vox) COPE-MAX COPE-MAX X (vox) COPE-MAX Y (vox) COPE-MAX Z (vox) COPE-MEAN
+3 17 0.00497 2.3 3.47 34 9 2 34.7 9.59 1.96 384 34 9 3 259
+2 14 0.0163 1.79 3.44 39 11 3 39.7 11 2.27 276 39 11 3 185
+1 13 0.0247 1.61 3.7 29 9 3 29.2 9.01 2.58 376 30 9 3 234
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/cluster_zstat2.txt b/tests/testdata/test_feat/1stlevel_3.feat/cluster_zstat2.txt
new file mode 100644
index 000000000..dce17c703
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/cluster_zstat2.txt
@@ -0,0 +1,6 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (vox) Z-MAX Y (vox) Z-MAX Z (vox) Z-COG X (vox) Z-COG Y (vox) Z-COG Z (vox) COPE-MAX COPE-MAX X (vox) COPE-MAX Y (vox) COPE-MAX Z (vox) COPE-MEAN
+5 22 0.000786 3.1 3.74 17 41 2 17.6 39.6 2.3 669 19 40 0 376
+4 21 0.00112 2.95 4 30 18 0 27.5 19 0.796 1.02e+03 30 18 0 498
+3 18 0.0034 2.47 3.32 39 12 0 39.1 12.6 0 1.45e+03 40 11 0 781
+2 17 0.00497 2.3 4.28 36 24 0 38.1 21 0.859 599 38 18 1 384
+1 15 0.0109 1.96 3.26 34 29 0 31.8 26.6 0.523 1.33e+03 30 25 0 873
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/confoundEV1.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/confoundEV1.nii.gz
new file mode 100644
index 000000000..07e780470
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/confoundEV1.nii.gz
@@ -0,0 +1 @@
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diff --git a/tests/testdata/test_feat/1stlevel_3.feat/confoundevs.txt b/tests/testdata/test_feat/1stlevel_3.feat/confoundevs.txt
new file mode 100644
index 000000000..4333fe76a
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/confoundevs.txt
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diff --git a/tests/testdata/test_feat/1stlevel_3.feat/design.con b/tests/testdata/test_feat/1stlevel_3.feat/design.con
new file mode 100644
index 000000000..d344cb738
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/design.con
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diff --git a/tests/testdata/test_feat/1stlevel_3.feat/design.frf b/tests/testdata/test_feat/1stlevel_3.feat/design.frf
new file mode 100644
index 000000000..653245e22
--- /dev/null
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diff --git a/tests/testdata/test_feat/1stlevel_3.feat/design.fsf b/tests/testdata/test_feat/1stlevel_3.feat/design.fsf
new file mode 100644
index 000000000..f1fe46c72
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/design.fsf
@@ -0,0 +1,503 @@
+
+# FEAT version number
+set fmri(version) 6.00
+
+# Are we in MELODIC?
+set fmri(inmelodic) 0
+
+# Analysis level
+# 1 : First-level analysis
+# 2 : Higher-level analysis
+set fmri(level) 1
+
+# Which stages to run
+# 0 : No first-level analysis (registration and/or group stats only)
+# 7 : Full first-level analysis
+# 1 : Pre-processing
+# 2 : Statistics
+set fmri(analysis) 7
+
+# Use relative filenames
+set fmri(relative_yn) 0
+
+# Balloon help
+set fmri(help_yn) 1
+
+# Run Featwatcher
+set fmri(featwatcher_yn) 1
+
+# Cleanup first-level standard-space images
+set fmri(sscleanup_yn) 0
+
+# Output directory
+set fmri(outputdir) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/1stlevel_2"
+
+# TR(s)
+set fmri(tr) 3.000000
+
+# Total volumes
+set fmri(npts) 45
+
+# Delete volumes
+set fmri(ndelete) 0
+
+# Perfusion tag/control order
+set fmri(tagfirst) 1
+
+# Number of first-level analyses
+set fmri(multiple) 1
+
+# Higher-level input type
+# 1 : Inputs are lower-level FEAT directories
+# 2 : Inputs are cope images from FEAT directories
+set fmri(inputtype) 2
+
+# Carry out pre-stats processing?
+set fmri(filtering_yn) 1
+
+# Brain/background threshold, %
+set fmri(brain_thresh) 10
+
+# Critical z for design efficiency calculation
+set fmri(critical_z) 5.3
+
+# Noise level
+set fmri(noise) 0.66
+
+# Noise AR(1)
+set fmri(noisear) 0.34
+
+# Motion correction
+# 0 : None
+# 1 : MCFLIRT
+set fmri(mc) 1
+
+# Spin-history (currently obsolete)
+set fmri(sh_yn) 0
+
+# B0 fieldmap unwarping?
+set fmri(regunwarp_yn) 0
+
+# EPI dwell time (ms)
+set fmri(dwell) 0.7
+
+# EPI TE (ms)
+set fmri(te) 35
+
+# % Signal loss threshold
+set fmri(signallossthresh) 10
+
+# Unwarp direction
+set fmri(unwarp_dir) y-
+
+# Slice timing correction
+# 0 : None
+# 1 : Regular up (0, 1, 2, 3, ...)
+# 2 : Regular down
+# 3 : Use slice order file
+# 4 : Use slice timings file
+# 5 : Interleaved (0, 2, 4 ... 1, 3, 5 ... )
+set fmri(st) 0
+
+# Slice timings file
+set fmri(st_file) ""
+
+# BET brain extraction
+set fmri(bet_yn) 0
+
+# Spatial smoothing FWHM (mm)
+set fmri(smooth) 5
+
+# Intensity normalization
+set fmri(norm_yn) 0
+
+# Perfusion subtraction
+set fmri(perfsub_yn) 0
+
+# Highpass temporal filtering
+set fmri(temphp_yn) 0
+
+# Lowpass temporal filtering
+set fmri(templp_yn) 0
+
+# MELODIC ICA data exploration
+set fmri(melodic_yn) 0
+
+# Carry out main stats?
+set fmri(stats_yn) 1
+
+# Carry out prewhitening?
+set fmri(prewhiten_yn) 1
+
+# Add motion parameters to model
+# 0 : No
+# 1 : Yes
+set fmri(motionevs) 2
+set fmri(motionevsbeta) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/voxconf.txt"
+set fmri(scriptevsbeta) ""
+
+# Robust outlier detection in FLAME?
+set fmri(robust_yn) 0
+
+# Higher-level modelling
+# 3 : Fixed effects
+# 0 : Mixed Effects: Simple OLS
+# 2 : Mixed Effects: FLAME 1
+# 1 : Mixed Effects: FLAME 1+2
+set fmri(mixed_yn) 2
+
+# Number of EVs
+set fmri(evs_orig) 2
+set fmri(evs_real) 5
+set fmri(evs_vox) 0
+
+# Number of contrasts
+set fmri(ncon_orig) 2
+set fmri(ncon_real) 2
+
+# Number of F-tests
+set fmri(nftests_orig) 0
+set fmri(nftests_real) 0
+
+# Add constant column to design matrix? (obsolete)
+set fmri(constcol) 0
+
+# Carry out post-stats steps?
+set fmri(poststats_yn) 1
+
+# Pre-threshold masking?
+set fmri(threshmask) ""
+
+# Thresholding
+# 0 : None
+# 1 : Uncorrected
+# 2 : Voxel
+# 3 : Cluster
+set fmri(thresh) 3
+
+# P threshold
+set fmri(prob_thresh) 0.05
+
+# Z threshold
+set fmri(z_thresh) 2.3
+
+# Z min/max for colour rendering
+# 0 : Use actual Z min/max
+# 1 : Use preset Z min/max
+set fmri(zdisplay) 0
+
+# Z min in colour rendering
+set fmri(zmin) 2
+
+# Z max in colour rendering
+set fmri(zmax) 8
+
+# Colour rendering type
+# 0 : Solid blobs
+# 1 : Transparent blobs
+set fmri(rendertype) 1
+
+# Background image for higher-level stats overlays
+# 1 : Mean highres
+# 2 : First highres
+# 3 : Mean functional
+# 4 : First functional
+# 5 : Standard space template
+set fmri(bgimage) 1
+
+# Create time series plots
+set fmri(tsplot_yn) 1
+
+# Registration to initial structural
+set fmri(reginitial_highres_yn) 0
+
+# Search space for registration to initial structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reginitial_highres_search) 90
+
+# Degrees of Freedom for registration to initial structural
+set fmri(reginitial_highres_dof) 3
+
+# Registration to main structural
+set fmri(reghighres_yn) 0
+
+# Search space for registration to main structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reghighres_search) 90
+
+# Degrees of Freedom for registration to main structural
+set fmri(reghighres_dof) BBR
+
+# Registration to standard image?
+set fmri(regstandard_yn) 0
+
+# Use alternate reference images?
+set fmri(alternateReference_yn) 0
+
+# Standard image
+set fmri(regstandard) "/Users/paulmc/fsl_builds/fsl-5_0_9/data/standard/MNI152_T1_2mm_brain"
+
+# Search space for registration to standard space
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(regstandard_search) 90
+
+# Degrees of Freedom for registration to standard space
+set fmri(regstandard_dof) 12
+
+# Do nonlinear registration from structural to standard space?
+set fmri(regstandard_nonlinear_yn) 0
+
+# Control nonlinear warp field resolution
+set fmri(regstandard_nonlinear_warpres) 10
+
+# High pass filter cutoff
+set fmri(paradigm_hp) 100
+
+# Total voxels
+set fmri(totalVoxels) 921600
+
+
+# Number of lower-level copes feeding into higher-level analysis
+set fmri(ncopeinputs) 0
+
+# 4D AVW data or FEAT directory (1)
+set feat_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri1"
+
+# Add confound EVs text file
+set fmri(confoundevs) 1
+
+# Confound EVs text file for analysis 1
+set confoundev_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/confounds.txt"
+
+# EV 1 title
+set fmri(evtitle1) "visual"
+
+# Basic waveform shape (EV 1)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape1) 0
+
+# Convolution (EV 1)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve1) 2
+
+# Convolve phase (EV 1)
+set fmri(convolve_phase1) 0
+
+# Apply temporal filtering (EV 1)
+set fmri(tempfilt_yn1) 1
+
+# Add temporal derivative (EV 1)
+set fmri(deriv_yn1) 1
+
+# Skip (EV 1)
+set fmri(skip1) 0
+
+# Off (EV 1)
+set fmri(off1) 30
+
+# On (EV 1)
+set fmri(on1) 30
+
+# Phase (EV 1)
+set fmri(phase1) 30
+
+# Stop (EV 1)
+set fmri(stop1) -1
+
+# Gamma sigma (EV 1)
+set fmri(gammasigma1) 3
+
+# Gamma delay (EV 1)
+set fmri(gammadelay1) 6
+
+# Orthogonalise EV 1 wrt EV 0
+set fmri(ortho1.0) 0
+
+# Orthogonalise EV 1 wrt EV 1
+set fmri(ortho1.1) 0
+
+# Orthogonalise EV 1 wrt EV 2
+set fmri(ortho1.2) 0
+
+# EV 2 title
+set fmri(evtitle2) "auditory"
+
+# Basic waveform shape (EV 2)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape2) 0
+
+# Convolution (EV 2)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve2) 4
+
+# Convolve phase (EV 2)
+set fmri(convolve_phase2) 0
+
+# Apply temporal filtering (EV 2)
+set fmri(tempfilt_yn2) 1
+
+# Add temporal derivative (EV 2)
+set fmri(deriv_yn2) 0
+
+# Skip (EV 2)
+set fmri(skip2) 0
+
+# Off (EV 2)
+set fmri(off2) 45
+
+# On (EV 2)
+set fmri(on2) 45
+
+# Phase (EV 2)
+set fmri(phase2) 45
+
+# Stop (EV 2)
+set fmri(stop2) -1
+
+# Gamma basis functions number (EV 2)
+set fmri(basisfnum2) 3
+
+# Gamma basis functions window(s) (EV 2)
+set fmri(basisfwidth2) 15
+
+# Orth basis functions wrt each other
+set fmri(basisorth2) 0
+
+# Orthogonalise EV 2 wrt EV 0
+set fmri(ortho2.0) 0
+
+# Orthogonalise EV 2 wrt EV 1
+set fmri(ortho2.1) 0
+
+# Orthogonalise EV 2 wrt EV 2
+set fmri(ortho2.2) 0
+
+# Contrast & F-tests mode
+# real : control real EVs
+# orig : control original EVs
+set fmri(con_mode_old) real
+set fmri(con_mode) real
+
+# Display images for contrast_real 1
+set fmri(conpic_real.1) 1
+
+# Title for contrast_real 1
+set fmri(conname_real.1) "visual"
+
+# Real contrast_real vector 1 element 1
+set fmri(con_real1.1) 1
+
+# Real contrast_real vector 1 element 2
+set fmri(con_real1.2) 0
+
+# Real contrast_real vector 1 element 3
+set fmri(con_real1.3) 0
+
+# Real contrast_real vector 1 element 4
+set fmri(con_real1.4) 0
+
+# Real contrast_real vector 1 element 5
+set fmri(con_real1.5) 0
+
+# Display images for contrast_real 2
+set fmri(conpic_real.2) 1
+
+# Title for contrast_real 2
+set fmri(conname_real.2) "auditory"
+
+# Real contrast_real vector 2 element 1
+set fmri(con_real2.1) 0
+
+# Real contrast_real vector 2 element 2
+set fmri(con_real2.2) 0
+
+# Real contrast_real vector 2 element 3
+set fmri(con_real2.3) 1
+
+# Real contrast_real vector 2 element 4
+set fmri(con_real2.4) 0
+
+# Real contrast_real vector 2 element 5
+set fmri(con_real2.5) 0
+
+# Display images for contrast_orig 1
+set fmri(conpic_orig.1) 1
+
+# Title for contrast_orig 1
+set fmri(conname_orig.1) "visual"
+
+# Real contrast_orig vector 1 element 1
+set fmri(con_orig1.1) 1
+
+# Real contrast_orig vector 1 element 2
+set fmri(con_orig1.2) 0
+
+# Display images for contrast_orig 2
+set fmri(conpic_orig.2) 1
+
+# Title for contrast_orig 2
+set fmri(conname_orig.2) "auditory"
+
+# Real contrast_orig vector 2 element 1
+set fmri(con_orig2.1) 0
+
+# Real contrast_orig vector 2 element 2
+set fmri(con_orig2.2) 1
+
+# Contrast masking - use >0 instead of thresholding?
+set fmri(conmask_zerothresh_yn) 0
+
+# Mask real contrast/F-test 1 with real contrast/F-test 2?
+set fmri(conmask1_2) 0
+
+# Mask real contrast/F-test 2 with real contrast/F-test 1?
+set fmri(conmask2_1) 0
+
+# Do contrast masking at all?
+set fmri(conmask1_1) 0
+
+##########################################################
+# Now options that don't appear in the GUI
+
+# Alternative (to BETting) mask image
+set fmri(alternative_mask) ""
+
+# Initial structural space registration initialisation transform
+set fmri(init_initial_highres) ""
+
+# Structural space registration initialisation transform
+set fmri(init_highres) ""
+
+# Standard space registration initialisation transform
+set fmri(init_standard) ""
+
+# For full FEAT analysis: overwrite existing .feat output dir?
+set fmri(overwrite_yn) 0
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/design.mat b/tests/testdata/test_feat/1stlevel_3.feat/design.mat
new file mode 100644
index 000000000..8113984aa
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/design.mat
@@ -0,0 +1,50 @@
+/NumWaves 32
+/NumPoints 45
+/PPheights 1.000000e+00 7.177538e-01 1.000000e+00 1.000000e+00 1.000000e+00 7.744000e-03 8.330820e-04 1.539341e-03 9.492741e-04 7.386060e-02 1.607247e-01 1.173961e-01 4.930006e-07 6.546413e-07 3.046587e-07 1.561410e-03 7.731153e-03 4.239195e-03 1.265559e-03 1.624003e-03 7.819990e-04 6.120020e-02 2.041648e-01 1.067534e-01 4.930006e-07 1.073961e-06 1.578592e-07 1.342668e-03 1.172475e-02 4.443969e-03 9.989207e-01 9.225559e-01
+
+/Matrix
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index 000000000..b0fb8bbd1
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new file mode 100644
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new file mode 100644
index 000000000..f08870608
--- /dev/null
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diff --git a/tests/testdata/test_feat/1stlevel_3.feat/lmax_zstat2.txt b/tests/testdata/test_feat/1stlevel_3.feat/lmax_zstat2.txt
new file mode 100644
index 000000000..d200af1e1
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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diff --git a/tests/testdata/test_feat/1stlevel_3.feat/mc/prefiltered_func_data_mcf_final.par b/tests/testdata/test_feat/1stlevel_3.feat/mc/prefiltered_func_data_mcf_final.par
new file mode 100644
index 000000000..69b336809
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/mc/prefiltered_func_data_mcf_final.par
@@ -0,0 +1,45 @@
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index 000000000..648e200a3
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index 000000000..100f629cf
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+++ b/tests/testdata/test_feat/1stlevel_3.feat/stats/smoothness
@@ -0,0 +1,3 @@
+DLH 1.90033
+VOLUME 6427
+RESELS 2.54528
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/stats/threshac1.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/stats/threshac1.nii.gz
new file mode 100644
index 000000000..783a06e93
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/stats/threshac1.nii.gz
@@ -0,0 +1 @@
+./stats/threshac1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/stats/tstat1.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/stats/tstat1.nii.gz
new file mode 100644
index 000000000..4be0a9559
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/stats/tstat1.nii.gz
@@ -0,0 +1 @@
+./stats/tstat1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/stats/tstat2.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/stats/tstat2.nii.gz
new file mode 100644
index 000000000..401803626
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/stats/tstat2.nii.gz
@@ -0,0 +1 @@
+./stats/tstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/stats/varcope1.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/stats/varcope1.nii.gz
new file mode 100644
index 000000000..2ffc7b105
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/stats/varcope1.nii.gz
@@ -0,0 +1 @@
+./stats/varcope1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/stats/varcope2.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/stats/varcope2.nii.gz
new file mode 100644
index 000000000..29e4117b7
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/stats/varcope2.nii.gz
@@ -0,0 +1 @@
+./stats/varcope2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/stats/zstat1.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/stats/zstat1.nii.gz
new file mode 100644
index 000000000..46ad8b415
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/stats/zstat1.nii.gz
@@ -0,0 +1 @@
+./stats/zstat1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/stats/zstat2.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/stats/zstat2.nii.gz
new file mode 100644
index 000000000..ebd81b58f
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/stats/zstat2.nii.gz
@@ -0,0 +1 @@
+./stats/zstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/thresh_zstat1.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/thresh_zstat1.nii.gz
new file mode 100644
index 000000000..c4bd92498
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/thresh_zstat1.nii.gz
@@ -0,0 +1 @@
+./thresh_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/thresh_zstat1.vol b/tests/testdata/test_feat/1stlevel_3.feat/thresh_zstat1.vol
new file mode 100644
index 000000000..0923d6317
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/thresh_zstat1.vol
@@ -0,0 +1 @@
+6427
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/thresh_zstat2.nii.gz b/tests/testdata/test_feat/1stlevel_3.feat/thresh_zstat2.nii.gz
new file mode 100644
index 000000000..3cca62c63
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/thresh_zstat2.nii.gz
@@ -0,0 +1 @@
+./thresh_zstat2.nii.gz
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/thresh_zstat2.vol b/tests/testdata/test_feat/1stlevel_3.feat/thresh_zstat2.vol
new file mode 100644
index 000000000..0923d6317
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/thresh_zstat2.vol
@@ -0,0 +1 @@
+6427
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/vef.dat b/tests/testdata/test_feat/1stlevel_3.feat/vef.dat
new file mode 100644
index 000000000..6fff74c1f
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/vef.dat
@@ -0,0 +1 @@
+confoundEV1
\ No newline at end of file
diff --git a/tests/testdata/test_feat/1stlevel_3.feat/ven.dat b/tests/testdata/test_feat/1stlevel_3.feat/ven.dat
new file mode 100644
index 000000000..62f945751
--- /dev/null
+++ b/tests/testdata/test_feat/1stlevel_3.feat/ven.dat
@@ -0,0 +1 @@
+6
\ No newline at end of file
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/bg_image.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/bg_image.nii.gz
new file mode 100644
index 000000000..18adb2229
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/bg_image.nii.gz
@@ -0,0 +1 @@
+./bg_image.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/.flame b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/.flame
new file mode 100755
index 000000000..adc45826c
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/.flame
@@ -0,0 +1 @@
+/Users/paulmc/fsl_builds/fsl-5_0_9/bin/flameo --cope=filtered_func_data --vc=var_filtered_func_data --mask=mask --ld=stats --dm=design.mat --cs=design.grp --tc=design.con --runmode=ols
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/cluster_mask_zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/cluster_mask_zstat1.nii.gz
new file mode 100644
index 000000000..20fc6eb3b
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/cluster_mask_zstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/cluster_mask_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/cluster_zstat1_std.txt b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/cluster_zstat1_std.txt
new file mode 100644
index 000000000..878fffe37
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/cluster_zstat1_std.txt
@@ -0,0 +1,8 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (mm) Z-MAX Y (mm) Z-MAX Z (mm) Z-COG X (mm) Z-COG Y (mm) Z-COG Z (mm) COPE-MAX COPE-MAX X (mm) COPE-MAX Y (mm) COPE-MAX Z (mm) COPE-MEAN
+7 9205 5.61e-45 44.2 5.23 -28 -72 -2 3.67 -75.9 2.13 513 -8 -90 -2 73.9
+6 2293 3.77e-17 16.4 4.41 30 -34 10 2.73 -10.3 5.64 305 2 -4 -10 32.2
+5 819 5.96e-08 7.22 4.56 48 14 12 51.4 29 1.58 95.6 56 30 8 28.9
+4 693 4.17e-07 6.38 4.11 -44 20 6 -48.4 23.9 3.96 84.4 -54 20 4 29.2
+3 278 0.00215 2.67 4.07 -28 46 16 -16.4 44 11.2 85.7 -22 44 16 32.6
+2 235 0.00638 2.2 3.96 74 -34 10 69.9 -36 11.7 204 68 -32 16 44.5
+1 216 0.0105 1.98 4.07 60 -8 -10 48.3 -9.11 -8.02 205 44 -4 -10 52.1
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.con b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.con
new file mode 100644
index 000000000..e804251b1
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.con
@@ -0,0 +1,8 @@
+/ContrastName1 group mean
+/NumWaves 1
+/NumContrasts 1
+/PPheights 1.000000e+00
+/RequiredEffect 1119.478
+
+/Matrix
+1.000000e+00
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.fsf b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.fsf
new file mode 100644
index 000000000..c45c57646
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.fsf
@@ -0,0 +1,378 @@
+
+# FEAT version number
+set fmri(version) 6.00
+
+# Are we in MELODIC?
+set fmri(inmelodic) 0
+
+# Analysis level
+# 1 : First-level analysis
+# 2 : Higher-level analysis
+set fmri(level) 2
+
+# Which stages to run
+# 0 : No first-level analysis (registration and/or group stats only)
+# 7 : Full first-level analysis
+# 1 : Pre-processing
+# 2 : Statistics
+set fmri(analysis) 2
+
+# Use relative filenames
+set fmri(relative_yn) 0
+
+# Balloon help
+set fmri(help_yn) 1
+
+# Run Featwatcher
+set fmri(featwatcher_yn) 1
+
+# Cleanup first-level standard-space images
+set fmri(sscleanup_yn) 0
+
+# Output directory
+set fmri(outputdir) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_1"
+
+# TR(s)
+set fmri(tr) 3
+
+# Total volumes
+set fmri(npts) 3
+
+# Delete volumes
+set fmri(ndelete) 0
+
+# Perfusion tag/control order
+set fmri(tagfirst) 1
+
+# Number of first-level analyses
+set fmri(multiple) 3
+
+# Higher-level input type
+# 1 : Inputs are lower-level FEAT directories
+# 2 : Inputs are cope images from FEAT directories
+set fmri(inputtype) 1
+
+# Carry out pre-stats processing?
+set fmri(filtering_yn) 0
+
+# Brain/background threshold, %
+set fmri(brain_thresh) 10
+
+# Critical z for design efficiency calculation
+set fmri(critical_z) 5.3
+
+# Noise level
+set fmri(noise) 0.66
+
+# Noise AR(1)
+set fmri(noisear) 0.34
+
+# Motion correction
+# 0 : None
+# 1 : MCFLIRT
+set fmri(mc) 1
+
+# Spin-history (currently obsolete)
+set fmri(sh_yn) 0
+
+# B0 fieldmap unwarping?
+set fmri(regunwarp_yn) 0
+
+# EPI dwell time (ms)
+set fmri(dwell) 0.7
+
+# EPI TE (ms)
+set fmri(te) 35
+
+# % Signal loss threshold
+set fmri(signallossthresh) 10
+
+# Unwarp direction
+set fmri(unwarp_dir) y-
+
+# Slice timing correction
+# 0 : None
+# 1 : Regular up (0, 1, 2, 3, ...)
+# 2 : Regular down
+# 3 : Use slice order file
+# 4 : Use slice timings file
+# 5 : Interleaved (0, 2, 4 ... 1, 3, 5 ... )
+set fmri(st) 0
+
+# Slice timings file
+set fmri(st_file) ""
+
+# BET brain extraction
+set fmri(bet_yn) 1
+
+# Spatial smoothing FWHM (mm)
+set fmri(smooth) 5
+
+# Intensity normalization
+set fmri(norm_yn) 0
+
+# Perfusion subtraction
+set fmri(perfsub_yn) 0
+
+# Highpass temporal filtering
+set fmri(temphp_yn) 1
+
+# Lowpass temporal filtering
+set fmri(templp_yn) 0
+
+# MELODIC ICA data exploration
+set fmri(melodic_yn) 0
+
+# Carry out main stats?
+set fmri(stats_yn) 1
+
+# Carry out prewhitening?
+set fmri(prewhiten_yn) 1
+
+# Add motion parameters to model
+# 0 : No
+# 1 : Yes
+set fmri(motionevs) 0
+set fmri(motionevsbeta) ""
+set fmri(scriptevsbeta) ""
+
+# Robust outlier detection in FLAME?
+set fmri(robust_yn) 0
+
+# Higher-level modelling
+# 3 : Fixed effects
+# 0 : Mixed Effects: Simple OLS
+# 2 : Mixed Effects: FLAME 1
+# 1 : Mixed Effects: FLAME 1+2
+set fmri(mixed_yn) 0
+
+# Number of EVs
+set fmri(evs_orig) 1
+set fmri(evs_real) 1
+set fmri(evs_vox) 0
+
+# Number of contrasts
+set fmri(ncon_orig) 1
+set fmri(ncon_real) 1
+
+# Number of F-tests
+set fmri(nftests_orig) 0
+set fmri(nftests_real) 0
+
+# Add constant column to design matrix? (obsolete)
+set fmri(constcol) 0
+
+# Carry out post-stats steps?
+set fmri(poststats_yn) 0
+
+# Pre-threshold masking?
+set fmri(threshmask) ""
+
+# Thresholding
+# 0 : None
+# 1 : Uncorrected
+# 2 : Voxel
+# 3 : Cluster
+set fmri(thresh) 3
+
+# P threshold
+set fmri(prob_thresh) 0.05
+
+# Z threshold
+set fmri(z_thresh) 2.3
+
+# Z min/max for colour rendering
+# 0 : Use actual Z min/max
+# 1 : Use preset Z min/max
+set fmri(zdisplay) 0
+
+# Z min in colour rendering
+set fmri(zmin) 2
+
+# Z max in colour rendering
+set fmri(zmax) 8
+
+# Colour rendering type
+# 0 : Solid blobs
+# 1 : Transparent blobs
+set fmri(rendertype) 1
+
+# Background image for higher-level stats overlays
+# 1 : Mean highres
+# 2 : First highres
+# 3 : Mean functional
+# 4 : First functional
+# 5 : Standard space template
+set fmri(bgimage) 1
+
+# Create time series plots
+set fmri(tsplot_yn) 1
+
+# Registration to initial structural
+set fmri(reginitial_highres_yn) 0
+
+# Search space for registration to initial structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reginitial_highres_search) 90
+
+# Degrees of Freedom for registration to initial structural
+set fmri(reginitial_highres_dof) 3
+
+# Registration to main structural
+set fmri(reghighres_yn) 0
+
+# Search space for registration to main structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reghighres_search) 90
+
+# Degrees of Freedom for registration to main structural
+set fmri(reghighres_dof) BBR
+
+# Registration to standard image?
+set fmri(regstandard_yn) 1
+
+# Use alternate reference images?
+set fmri(alternateReference_yn) 0
+
+# Standard image
+set fmri(regstandard) "/Users/paulmc/fsl_builds/fsl-5_0_9/data/standard/MNI152_T1_2mm_brain"
+
+# Search space for registration to standard space
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(regstandard_search) 90
+
+# Degrees of Freedom for registration to standard space
+set fmri(regstandard_dof) 12
+
+# Do nonlinear registration from structural to standard space?
+set fmri(regstandard_nonlinear_yn) 0
+
+# Control nonlinear warp field resolution
+set fmri(regstandard_nonlinear_warpres) 10
+
+# High pass filter cutoff
+set fmri(paradigm_hp) 100
+
+# Number of lower-level copes feeding into higher-level analysis
+set fmri(ncopeinputs) 2
+
+# Use lower-level cope 1 for higher-level analysis
+set fmri(copeinput.1) 1
+
+# Use lower-level cope 2 for higher-level analysis
+set fmri(copeinput.2) 1
+
+# 4D AVW data or FEAT directory (1)
+set feat_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri.feat"
+
+# 4D AVW data or FEAT directory (2)
+set feat_files(2) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri1_fmri.feat"
+
+# 4D AVW data or FEAT directory (3)
+set feat_files(3) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri2_fmri.feat"
+
+# Add confound EVs text file
+set fmri(confoundevs) 0
+
+# EV 1 title
+set fmri(evtitle1) "mean"
+
+# Basic waveform shape (EV 1)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape1) 2
+
+# Convolution (EV 1)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve1) 0
+
+# Convolve phase (EV 1)
+set fmri(convolve_phase1) 0
+
+# Apply temporal filtering (EV 1)
+set fmri(tempfilt_yn1) 0
+
+# Add temporal derivative (EV 1)
+set fmri(deriv_yn1) 0
+
+# Custom EV file (EV 1)
+set fmri(custom1) "dummy"
+
+# Orthogonalise EV 1 wrt EV 0
+set fmri(ortho1.0) 0
+
+# Orthogonalise EV 1 wrt EV 1
+set fmri(ortho1.1) 0
+
+# Higher-level EV value for EV 1 and input 1
+set fmri(evg1.1) 1
+
+# Higher-level EV value for EV 1 and input 2
+set fmri(evg2.1) 1
+
+# Higher-level EV value for EV 1 and input 3
+set fmri(evg3.1) 1
+
+# Group membership for input 1
+set fmri(groupmem.1) 1
+
+# Group membership for input 2
+set fmri(groupmem.2) 1
+
+# Group membership for input 3
+set fmri(groupmem.3) 1
+
+# Contrast & F-tests mode
+# real : control real EVs
+# orig : control original EVs
+set fmri(con_mode_old) real
+set fmri(con_mode) real
+
+# Display images for contrast_real 1
+set fmri(conpic_real.1) 1
+
+# Title for contrast_real 1
+set fmri(conname_real.1) "group mean"
+
+# Real contrast_real vector 1 element 1
+set fmri(con_real1.1) 1
+
+# Contrast masking - use >0 instead of thresholding?
+set fmri(conmask_zerothresh_yn) 0
+
+# Do contrast masking at all?
+set fmri(conmask1_1) 0
+
+##########################################################
+# Now options that don't appear in the GUI
+
+# Alternative (to BETting) mask image
+set fmri(alternative_mask) ""
+
+# Initial structural space registration initialisation transform
+set fmri(init_initial_highres) ""
+
+# Structural space registration initialisation transform
+set fmri(init_highres) ""
+
+# Standard space registration initialisation transform
+set fmri(init_standard) ""
+
+# For full FEAT analysis: overwrite existing .feat output dir?
+set fmri(overwrite_yn) 0
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.grp b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.grp
new file mode 100644
index 000000000..d3bf7a597
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.grp
@@ -0,0 +1,7 @@
+/NumWaves 1
+/NumPoints 3
+
+/Matrix
+1
+1
+1
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.lcon b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.lcon
new file mode 100644
index 000000000..9a3efc11f
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.lcon
@@ -0,0 +1 @@
+1.48357333333
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.lev b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.lev
new file mode 100644
index 000000000..ce6e42341
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.lev
@@ -0,0 +1 @@
+auditory
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.mat b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.mat
new file mode 100644
index 000000000..47cd950eb
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/design.mat
@@ -0,0 +1,8 @@
+/NumWaves 1
+/NumPoints 3
+/PPheights 1.000000e+00
+
+/Matrix
+1.000000e+00
+1.000000e+00
+1.000000e+00
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/example_func.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/example_func.nii.gz
new file mode 100644
index 000000000..096916020
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/example_func.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/example_func.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/filtered_func_data.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/filtered_func_data.nii.gz
new file mode 100644
index 000000000..1c70f5119
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/filtered_func_data.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/filtered_func_data.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/lmax_zstat1_std.txt b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/lmax_zstat1_std.txt
new file mode 100644
index 000000000..1a5ff5b8e
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/lmax_zstat1_std.txt
@@ -0,0 +1,43 @@
+Cluster Index Z x y z
+7 5.23 -28 -72 -2
+7 4.95 8 -96 12
+7 4.94 36 -74 16
+7 4.89 46 -74 4
+7 4.88 24 -86 0
+7 4.81 22 -88 -6
+6 4.41 30 -34 10
+6 4.41 20 -26 4
+6 4.31 16 -4 0
+6 4.16 28 -34 4
+6 4.12 -22 16 10
+6 4.03 6 6 10
+5 4.56 48 14 12
+5 4.2 40 48 -4
+5 4.13 54 32 0
+5 4.1 52 28 0
+5 3.96 52 22 8
+5 3.94 46 20 10
+4 4.11 -44 20 6
+4 4.02 -58 20 16
+4 3.9 -38 28 10
+4 3.89 -40 30 -6
+4 3.8 -38 30 4
+4 3.77 -44 28 4
+3 4.07 -28 46 16
+3 3.74 -14 46 14
+3 3.63 -18 48 16
+3 3.1 -10 48 10
+3 2.92 -6 44 14
+3 2.68 -8 44 -4
+2 3.96 74 -34 10
+2 3.93 78 -42 12
+2 3.72 74 -42 14
+2 3.68 78 -38 14
+2 3.56 68 -34 4
+2 3.41 64 -38 10
+1 4.07 60 -8 -10
+1 3.69 48 -24 -8
+1 3.48 54 0 -10
+1 3.44 48 -12 -6
+1 3.31 40 -20 -4
+1 3.24 44 -18 -8
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/mask.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/mask.nii.gz
new file mode 100644
index 000000000..b691ddf27
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/mask.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/mask.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/mean_func.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/mean_func.nii.gz
new file mode 100644
index 000000000..26fcc1f7a
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/mean_func.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/mean_func.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/rendered_thresh_zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/rendered_thresh_zstat1.nii.gz
new file mode 100644
index 000000000..034bbadc0
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/rendered_thresh_zstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/rendered_thresh_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/cope1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/cope1.nii.gz
new file mode 100644
index 000000000..ce250f11f
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/cope1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/cope1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/dof b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/dof
new file mode 100644
index 000000000..0cfbf0888
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/dof
@@ -0,0 +1 @@
+2
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/logfile b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/logfile
new file mode 100644
index 000000000..a205bb84e
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/logfile
@@ -0,0 +1,3 @@
+/Users/paulmc/fsl_builds/fsl-5_0_9/bin/flameo --cope=filtered_func_data --vc=var_filtered_func_data --mask=mask --ld=stats --dm=design.mat --cs=design.grp --tc=design.con --runmode=ols
+---------------------------------------------
+
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/mean_random_effects_var1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/mean_random_effects_var1.nii.gz
new file mode 100644
index 000000000..d5960171a
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/mean_random_effects_var1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/mean_random_effects_var1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/pe1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/pe1.nii.gz
new file mode 100644
index 000000000..185b868f5
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/pe1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/pe1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/res4d.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/res4d.nii.gz
new file mode 100644
index 000000000..53d4bbffe
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/res4d.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/res4d.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/smoothness b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/smoothness
new file mode 100644
index 000000000..aef844221
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/smoothness
@@ -0,0 +1,3 @@
+DLH 0.123905
+VOLUME 65410
+RESELS 40.9855
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/tdof_t1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/tdof_t1.nii.gz
new file mode 100644
index 000000000..dce16caac
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/tdof_t1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/tdof_t1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/tstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/tstat1.nii.gz
new file mode 100644
index 000000000..c5ac3fbdd
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/tstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/tstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/varcope1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/varcope1.nii.gz
new file mode 100644
index 000000000..9131a71ac
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/varcope1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/varcope1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/weights1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/weights1.nii.gz
new file mode 100644
index 000000000..ee3af94bf
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/weights1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/weights1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/zflame1lowertstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/zflame1lowertstat1.nii.gz
new file mode 100644
index 000000000..3b87a33a0
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/zflame1lowertstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/zflame1lowertstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/zflame1uppertstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/zflame1uppertstat1.nii.gz
new file mode 100644
index 000000000..e36d89548
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/zflame1uppertstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/zflame1uppertstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/zstat1.nii.gz
new file mode 100644
index 000000000..1b5013d6c
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/stats/zstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/thresh_zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/thresh_zstat1.nii.gz
new file mode 100644
index 000000000..705069fa5
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/thresh_zstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/thresh_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/thresh_zstat1.vol b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/thresh_zstat1.vol
new file mode 100644
index 000000000..2c34a7413
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/thresh_zstat1.vol
@@ -0,0 +1 @@
+65410
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/var_filtered_func_data.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/var_filtered_func_data.nii.gz
new file mode 100644
index 000000000..9e78ce456
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope1.feat/var_filtered_func_data.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/var_filtered_func_data.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/.flame b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/.flame
new file mode 100755
index 000000000..adc45826c
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/.flame
@@ -0,0 +1 @@
+/Users/paulmc/fsl_builds/fsl-5_0_9/bin/flameo --cope=filtered_func_data --vc=var_filtered_func_data --mask=mask --ld=stats --dm=design.mat --cs=design.grp --tc=design.con --runmode=ols
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/cluster_mask_zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/cluster_mask_zstat1.nii.gz
new file mode 100644
index 000000000..a7e59ab69
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/cluster_mask_zstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/cluster_mask_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/cluster_zstat1_std.txt b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/cluster_zstat1_std.txt
new file mode 100644
index 000000000..e621f2fb8
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/cluster_zstat1_std.txt
@@ -0,0 +1,2 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (mm) Z-MAX Y (mm) Z-MAX Z (mm) Z-COG X (mm) Z-COG Y (mm) Z-COG Z (mm) COPE-MAX COPE-MAX X (mm) COPE-MAX Y (mm) COPE-MAX Z (mm) COPE-MEAN
+1 17872 0 85.4 5.34 -58 -22 0 -4.25 -18.3 1.01 408 -60 -30 10 50.8
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.con b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.con
new file mode 100644
index 000000000..e804251b1
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.con
@@ -0,0 +1,8 @@
+/ContrastName1 group mean
+/NumWaves 1
+/NumContrasts 1
+/PPheights 1.000000e+00
+/RequiredEffect 1119.478
+
+/Matrix
+1.000000e+00
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.fsf b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.fsf
new file mode 100644
index 000000000..c45c57646
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.fsf
@@ -0,0 +1,378 @@
+
+# FEAT version number
+set fmri(version) 6.00
+
+# Are we in MELODIC?
+set fmri(inmelodic) 0
+
+# Analysis level
+# 1 : First-level analysis
+# 2 : Higher-level analysis
+set fmri(level) 2
+
+# Which stages to run
+# 0 : No first-level analysis (registration and/or group stats only)
+# 7 : Full first-level analysis
+# 1 : Pre-processing
+# 2 : Statistics
+set fmri(analysis) 2
+
+# Use relative filenames
+set fmri(relative_yn) 0
+
+# Balloon help
+set fmri(help_yn) 1
+
+# Run Featwatcher
+set fmri(featwatcher_yn) 1
+
+# Cleanup first-level standard-space images
+set fmri(sscleanup_yn) 0
+
+# Output directory
+set fmri(outputdir) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_1"
+
+# TR(s)
+set fmri(tr) 3
+
+# Total volumes
+set fmri(npts) 3
+
+# Delete volumes
+set fmri(ndelete) 0
+
+# Perfusion tag/control order
+set fmri(tagfirst) 1
+
+# Number of first-level analyses
+set fmri(multiple) 3
+
+# Higher-level input type
+# 1 : Inputs are lower-level FEAT directories
+# 2 : Inputs are cope images from FEAT directories
+set fmri(inputtype) 1
+
+# Carry out pre-stats processing?
+set fmri(filtering_yn) 0
+
+# Brain/background threshold, %
+set fmri(brain_thresh) 10
+
+# Critical z for design efficiency calculation
+set fmri(critical_z) 5.3
+
+# Noise level
+set fmri(noise) 0.66
+
+# Noise AR(1)
+set fmri(noisear) 0.34
+
+# Motion correction
+# 0 : None
+# 1 : MCFLIRT
+set fmri(mc) 1
+
+# Spin-history (currently obsolete)
+set fmri(sh_yn) 0
+
+# B0 fieldmap unwarping?
+set fmri(regunwarp_yn) 0
+
+# EPI dwell time (ms)
+set fmri(dwell) 0.7
+
+# EPI TE (ms)
+set fmri(te) 35
+
+# % Signal loss threshold
+set fmri(signallossthresh) 10
+
+# Unwarp direction
+set fmri(unwarp_dir) y-
+
+# Slice timing correction
+# 0 : None
+# 1 : Regular up (0, 1, 2, 3, ...)
+# 2 : Regular down
+# 3 : Use slice order file
+# 4 : Use slice timings file
+# 5 : Interleaved (0, 2, 4 ... 1, 3, 5 ... )
+set fmri(st) 0
+
+# Slice timings file
+set fmri(st_file) ""
+
+# BET brain extraction
+set fmri(bet_yn) 1
+
+# Spatial smoothing FWHM (mm)
+set fmri(smooth) 5
+
+# Intensity normalization
+set fmri(norm_yn) 0
+
+# Perfusion subtraction
+set fmri(perfsub_yn) 0
+
+# Highpass temporal filtering
+set fmri(temphp_yn) 1
+
+# Lowpass temporal filtering
+set fmri(templp_yn) 0
+
+# MELODIC ICA data exploration
+set fmri(melodic_yn) 0
+
+# Carry out main stats?
+set fmri(stats_yn) 1
+
+# Carry out prewhitening?
+set fmri(prewhiten_yn) 1
+
+# Add motion parameters to model
+# 0 : No
+# 1 : Yes
+set fmri(motionevs) 0
+set fmri(motionevsbeta) ""
+set fmri(scriptevsbeta) ""
+
+# Robust outlier detection in FLAME?
+set fmri(robust_yn) 0
+
+# Higher-level modelling
+# 3 : Fixed effects
+# 0 : Mixed Effects: Simple OLS
+# 2 : Mixed Effects: FLAME 1
+# 1 : Mixed Effects: FLAME 1+2
+set fmri(mixed_yn) 0
+
+# Number of EVs
+set fmri(evs_orig) 1
+set fmri(evs_real) 1
+set fmri(evs_vox) 0
+
+# Number of contrasts
+set fmri(ncon_orig) 1
+set fmri(ncon_real) 1
+
+# Number of F-tests
+set fmri(nftests_orig) 0
+set fmri(nftests_real) 0
+
+# Add constant column to design matrix? (obsolete)
+set fmri(constcol) 0
+
+# Carry out post-stats steps?
+set fmri(poststats_yn) 0
+
+# Pre-threshold masking?
+set fmri(threshmask) ""
+
+# Thresholding
+# 0 : None
+# 1 : Uncorrected
+# 2 : Voxel
+# 3 : Cluster
+set fmri(thresh) 3
+
+# P threshold
+set fmri(prob_thresh) 0.05
+
+# Z threshold
+set fmri(z_thresh) 2.3
+
+# Z min/max for colour rendering
+# 0 : Use actual Z min/max
+# 1 : Use preset Z min/max
+set fmri(zdisplay) 0
+
+# Z min in colour rendering
+set fmri(zmin) 2
+
+# Z max in colour rendering
+set fmri(zmax) 8
+
+# Colour rendering type
+# 0 : Solid blobs
+# 1 : Transparent blobs
+set fmri(rendertype) 1
+
+# Background image for higher-level stats overlays
+# 1 : Mean highres
+# 2 : First highres
+# 3 : Mean functional
+# 4 : First functional
+# 5 : Standard space template
+set fmri(bgimage) 1
+
+# Create time series plots
+set fmri(tsplot_yn) 1
+
+# Registration to initial structural
+set fmri(reginitial_highres_yn) 0
+
+# Search space for registration to initial structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reginitial_highres_search) 90
+
+# Degrees of Freedom for registration to initial structural
+set fmri(reginitial_highres_dof) 3
+
+# Registration to main structural
+set fmri(reghighres_yn) 0
+
+# Search space for registration to main structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reghighres_search) 90
+
+# Degrees of Freedom for registration to main structural
+set fmri(reghighres_dof) BBR
+
+# Registration to standard image?
+set fmri(regstandard_yn) 1
+
+# Use alternate reference images?
+set fmri(alternateReference_yn) 0
+
+# Standard image
+set fmri(regstandard) "/Users/paulmc/fsl_builds/fsl-5_0_9/data/standard/MNI152_T1_2mm_brain"
+
+# Search space for registration to standard space
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(regstandard_search) 90
+
+# Degrees of Freedom for registration to standard space
+set fmri(regstandard_dof) 12
+
+# Do nonlinear registration from structural to standard space?
+set fmri(regstandard_nonlinear_yn) 0
+
+# Control nonlinear warp field resolution
+set fmri(regstandard_nonlinear_warpres) 10
+
+# High pass filter cutoff
+set fmri(paradigm_hp) 100
+
+# Number of lower-level copes feeding into higher-level analysis
+set fmri(ncopeinputs) 2
+
+# Use lower-level cope 1 for higher-level analysis
+set fmri(copeinput.1) 1
+
+# Use lower-level cope 2 for higher-level analysis
+set fmri(copeinput.2) 1
+
+# 4D AVW data or FEAT directory (1)
+set feat_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri.feat"
+
+# 4D AVW data or FEAT directory (2)
+set feat_files(2) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri1_fmri.feat"
+
+# 4D AVW data or FEAT directory (3)
+set feat_files(3) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri2_fmri.feat"
+
+# Add confound EVs text file
+set fmri(confoundevs) 0
+
+# EV 1 title
+set fmri(evtitle1) "mean"
+
+# Basic waveform shape (EV 1)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape1) 2
+
+# Convolution (EV 1)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve1) 0
+
+# Convolve phase (EV 1)
+set fmri(convolve_phase1) 0
+
+# Apply temporal filtering (EV 1)
+set fmri(tempfilt_yn1) 0
+
+# Add temporal derivative (EV 1)
+set fmri(deriv_yn1) 0
+
+# Custom EV file (EV 1)
+set fmri(custom1) "dummy"
+
+# Orthogonalise EV 1 wrt EV 0
+set fmri(ortho1.0) 0
+
+# Orthogonalise EV 1 wrt EV 1
+set fmri(ortho1.1) 0
+
+# Higher-level EV value for EV 1 and input 1
+set fmri(evg1.1) 1
+
+# Higher-level EV value for EV 1 and input 2
+set fmri(evg2.1) 1
+
+# Higher-level EV value for EV 1 and input 3
+set fmri(evg3.1) 1
+
+# Group membership for input 1
+set fmri(groupmem.1) 1
+
+# Group membership for input 2
+set fmri(groupmem.2) 1
+
+# Group membership for input 3
+set fmri(groupmem.3) 1
+
+# Contrast & F-tests mode
+# real : control real EVs
+# orig : control original EVs
+set fmri(con_mode_old) real
+set fmri(con_mode) real
+
+# Display images for contrast_real 1
+set fmri(conpic_real.1) 1
+
+# Title for contrast_real 1
+set fmri(conname_real.1) "group mean"
+
+# Real contrast_real vector 1 element 1
+set fmri(con_real1.1) 1
+
+# Contrast masking - use >0 instead of thresholding?
+set fmri(conmask_zerothresh_yn) 0
+
+# Do contrast masking at all?
+set fmri(conmask1_1) 0
+
+##########################################################
+# Now options that don't appear in the GUI
+
+# Alternative (to BETting) mask image
+set fmri(alternative_mask) ""
+
+# Initial structural space registration initialisation transform
+set fmri(init_initial_highres) ""
+
+# Structural space registration initialisation transform
+set fmri(init_highres) ""
+
+# Standard space registration initialisation transform
+set fmri(init_standard) ""
+
+# For full FEAT analysis: overwrite existing .feat output dir?
+set fmri(overwrite_yn) 0
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.grp b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.grp
new file mode 100644
index 000000000..d3bf7a597
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.grp
@@ -0,0 +1,7 @@
+/NumWaves 1
+/NumPoints 3
+
+/Matrix
+1
+1
+1
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.lcon b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.lcon
new file mode 100644
index 000000000..f47c50abb
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.lcon
@@ -0,0 +1 @@
+1.32922633333
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.lev b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.lev
new file mode 100644
index 000000000..bbf8bc93e
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.lev
@@ -0,0 +1 @@
+visual
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.mat b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.mat
new file mode 100644
index 000000000..47cd950eb
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/design.mat
@@ -0,0 +1,8 @@
+/NumWaves 1
+/NumPoints 3
+/PPheights 1.000000e+00
+
+/Matrix
+1.000000e+00
+1.000000e+00
+1.000000e+00
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/example_func.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/example_func.nii.gz
new file mode 100644
index 000000000..b4ce77d9b
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/example_func.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/example_func.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/filtered_func_data.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/filtered_func_data.nii.gz
new file mode 100644
index 000000000..ec3e3fc95
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/filtered_func_data.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/filtered_func_data.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/lmax_zstat1_std.txt b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/lmax_zstat1_std.txt
new file mode 100644
index 000000000..9e11524f1
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/lmax_zstat1_std.txt
@@ -0,0 +1,7 @@
+Cluster Index Z x y z
+1 5.34 -58 -22 0
+1 5.31 -46 -14 -4
+1 5.3 42 -2 -2
+1 5.15 -50 -26 -2
+1 5.01 30 -4 -2
+1 4.93 -52 -4 -6
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/mask.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/mask.nii.gz
new file mode 100644
index 000000000..f6e199d6f
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/mask.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/mask.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/mean_func.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/mean_func.nii.gz
new file mode 100644
index 000000000..90d05246e
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/mean_func.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/mean_func.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/rendered_thresh_zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/rendered_thresh_zstat1.nii.gz
new file mode 100644
index 000000000..199ac3420
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/rendered_thresh_zstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/rendered_thresh_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/cope1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/cope1.nii.gz
new file mode 100644
index 000000000..9b19c4c16
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/cope1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/cope1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/dof b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/dof
new file mode 100644
index 000000000..0cfbf0888
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/dof
@@ -0,0 +1 @@
+2
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/logfile b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/logfile
new file mode 100644
index 000000000..a205bb84e
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/logfile
@@ -0,0 +1,3 @@
+/Users/paulmc/fsl_builds/fsl-5_0_9/bin/flameo --cope=filtered_func_data --vc=var_filtered_func_data --mask=mask --ld=stats --dm=design.mat --cs=design.grp --tc=design.con --runmode=ols
+---------------------------------------------
+
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/mean_random_effects_var1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/mean_random_effects_var1.nii.gz
new file mode 100644
index 000000000..55567aeb5
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/mean_random_effects_var1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/mean_random_effects_var1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/pe1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/pe1.nii.gz
new file mode 100644
index 000000000..29813a2aa
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/pe1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/pe1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/res4d.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/res4d.nii.gz
new file mode 100644
index 000000000..cfb8d83d3
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/res4d.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/res4d.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/smoothness b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/smoothness
new file mode 100644
index 000000000..a62b75811
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/smoothness
@@ -0,0 +1,3 @@
+DLH 0.16676
+VOLUME 65410
+RESELS 30.4529
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/tdof_t1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/tdof_t1.nii.gz
new file mode 100644
index 000000000..89d2748b3
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/tdof_t1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/tdof_t1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/tstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/tstat1.nii.gz
new file mode 100644
index 000000000..fd4bc98f2
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/tstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/tstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/varcope1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/varcope1.nii.gz
new file mode 100644
index 000000000..8e53e8ebc
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/varcope1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/varcope1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/weights1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/weights1.nii.gz
new file mode 100644
index 000000000..028abc517
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/weights1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/weights1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/zflame1lowertstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/zflame1lowertstat1.nii.gz
new file mode 100644
index 000000000..a67e9329b
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/zflame1lowertstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/zflame1lowertstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/zflame1uppertstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/zflame1uppertstat1.nii.gz
new file mode 100644
index 000000000..cc91aab56
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/zflame1uppertstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/zflame1uppertstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/zstat1.nii.gz
new file mode 100644
index 000000000..09031b5a7
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/stats/zstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/thresh_zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/thresh_zstat1.nii.gz
new file mode 100644
index 000000000..11b327787
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/thresh_zstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/thresh_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/thresh_zstat1.vol b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/thresh_zstat1.vol
new file mode 100644
index 000000000..2c34a7413
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/thresh_zstat1.vol
@@ -0,0 +1 @@
+65410
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/var_filtered_func_data.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/var_filtered_func_data.nii.gz
new file mode 100644
index 000000000..d3ee67522
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/cope2.feat/var_filtered_func_data.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/var_filtered_func_data.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/design.con b/tests/testdata/test_feat/2ndlevel_1.gfeat/design.con
new file mode 100644
index 000000000..e804251b1
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/design.con
@@ -0,0 +1,8 @@
+/ContrastName1 group mean
+/NumWaves 1
+/NumContrasts 1
+/PPheights 1.000000e+00
+/RequiredEffect 1119.478
+
+/Matrix
+1.000000e+00
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/design.fsf b/tests/testdata/test_feat/2ndlevel_1.gfeat/design.fsf
new file mode 100644
index 000000000..c45c57646
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/design.fsf
@@ -0,0 +1,378 @@
+
+# FEAT version number
+set fmri(version) 6.00
+
+# Are we in MELODIC?
+set fmri(inmelodic) 0
+
+# Analysis level
+# 1 : First-level analysis
+# 2 : Higher-level analysis
+set fmri(level) 2
+
+# Which stages to run
+# 0 : No first-level analysis (registration and/or group stats only)
+# 7 : Full first-level analysis
+# 1 : Pre-processing
+# 2 : Statistics
+set fmri(analysis) 2
+
+# Use relative filenames
+set fmri(relative_yn) 0
+
+# Balloon help
+set fmri(help_yn) 1
+
+# Run Featwatcher
+set fmri(featwatcher_yn) 1
+
+# Cleanup first-level standard-space images
+set fmri(sscleanup_yn) 0
+
+# Output directory
+set fmri(outputdir) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_1"
+
+# TR(s)
+set fmri(tr) 3
+
+# Total volumes
+set fmri(npts) 3
+
+# Delete volumes
+set fmri(ndelete) 0
+
+# Perfusion tag/control order
+set fmri(tagfirst) 1
+
+# Number of first-level analyses
+set fmri(multiple) 3
+
+# Higher-level input type
+# 1 : Inputs are lower-level FEAT directories
+# 2 : Inputs are cope images from FEAT directories
+set fmri(inputtype) 1
+
+# Carry out pre-stats processing?
+set fmri(filtering_yn) 0
+
+# Brain/background threshold, %
+set fmri(brain_thresh) 10
+
+# Critical z for design efficiency calculation
+set fmri(critical_z) 5.3
+
+# Noise level
+set fmri(noise) 0.66
+
+# Noise AR(1)
+set fmri(noisear) 0.34
+
+# Motion correction
+# 0 : None
+# 1 : MCFLIRT
+set fmri(mc) 1
+
+# Spin-history (currently obsolete)
+set fmri(sh_yn) 0
+
+# B0 fieldmap unwarping?
+set fmri(regunwarp_yn) 0
+
+# EPI dwell time (ms)
+set fmri(dwell) 0.7
+
+# EPI TE (ms)
+set fmri(te) 35
+
+# % Signal loss threshold
+set fmri(signallossthresh) 10
+
+# Unwarp direction
+set fmri(unwarp_dir) y-
+
+# Slice timing correction
+# 0 : None
+# 1 : Regular up (0, 1, 2, 3, ...)
+# 2 : Regular down
+# 3 : Use slice order file
+# 4 : Use slice timings file
+# 5 : Interleaved (0, 2, 4 ... 1, 3, 5 ... )
+set fmri(st) 0
+
+# Slice timings file
+set fmri(st_file) ""
+
+# BET brain extraction
+set fmri(bet_yn) 1
+
+# Spatial smoothing FWHM (mm)
+set fmri(smooth) 5
+
+# Intensity normalization
+set fmri(norm_yn) 0
+
+# Perfusion subtraction
+set fmri(perfsub_yn) 0
+
+# Highpass temporal filtering
+set fmri(temphp_yn) 1
+
+# Lowpass temporal filtering
+set fmri(templp_yn) 0
+
+# MELODIC ICA data exploration
+set fmri(melodic_yn) 0
+
+# Carry out main stats?
+set fmri(stats_yn) 1
+
+# Carry out prewhitening?
+set fmri(prewhiten_yn) 1
+
+# Add motion parameters to model
+# 0 : No
+# 1 : Yes
+set fmri(motionevs) 0
+set fmri(motionevsbeta) ""
+set fmri(scriptevsbeta) ""
+
+# Robust outlier detection in FLAME?
+set fmri(robust_yn) 0
+
+# Higher-level modelling
+# 3 : Fixed effects
+# 0 : Mixed Effects: Simple OLS
+# 2 : Mixed Effects: FLAME 1
+# 1 : Mixed Effects: FLAME 1+2
+set fmri(mixed_yn) 0
+
+# Number of EVs
+set fmri(evs_orig) 1
+set fmri(evs_real) 1
+set fmri(evs_vox) 0
+
+# Number of contrasts
+set fmri(ncon_orig) 1
+set fmri(ncon_real) 1
+
+# Number of F-tests
+set fmri(nftests_orig) 0
+set fmri(nftests_real) 0
+
+# Add constant column to design matrix? (obsolete)
+set fmri(constcol) 0
+
+# Carry out post-stats steps?
+set fmri(poststats_yn) 0
+
+# Pre-threshold masking?
+set fmri(threshmask) ""
+
+# Thresholding
+# 0 : None
+# 1 : Uncorrected
+# 2 : Voxel
+# 3 : Cluster
+set fmri(thresh) 3
+
+# P threshold
+set fmri(prob_thresh) 0.05
+
+# Z threshold
+set fmri(z_thresh) 2.3
+
+# Z min/max for colour rendering
+# 0 : Use actual Z min/max
+# 1 : Use preset Z min/max
+set fmri(zdisplay) 0
+
+# Z min in colour rendering
+set fmri(zmin) 2
+
+# Z max in colour rendering
+set fmri(zmax) 8
+
+# Colour rendering type
+# 0 : Solid blobs
+# 1 : Transparent blobs
+set fmri(rendertype) 1
+
+# Background image for higher-level stats overlays
+# 1 : Mean highres
+# 2 : First highres
+# 3 : Mean functional
+# 4 : First functional
+# 5 : Standard space template
+set fmri(bgimage) 1
+
+# Create time series plots
+set fmri(tsplot_yn) 1
+
+# Registration to initial structural
+set fmri(reginitial_highres_yn) 0
+
+# Search space for registration to initial structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reginitial_highres_search) 90
+
+# Degrees of Freedom for registration to initial structural
+set fmri(reginitial_highres_dof) 3
+
+# Registration to main structural
+set fmri(reghighres_yn) 0
+
+# Search space for registration to main structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reghighres_search) 90
+
+# Degrees of Freedom for registration to main structural
+set fmri(reghighres_dof) BBR
+
+# Registration to standard image?
+set fmri(regstandard_yn) 1
+
+# Use alternate reference images?
+set fmri(alternateReference_yn) 0
+
+# Standard image
+set fmri(regstandard) "/Users/paulmc/fsl_builds/fsl-5_0_9/data/standard/MNI152_T1_2mm_brain"
+
+# Search space for registration to standard space
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(regstandard_search) 90
+
+# Degrees of Freedom for registration to standard space
+set fmri(regstandard_dof) 12
+
+# Do nonlinear registration from structural to standard space?
+set fmri(regstandard_nonlinear_yn) 0
+
+# Control nonlinear warp field resolution
+set fmri(regstandard_nonlinear_warpres) 10
+
+# High pass filter cutoff
+set fmri(paradigm_hp) 100
+
+# Number of lower-level copes feeding into higher-level analysis
+set fmri(ncopeinputs) 2
+
+# Use lower-level cope 1 for higher-level analysis
+set fmri(copeinput.1) 1
+
+# Use lower-level cope 2 for higher-level analysis
+set fmri(copeinput.2) 1
+
+# 4D AVW data or FEAT directory (1)
+set feat_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri.feat"
+
+# 4D AVW data or FEAT directory (2)
+set feat_files(2) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri1_fmri.feat"
+
+# 4D AVW data or FEAT directory (3)
+set feat_files(3) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri2_fmri.feat"
+
+# Add confound EVs text file
+set fmri(confoundevs) 0
+
+# EV 1 title
+set fmri(evtitle1) "mean"
+
+# Basic waveform shape (EV 1)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape1) 2
+
+# Convolution (EV 1)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve1) 0
+
+# Convolve phase (EV 1)
+set fmri(convolve_phase1) 0
+
+# Apply temporal filtering (EV 1)
+set fmri(tempfilt_yn1) 0
+
+# Add temporal derivative (EV 1)
+set fmri(deriv_yn1) 0
+
+# Custom EV file (EV 1)
+set fmri(custom1) "dummy"
+
+# Orthogonalise EV 1 wrt EV 0
+set fmri(ortho1.0) 0
+
+# Orthogonalise EV 1 wrt EV 1
+set fmri(ortho1.1) 0
+
+# Higher-level EV value for EV 1 and input 1
+set fmri(evg1.1) 1
+
+# Higher-level EV value for EV 1 and input 2
+set fmri(evg2.1) 1
+
+# Higher-level EV value for EV 1 and input 3
+set fmri(evg3.1) 1
+
+# Group membership for input 1
+set fmri(groupmem.1) 1
+
+# Group membership for input 2
+set fmri(groupmem.2) 1
+
+# Group membership for input 3
+set fmri(groupmem.3) 1
+
+# Contrast & F-tests mode
+# real : control real EVs
+# orig : control original EVs
+set fmri(con_mode_old) real
+set fmri(con_mode) real
+
+# Display images for contrast_real 1
+set fmri(conpic_real.1) 1
+
+# Title for contrast_real 1
+set fmri(conname_real.1) "group mean"
+
+# Real contrast_real vector 1 element 1
+set fmri(con_real1.1) 1
+
+# Contrast masking - use >0 instead of thresholding?
+set fmri(conmask_zerothresh_yn) 0
+
+# Do contrast masking at all?
+set fmri(conmask1_1) 0
+
+##########################################################
+# Now options that don't appear in the GUI
+
+# Alternative (to BETting) mask image
+set fmri(alternative_mask) ""
+
+# Initial structural space registration initialisation transform
+set fmri(init_initial_highres) ""
+
+# Structural space registration initialisation transform
+set fmri(init_highres) ""
+
+# Standard space registration initialisation transform
+set fmri(init_standard) ""
+
+# For full FEAT analysis: overwrite existing .feat output dir?
+set fmri(overwrite_yn) 0
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/design.grp b/tests/testdata/test_feat/2ndlevel_1.gfeat/design.grp
new file mode 100644
index 000000000..d3bf7a597
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/design.grp
@@ -0,0 +1,7 @@
+/NumWaves 1
+/NumPoints 3
+
+/Matrix
+1
+1
+1
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/design.lcon b/tests/testdata/test_feat/2ndlevel_1.gfeat/design.lcon
new file mode 100644
index 000000000..f986d24a5
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/design.lcon
@@ -0,0 +1 @@
+1.48357333333 1.32922633333
\ No newline at end of file
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/design.mat b/tests/testdata/test_feat/2ndlevel_1.gfeat/design.mat
new file mode 100644
index 000000000..47cd950eb
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/design.mat
@@ -0,0 +1,8 @@
+/NumWaves 1
+/NumPoints 3
+/PPheights 1.000000e+00
+
+/Matrix
+1.000000e+00
+1.000000e+00
+1.000000e+00
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/inputreg/masksum.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/inputreg/masksum.nii.gz
new file mode 100644
index 000000000..fa4f11ee1
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/inputreg/masksum.nii.gz
@@ -0,0 +1 @@
+./inputreg/masksum.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/inputreg/masksum_overlay.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/inputreg/masksum_overlay.nii.gz
new file mode 100644
index 000000000..72ea8e942
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/inputreg/masksum_overlay.nii.gz
@@ -0,0 +1 @@
+./inputreg/masksum_overlay.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/inputreg/maskunique.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/inputreg/maskunique.nii.gz
new file mode 100644
index 000000000..b5d4ae2f6
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/inputreg/maskunique.nii.gz
@@ -0,0 +1 @@
+./inputreg/maskunique.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/inputreg/maskunique_overlay.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/inputreg/maskunique_overlay.nii.gz
new file mode 100644
index 000000000..8391a277d
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/inputreg/maskunique_overlay.nii.gz
@@ -0,0 +1 @@
+./inputreg/maskunique_overlay.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/mask.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/mask.nii.gz
new file mode 100644
index 000000000..6ded8cbea
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/mask.nii.gz
@@ -0,0 +1 @@
+./mask.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_1.gfeat/mean_func.nii.gz b/tests/testdata/test_feat/2ndlevel_1.gfeat/mean_func.nii.gz
new file mode 100644
index 000000000..2f367aa5b
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_1.gfeat/mean_func.nii.gz
@@ -0,0 +1 @@
+./mean_func.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/bg_image.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/bg_image.nii.gz
new file mode 100644
index 000000000..18adb2229
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/bg_image.nii.gz
@@ -0,0 +1 @@
+./bg_image.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/.flame b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/.flame
new file mode 100755
index 000000000..e638e04d0
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/.flame
@@ -0,0 +1 @@
+/Users/paulmc/fsl_builds/fsl-5_0_9/bin/flameo --cope=filtered_func_data --vc=var_filtered_func_data --mask=mask --ld=stats --dm=design.mat --cs=design.grp --tc=design.con --runmode=ols --voxelwise_ev_numbers=2 --voxelwise_ev_filenames=/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_voxelwise_confounds.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/cluster_mask_zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/cluster_mask_zstat1.nii.gz
new file mode 100644
index 000000000..20fc6eb3b
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/cluster_mask_zstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/cluster_mask_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/cluster_zstat1_std.txt b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/cluster_zstat1_std.txt
new file mode 100644
index 000000000..9650e4476
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/cluster_zstat1_std.txt
@@ -0,0 +1,11 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (mm) Z-MAX Y (mm) Z-MAX Z (mm) Z-COG X (mm) Z-COG Y (mm) Z-COG Z (mm) COPE-MAX COPE-MAX X (mm) COPE-MAX Y (mm) COPE-MAX Z (mm) COPE-MEAN
+10 2058 0 145 4.18 36 -88 12 3.74 -80.4 2.29 865 -50 -56 2 97.2
+9 55 8.95e-11 10 3.37 20 -34 6 19.5 -28.1 6.44 110 10 -22 10 41.4
+8 43 9.08e-09 8.04 3.06 -46 28 10 -47.7 22.6 5.11 112 -54 22 4 46.4
+7 32 9.54e-07 6.02 3.5 54 32 0 53.4 29.7 1.21 68.6 54 30 2 42.9
+6 21 0.00017 3.77 3.93 16 -8 8 16.4 -5.41 2.97 38.8 18 0 4 20.9
+5 20 0.000285 3.55 4 54 24 8 50.3 21 7.62 56.2 50 26 8 27.4
+4 14 0.00763 2.12 3.37 -20 10 8 -21 15.3 9.1 32.8 -20 10 8 17.6
+3 13 0.0137 1.86 2.85 -38 12 14 -40.8 15 11.8 40.4 -36 18 10 20
+2 12 0.0251 1.6 3.63 42 -48 16 42.5 -47.3 12.4 58 42 -52 16 26.8
+1 11 0.0462 1.34 3.11 -28 46 16 -25.7 43.3 14.9 59.3 -24 48 16 41.3
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.con b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.con
new file mode 100644
index 000000000..e487eef00
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.con
@@ -0,0 +1,8 @@
+/ContrastName1 group mean
+/NumWaves 2
+/NumContrasts 1
+/PPheights 1.971480e-04
+/RequiredEffect 5128643.500
+
+/Matrix
+1.000000e+00 0.000000e+00
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.fsf b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.fsf
new file mode 100644
index 000000000..2bf1e00c1
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.fsf
@@ -0,0 +1,384 @@
+
+# FEAT version number
+set fmri(version) 6.00
+
+# Are we in MELODIC?
+set fmri(inmelodic) 0
+
+# Analysis level
+# 1 : First-level analysis
+# 2 : Higher-level analysis
+set fmri(level) 2
+
+# Which stages to run
+# 0 : No first-level analysis (registration and/or group stats only)
+# 7 : Full first-level analysis
+# 1 : Pre-processing
+# 2 : Statistics
+set fmri(analysis) 2
+
+# Use relative filenames
+set fmri(relative_yn) 0
+
+# Balloon help
+set fmri(help_yn) 1
+
+# Run Featwatcher
+set fmri(featwatcher_yn) 1
+
+# Cleanup first-level standard-space images
+set fmri(sscleanup_yn) 0
+
+# Output directory
+set fmri(outputdir) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_2"
+
+# TR(s)
+set fmri(tr) 3
+
+# Total volumes
+set fmri(npts) 3
+
+# Delete volumes
+set fmri(ndelete) 0
+
+# Perfusion tag/control order
+set fmri(tagfirst) 1
+
+# Number of first-level analyses
+set fmri(multiple) 3
+
+# Higher-level input type
+# 1 : Inputs are lower-level FEAT directories
+# 2 : Inputs are cope images from FEAT directories
+set fmri(inputtype) 1
+
+# Carry out pre-stats processing?
+set fmri(filtering_yn) 0
+
+# Brain/background threshold, %
+set fmri(brain_thresh) 10
+
+# Critical z for design efficiency calculation
+set fmri(critical_z) 5.3
+
+# Noise level
+set fmri(noise) 0.66
+
+# Noise AR(1)
+set fmri(noisear) 0.34
+
+# Motion correction
+# 0 : None
+# 1 : MCFLIRT
+set fmri(mc) 1
+
+# Spin-history (currently obsolete)
+set fmri(sh_yn) 0
+
+# B0 fieldmap unwarping?
+set fmri(regunwarp_yn) 0
+
+# EPI dwell time (ms)
+set fmri(dwell) 0.7
+
+# EPI TE (ms)
+set fmri(te) 35
+
+# % Signal loss threshold
+set fmri(signallossthresh) 10
+
+# Unwarp direction
+set fmri(unwarp_dir) y-
+
+# Slice timing correction
+# 0 : None
+# 1 : Regular up (0, 1, 2, 3, ...)
+# 2 : Regular down
+# 3 : Use slice order file
+# 4 : Use slice timings file
+# 5 : Interleaved (0, 2, 4 ... 1, 3, 5 ... )
+set fmri(st) 0
+
+# Slice timings file
+set fmri(st_file) ""
+
+# BET brain extraction
+set fmri(bet_yn) 1
+
+# Spatial smoothing FWHM (mm)
+set fmri(smooth) 5
+
+# Intensity normalization
+set fmri(norm_yn) 0
+
+# Perfusion subtraction
+set fmri(perfsub_yn) 0
+
+# Highpass temporal filtering
+set fmri(temphp_yn) 1
+
+# Lowpass temporal filtering
+set fmri(templp_yn) 0
+
+# MELODIC ICA data exploration
+set fmri(melodic_yn) 0
+
+# Carry out main stats?
+set fmri(stats_yn) 1
+
+# Carry out prewhitening?
+set fmri(prewhiten_yn) 1
+
+# Add motion parameters to model
+# 0 : No
+# 1 : Yes
+set fmri(motionevs) 0
+set fmri(motionevsbeta) ""
+set fmri(scriptevsbeta) ""
+
+# Robust outlier detection in FLAME?
+set fmri(robust_yn) 0
+
+# Higher-level modelling
+# 3 : Fixed effects
+# 0 : Mixed Effects: Simple OLS
+# 2 : Mixed Effects: FLAME 1
+# 1 : Mixed Effects: FLAME 1+2
+set fmri(mixed_yn) 0
+
+# Number of EVs
+set fmri(evs_orig) 1
+set fmri(evs_real) 2
+set fmri(evs_vox) 1
+
+# Number of contrasts
+set fmri(ncon_orig) 1
+set fmri(ncon_real) 1
+
+# Number of F-tests
+set fmri(nftests_orig) 0
+set fmri(nftests_real) 0
+
+# Add constant column to design matrix? (obsolete)
+set fmri(constcol) 0
+
+# Carry out post-stats steps?
+set fmri(poststats_yn) 0
+
+# Pre-threshold masking?
+set fmri(threshmask) ""
+
+# Thresholding
+# 0 : None
+# 1 : Uncorrected
+# 2 : Voxel
+# 3 : Cluster
+set fmri(thresh) 3
+
+# P threshold
+set fmri(prob_thresh) 0.05
+
+# Z threshold
+set fmri(z_thresh) 2.3
+
+# Z min/max for colour rendering
+# 0 : Use actual Z min/max
+# 1 : Use preset Z min/max
+set fmri(zdisplay) 0
+
+# Z min in colour rendering
+set fmri(zmin) 2
+
+# Z max in colour rendering
+set fmri(zmax) 8
+
+# Colour rendering type
+# 0 : Solid blobs
+# 1 : Transparent blobs
+set fmri(rendertype) 1
+
+# Background image for higher-level stats overlays
+# 1 : Mean highres
+# 2 : First highres
+# 3 : Mean functional
+# 4 : First functional
+# 5 : Standard space template
+set fmri(bgimage) 1
+
+# Create time series plots
+set fmri(tsplot_yn) 1
+
+# Registration to initial structural
+set fmri(reginitial_highres_yn) 0
+
+# Search space for registration to initial structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reginitial_highres_search) 90
+
+# Degrees of Freedom for registration to initial structural
+set fmri(reginitial_highres_dof) 3
+
+# Registration to main structural
+set fmri(reghighres_yn) 0
+
+# Search space for registration to main structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reghighres_search) 90
+
+# Degrees of Freedom for registration to main structural
+set fmri(reghighres_dof) BBR
+
+# Registration to standard image?
+set fmri(regstandard_yn) 1
+
+# Use alternate reference images?
+set fmri(alternateReference_yn) 0
+
+# Standard image
+set fmri(regstandard) "/Users/paulmc/fsl_builds/fsl-5_0_9/data/standard/MNI152_T1_2mm_brain"
+
+# Search space for registration to standard space
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(regstandard_search) 90
+
+# Degrees of Freedom for registration to standard space
+set fmri(regstandard_dof) 12
+
+# Do nonlinear registration from structural to standard space?
+set fmri(regstandard_nonlinear_yn) 0
+
+# Control nonlinear warp field resolution
+set fmri(regstandard_nonlinear_warpres) 10
+
+# High pass filter cutoff
+set fmri(paradigm_hp) 100
+
+# Number of lower-level copes feeding into higher-level analysis
+set fmri(ncopeinputs) 2
+
+# Use lower-level cope 1 for higher-level analysis
+set fmri(copeinput.1) 1
+
+# Use lower-level cope 2 for higher-level analysis
+set fmri(copeinput.2) 1
+
+# 4D AVW data or FEAT directory (1)
+set feat_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri.feat"
+
+# 4D AVW data or FEAT directory (2)
+set feat_files(2) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri1_fmri.feat"
+
+# 4D AVW data or FEAT directory (3)
+set feat_files(3) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri2_fmri.feat"
+
+# Add confound EVs text file
+set fmri(confoundevs) 0
+
+# EV 1 title
+set fmri(evtitle1) "mean"
+
+# Basic waveform shape (EV 1)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape1) 2
+
+# Convolution (EV 1)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve1) 0
+
+# Convolve phase (EV 1)
+set fmri(convolve_phase1) 0
+
+# Apply temporal filtering (EV 1)
+set fmri(tempfilt_yn1) 0
+
+# Add temporal derivative (EV 1)
+set fmri(deriv_yn1) 0
+
+# Custom EV file (EV 1)
+set fmri(custom1) "dummy"
+
+# Orthogonalise EV 1 wrt EV 0
+set fmri(ortho1.0) 0
+
+# Orthogonalise EV 1 wrt EV 1
+set fmri(ortho1.1) 0
+
+# Higher-level EV value for EV 1 and input 1
+set fmri(evg1.1) 1
+
+# Higher-level EV value for EV 1 and input 2
+set fmri(evg2.1) 1
+
+# Higher-level EV value for EV 1 and input 3
+set fmri(evg3.1) 1
+
+# Group membership for input 1
+set fmri(groupmem.1) 1
+
+# Group membership for input 2
+set fmri(groupmem.2) 1
+
+# Group membership for input 3
+set fmri(groupmem.3) 1
+
+# EV 2 voxelwise image filename
+set fmri(evs_vox_1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_voxelwise_confounds.nii.gz"
+
+# Contrast & F-tests mode
+# real : control real EVs
+# orig : control original EVs
+set fmri(con_mode_old) real
+set fmri(con_mode) real
+
+# Display images for contrast_real 1
+set fmri(conpic_real.1) 1
+
+# Title for contrast_real 1
+set fmri(conname_real.1) "group mean"
+
+# Real contrast_real vector 1 element 1
+set fmri(con_real1.1) 1
+
+# Real contrast_real vector 1 element 2
+set fmri(con_real1.2) 0
+
+# Contrast masking - use >0 instead of thresholding?
+set fmri(conmask_zerothresh_yn) 0
+
+# Do contrast masking at all?
+set fmri(conmask1_1) 0
+
+##########################################################
+# Now options that don't appear in the GUI
+
+# Alternative (to BETting) mask image
+set fmri(alternative_mask) ""
+
+# Initial structural space registration initialisation transform
+set fmri(init_initial_highres) ""
+
+# Structural space registration initialisation transform
+set fmri(init_highres) ""
+
+# Standard space registration initialisation transform
+set fmri(init_standard) ""
+
+# For full FEAT analysis: overwrite existing .feat output dir?
+set fmri(overwrite_yn) 0
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.grp b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.grp
new file mode 100644
index 000000000..d3bf7a597
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.grp
@@ -0,0 +1,7 @@
+/NumWaves 1
+/NumPoints 3
+
+/Matrix
+1
+1
+1
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.lcon b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.lcon
new file mode 100644
index 000000000..9a3efc11f
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.lcon
@@ -0,0 +1 @@
+1.48357333333
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.lev b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.lev
new file mode 100644
index 000000000..ce6e42341
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.lev
@@ -0,0 +1 @@
+auditory
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.mat b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.mat
new file mode 100644
index 000000000..494652d56
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/design.mat
@@ -0,0 +1,8 @@
+/NumWaves 2
+/NumPoints 3
+/PPheights 1.000000e+00 5.001823e-01
+
+/Matrix
+1.000000e+00 5.000837e-01
+1.000000e+00 5.001823e-01
+1.000000e+00 5.001329e-01
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/example_func.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/example_func.nii.gz
new file mode 100644
index 000000000..096916020
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/example_func.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/example_func.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/filtered_func_data.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/filtered_func_data.nii.gz
new file mode 100644
index 000000000..1c70f5119
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/filtered_func_data.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/filtered_func_data.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/lmax_zstat1_std.txt b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/lmax_zstat1_std.txt
new file mode 100644
index 000000000..52739d051
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/lmax_zstat1_std.txt
@@ -0,0 +1,47 @@
+Cluster Index Z x y z
+10 4.18 36 -88 12
+10 4.05 -20 -86 -6
+10 4.04 46 -50 -2
+10 4 -34 -82 14
+10 3.98 -36 -76 10
+10 3.98 -38 -86 2
+9 3.37 20 -34 6
+9 3.22 26 -28 0
+9 3.04 14 -28 6
+9 3.02 10 -22 10
+9 3.01 28 -32 10
+9 2.92 10 -30 6
+8 3.06 -46 28 10
+8 3.03 -50 24 6
+8 3.01 -42 22 2
+8 2.94 -50 22 2
+8 2.89 -54 22 4
+8 2.89 -46 24 6
+7 3.5 54 32 0
+7 3.32 48 30 0
+7 3.11 54 26 -2
+7 2.94 52 26 4
+7 2.68 52 30 6
+7 2.66 60 30 0
+6 3.93 16 -8 8
+6 3.65 18 -4 2
+6 2.73 16 -4 8
+6 2.56 12 -6 -2
+6 2.45 18 0 4
+5 4 54 24 8
+5 3.57 46 20 6
+5 3.49 48 20 10
+5 3.08 52 18 2
+4 3.37 -20 10 8
+4 2.74 -14 16 8
+4 2.72 -24 14 8
+4 2.59 -22 22 10
+3 2.85 -38 12 14
+3 2.76 -40 18 12
+3 2.72 -46 14 12
+3 2.71 -40 12 10
+3 2.42 -36 18 10
+2 3.63 42 -48 16
+2 2.86 44 -46 8
+1 3.11 -28 46 16
+1 2.74 -24 38 14
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/mask.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/mask.nii.gz
new file mode 100644
index 000000000..b691ddf27
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/mask.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/mask.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/mean_func.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/mean_func.nii.gz
new file mode 100644
index 000000000..26fcc1f7a
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/mean_func.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/mean_func.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/rendered_thresh_zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/rendered_thresh_zstat1.nii.gz
new file mode 100644
index 000000000..034bbadc0
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/rendered_thresh_zstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/rendered_thresh_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/cope1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/cope1.nii.gz
new file mode 100644
index 000000000..ce250f11f
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/cope1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/cope1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/dof b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/dof
new file mode 100644
index 000000000..d00491fd7
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/dof
@@ -0,0 +1 @@
+1
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/logfile b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/logfile
new file mode 100644
index 000000000..e9c80f1b7
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/logfile
@@ -0,0 +1,3 @@
+/Users/paulmc/fsl_builds/fsl-5_0_9/bin/flameo --cope=filtered_func_data --vc=var_filtered_func_data --mask=mask --ld=stats --dm=design.mat --cs=design.grp --tc=design.con --runmode=ols --voxelwise_ev_numbers=2 --voxelwise_ev_filenames=/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_voxelwise_confounds.nii.gz
+---------------------------------------------
+
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/mean_random_effects_var1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/mean_random_effects_var1.nii.gz
new file mode 100644
index 000000000..d5960171a
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/mean_random_effects_var1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/mean_random_effects_var1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/pe1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/pe1.nii.gz
new file mode 100644
index 000000000..185b868f5
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/pe1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/pe1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/pe2.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/pe2.nii.gz
new file mode 100644
index 000000000..30ebf1b59
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/pe2.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/pe2.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/res4d.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/res4d.nii.gz
new file mode 100644
index 000000000..53d4bbffe
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/res4d.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/res4d.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/smoothness b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/smoothness
new file mode 100644
index 000000000..ced2ccbfb
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/smoothness
@@ -0,0 +1,3 @@
+DLH 3.20604
+VOLUME 65410
+RESELS 1.58399
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/tdof_t1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/tdof_t1.nii.gz
new file mode 100644
index 000000000..dce16caac
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/tdof_t1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/tdof_t1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/tstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/tstat1.nii.gz
new file mode 100644
index 000000000..c5ac3fbdd
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/tstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/tstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/varcope1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/varcope1.nii.gz
new file mode 100644
index 000000000..9131a71ac
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/varcope1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/varcope1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/weights1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/weights1.nii.gz
new file mode 100644
index 000000000..ee3af94bf
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/weights1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/weights1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/zflame1lowertstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/zflame1lowertstat1.nii.gz
new file mode 100644
index 000000000..3b87a33a0
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/zflame1lowertstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/zflame1lowertstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/zflame1uppertstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/zflame1uppertstat1.nii.gz
new file mode 100644
index 000000000..e36d89548
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/zflame1uppertstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/zflame1uppertstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/zstat1.nii.gz
new file mode 100644
index 000000000..1b5013d6c
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/stats/zstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/stats/zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/thresh_zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/thresh_zstat1.nii.gz
new file mode 100644
index 000000000..705069fa5
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/thresh_zstat1.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/thresh_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/thresh_zstat1.vol b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/thresh_zstat1.vol
new file mode 100644
index 000000000..2c34a7413
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/thresh_zstat1.vol
@@ -0,0 +1 @@
+65410
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/var_filtered_func_data.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/var_filtered_func_data.nii.gz
new file mode 100644
index 000000000..9e78ce456
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope1.feat/var_filtered_func_data.nii.gz
@@ -0,0 +1 @@
+./cope1.feat/var_filtered_func_data.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/.flame b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/.flame
new file mode 100755
index 000000000..e638e04d0
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/.flame
@@ -0,0 +1 @@
+/Users/paulmc/fsl_builds/fsl-5_0_9/bin/flameo --cope=filtered_func_data --vc=var_filtered_func_data --mask=mask --ld=stats --dm=design.mat --cs=design.grp --tc=design.con --runmode=ols --voxelwise_ev_numbers=2 --voxelwise_ev_filenames=/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_voxelwise_confounds.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/cluster_mask_zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/cluster_mask_zstat1.nii.gz
new file mode 100644
index 000000000..a7e59ab69
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/cluster_mask_zstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/cluster_mask_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/cluster_zstat1_std.txt b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/cluster_zstat1_std.txt
new file mode 100644
index 000000000..28e8bcfe3
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/cluster_zstat1_std.txt
@@ -0,0 +1,28 @@
+Cluster Index Voxels P -log10(P) Z-MAX Z-MAX X (mm) Z-MAX Y (mm) Z-MAX Z (mm) Z-COG X (mm) Z-COG Y (mm) Z-COG Z (mm) COPE-MAX COPE-MAX X (mm) COPE-MAX Y (mm) COPE-MAX Z (mm) COPE-MEAN
+27 1202 0 104 4.37 -28 -24 4 -49.6 -22.4 2.47 431 -60 -30 10 100
+26 522 0 58.1 3.82 32 2 -4 50.4 -10.7 0.509 265 58 -8 -4 79.2
+25 99 9.47e-18 17 4.77 -50 46 -4 -45.6 35.3 -1.59 262 -54 34 4 60.5
+24 93 6.36e-17 16.2 3.98 -10 -40 2 -11.7 -20.6 1.16 104 0 -14 0 43
+23 48 5.37e-10 9.27 3.86 -62 30 2 -60.9 24.6 1.25 109 -54 26 -4 40.2
+22 42 6.23e-09 8.21 3.62 38 -24 0 37.5 -25.8 -0.572 75.1 42 -26 -4 37.5
+21 41 9.48e-09 8.02 3.46 42 -58 0 41.2 -63.6 -0.463 32.3 42 -64 4 18.5
+20 33 2.98e-07 6.53 3.5 32 38 -10 35.4 37.9 -7.22 144 30 42 -10 49.3
+19 33 2.98e-07 6.53 3.65 -30 -74 0 -30.4 -73.3 0.808 32.6 -28 -78 6 16.8
+18 33 2.98e-07 6.53 3.59 18 -14 2 17.3 -16.4 1.79 45 14 -12 -2 24.5
+17 24 2.26e-05 4.64 2.93 60 -58 -8 61.1 -56.6 -7.76 78.5 58 -56 -8 32.8
+16 22 6.3e-05 4.2 3.06 40 -38 8 40.9 -41.4 6.31 56.3 44 -40 8 19.4
+15 21 0.000106 3.97 3.28 22 -54 4 20.7 -50.5 1.9 33.3 18 -52 -2 20.7
+14 19 0.00031 3.51 3.5 54 -70 6 50.5 -73.3 1.96 71.9 44 -78 0 34.7
+13 18 0.000537 3.27 3.92 30 -16 2 27.7 -20.7 3.76 45 28 -24 4 30.8
+12 15 0.00297 2.53 4.27 -58 26 14 -60.6 26.8 15.3 78.6 -58 28 16 46.2
+11 15 0.00297 2.53 3.01 -30 -44 4 -27.4 -45.3 5.42 55.1 -30 -44 4 23.4
+10 15 0.00297 2.53 3.05 -10 -42 -8 -7.07 -42.9 -5.51 171 -2 -46 -4 72.4
+9 14 0.00539 2.27 3.2 34 -16 -4 37.7 -17.7 -3.36 65.5 36 -20 -2 44.4
+8 14 0.00539 2.27 3.4 4 -50 2 2.8 -48.1 0.972 171 2 -50 4 76.3
+7 14 0.00539 2.27 3.44 20 26 -10 16.5 24.1 -9.28 82.9 22 28 -10 41.9
+6 13 0.00989 2 3.88 30 -94 -2 26.3 -97.6 -2.54 72.4 26 -98 -4 30.2
+5 13 0.00989 2 3.26 -18 -38 -2 -17.3 -40.6 -1.04 58.8 -16 -46 0 30.2
+4 12 0.0184 1.73 3.31 -46 24 -6 -47.6 24.3 -7.44 100 -50 20 -10 71
+3 11 0.0348 1.46 4.37 -32 -46 -6 -31.7 -48.6 -6.41 30.8 -28 -52 -8 19
+2 11 0.0348 1.46 3.03 2 -28 -4 -0.26 -28 -3.62 157 -4 -28 -4 108
+1 11 0.0348 1.46 3.06 26 -56 -6 29.7 -53.9 -7.4 30.8 26 -56 -6 19.2
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.con b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.con
new file mode 100644
index 000000000..e487eef00
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.con
@@ -0,0 +1,8 @@
+/ContrastName1 group mean
+/NumWaves 2
+/NumContrasts 1
+/PPheights 1.971480e-04
+/RequiredEffect 5128643.500
+
+/Matrix
+1.000000e+00 0.000000e+00
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.fsf b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.fsf
new file mode 100644
index 000000000..2bf1e00c1
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.fsf
@@ -0,0 +1,384 @@
+
+# FEAT version number
+set fmri(version) 6.00
+
+# Are we in MELODIC?
+set fmri(inmelodic) 0
+
+# Analysis level
+# 1 : First-level analysis
+# 2 : Higher-level analysis
+set fmri(level) 2
+
+# Which stages to run
+# 0 : No first-level analysis (registration and/or group stats only)
+# 7 : Full first-level analysis
+# 1 : Pre-processing
+# 2 : Statistics
+set fmri(analysis) 2
+
+# Use relative filenames
+set fmri(relative_yn) 0
+
+# Balloon help
+set fmri(help_yn) 1
+
+# Run Featwatcher
+set fmri(featwatcher_yn) 1
+
+# Cleanup first-level standard-space images
+set fmri(sscleanup_yn) 0
+
+# Output directory
+set fmri(outputdir) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_2"
+
+# TR(s)
+set fmri(tr) 3
+
+# Total volumes
+set fmri(npts) 3
+
+# Delete volumes
+set fmri(ndelete) 0
+
+# Perfusion tag/control order
+set fmri(tagfirst) 1
+
+# Number of first-level analyses
+set fmri(multiple) 3
+
+# Higher-level input type
+# 1 : Inputs are lower-level FEAT directories
+# 2 : Inputs are cope images from FEAT directories
+set fmri(inputtype) 1
+
+# Carry out pre-stats processing?
+set fmri(filtering_yn) 0
+
+# Brain/background threshold, %
+set fmri(brain_thresh) 10
+
+# Critical z for design efficiency calculation
+set fmri(critical_z) 5.3
+
+# Noise level
+set fmri(noise) 0.66
+
+# Noise AR(1)
+set fmri(noisear) 0.34
+
+# Motion correction
+# 0 : None
+# 1 : MCFLIRT
+set fmri(mc) 1
+
+# Spin-history (currently obsolete)
+set fmri(sh_yn) 0
+
+# B0 fieldmap unwarping?
+set fmri(regunwarp_yn) 0
+
+# EPI dwell time (ms)
+set fmri(dwell) 0.7
+
+# EPI TE (ms)
+set fmri(te) 35
+
+# % Signal loss threshold
+set fmri(signallossthresh) 10
+
+# Unwarp direction
+set fmri(unwarp_dir) y-
+
+# Slice timing correction
+# 0 : None
+# 1 : Regular up (0, 1, 2, 3, ...)
+# 2 : Regular down
+# 3 : Use slice order file
+# 4 : Use slice timings file
+# 5 : Interleaved (0, 2, 4 ... 1, 3, 5 ... )
+set fmri(st) 0
+
+# Slice timings file
+set fmri(st_file) ""
+
+# BET brain extraction
+set fmri(bet_yn) 1
+
+# Spatial smoothing FWHM (mm)
+set fmri(smooth) 5
+
+# Intensity normalization
+set fmri(norm_yn) 0
+
+# Perfusion subtraction
+set fmri(perfsub_yn) 0
+
+# Highpass temporal filtering
+set fmri(temphp_yn) 1
+
+# Lowpass temporal filtering
+set fmri(templp_yn) 0
+
+# MELODIC ICA data exploration
+set fmri(melodic_yn) 0
+
+# Carry out main stats?
+set fmri(stats_yn) 1
+
+# Carry out prewhitening?
+set fmri(prewhiten_yn) 1
+
+# Add motion parameters to model
+# 0 : No
+# 1 : Yes
+set fmri(motionevs) 0
+set fmri(motionevsbeta) ""
+set fmri(scriptevsbeta) ""
+
+# Robust outlier detection in FLAME?
+set fmri(robust_yn) 0
+
+# Higher-level modelling
+# 3 : Fixed effects
+# 0 : Mixed Effects: Simple OLS
+# 2 : Mixed Effects: FLAME 1
+# 1 : Mixed Effects: FLAME 1+2
+set fmri(mixed_yn) 0
+
+# Number of EVs
+set fmri(evs_orig) 1
+set fmri(evs_real) 2
+set fmri(evs_vox) 1
+
+# Number of contrasts
+set fmri(ncon_orig) 1
+set fmri(ncon_real) 1
+
+# Number of F-tests
+set fmri(nftests_orig) 0
+set fmri(nftests_real) 0
+
+# Add constant column to design matrix? (obsolete)
+set fmri(constcol) 0
+
+# Carry out post-stats steps?
+set fmri(poststats_yn) 0
+
+# Pre-threshold masking?
+set fmri(threshmask) ""
+
+# Thresholding
+# 0 : None
+# 1 : Uncorrected
+# 2 : Voxel
+# 3 : Cluster
+set fmri(thresh) 3
+
+# P threshold
+set fmri(prob_thresh) 0.05
+
+# Z threshold
+set fmri(z_thresh) 2.3
+
+# Z min/max for colour rendering
+# 0 : Use actual Z min/max
+# 1 : Use preset Z min/max
+set fmri(zdisplay) 0
+
+# Z min in colour rendering
+set fmri(zmin) 2
+
+# Z max in colour rendering
+set fmri(zmax) 8
+
+# Colour rendering type
+# 0 : Solid blobs
+# 1 : Transparent blobs
+set fmri(rendertype) 1
+
+# Background image for higher-level stats overlays
+# 1 : Mean highres
+# 2 : First highres
+# 3 : Mean functional
+# 4 : First functional
+# 5 : Standard space template
+set fmri(bgimage) 1
+
+# Create time series plots
+set fmri(tsplot_yn) 1
+
+# Registration to initial structural
+set fmri(reginitial_highres_yn) 0
+
+# Search space for registration to initial structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reginitial_highres_search) 90
+
+# Degrees of Freedom for registration to initial structural
+set fmri(reginitial_highres_dof) 3
+
+# Registration to main structural
+set fmri(reghighres_yn) 0
+
+# Search space for registration to main structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reghighres_search) 90
+
+# Degrees of Freedom for registration to main structural
+set fmri(reghighres_dof) BBR
+
+# Registration to standard image?
+set fmri(regstandard_yn) 1
+
+# Use alternate reference images?
+set fmri(alternateReference_yn) 0
+
+# Standard image
+set fmri(regstandard) "/Users/paulmc/fsl_builds/fsl-5_0_9/data/standard/MNI152_T1_2mm_brain"
+
+# Search space for registration to standard space
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(regstandard_search) 90
+
+# Degrees of Freedom for registration to standard space
+set fmri(regstandard_dof) 12
+
+# Do nonlinear registration from structural to standard space?
+set fmri(regstandard_nonlinear_yn) 0
+
+# Control nonlinear warp field resolution
+set fmri(regstandard_nonlinear_warpres) 10
+
+# High pass filter cutoff
+set fmri(paradigm_hp) 100
+
+# Number of lower-level copes feeding into higher-level analysis
+set fmri(ncopeinputs) 2
+
+# Use lower-level cope 1 for higher-level analysis
+set fmri(copeinput.1) 1
+
+# Use lower-level cope 2 for higher-level analysis
+set fmri(copeinput.2) 1
+
+# 4D AVW data or FEAT directory (1)
+set feat_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri.feat"
+
+# 4D AVW data or FEAT directory (2)
+set feat_files(2) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri1_fmri.feat"
+
+# 4D AVW data or FEAT directory (3)
+set feat_files(3) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri2_fmri.feat"
+
+# Add confound EVs text file
+set fmri(confoundevs) 0
+
+# EV 1 title
+set fmri(evtitle1) "mean"
+
+# Basic waveform shape (EV 1)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape1) 2
+
+# Convolution (EV 1)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve1) 0
+
+# Convolve phase (EV 1)
+set fmri(convolve_phase1) 0
+
+# Apply temporal filtering (EV 1)
+set fmri(tempfilt_yn1) 0
+
+# Add temporal derivative (EV 1)
+set fmri(deriv_yn1) 0
+
+# Custom EV file (EV 1)
+set fmri(custom1) "dummy"
+
+# Orthogonalise EV 1 wrt EV 0
+set fmri(ortho1.0) 0
+
+# Orthogonalise EV 1 wrt EV 1
+set fmri(ortho1.1) 0
+
+# Higher-level EV value for EV 1 and input 1
+set fmri(evg1.1) 1
+
+# Higher-level EV value for EV 1 and input 2
+set fmri(evg2.1) 1
+
+# Higher-level EV value for EV 1 and input 3
+set fmri(evg3.1) 1
+
+# Group membership for input 1
+set fmri(groupmem.1) 1
+
+# Group membership for input 2
+set fmri(groupmem.2) 1
+
+# Group membership for input 3
+set fmri(groupmem.3) 1
+
+# EV 2 voxelwise image filename
+set fmri(evs_vox_1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_voxelwise_confounds.nii.gz"
+
+# Contrast & F-tests mode
+# real : control real EVs
+# orig : control original EVs
+set fmri(con_mode_old) real
+set fmri(con_mode) real
+
+# Display images for contrast_real 1
+set fmri(conpic_real.1) 1
+
+# Title for contrast_real 1
+set fmri(conname_real.1) "group mean"
+
+# Real contrast_real vector 1 element 1
+set fmri(con_real1.1) 1
+
+# Real contrast_real vector 1 element 2
+set fmri(con_real1.2) 0
+
+# Contrast masking - use >0 instead of thresholding?
+set fmri(conmask_zerothresh_yn) 0
+
+# Do contrast masking at all?
+set fmri(conmask1_1) 0
+
+##########################################################
+# Now options that don't appear in the GUI
+
+# Alternative (to BETting) mask image
+set fmri(alternative_mask) ""
+
+# Initial structural space registration initialisation transform
+set fmri(init_initial_highres) ""
+
+# Structural space registration initialisation transform
+set fmri(init_highres) ""
+
+# Standard space registration initialisation transform
+set fmri(init_standard) ""
+
+# For full FEAT analysis: overwrite existing .feat output dir?
+set fmri(overwrite_yn) 0
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.grp b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.grp
new file mode 100644
index 000000000..d3bf7a597
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.grp
@@ -0,0 +1,7 @@
+/NumWaves 1
+/NumPoints 3
+
+/Matrix
+1
+1
+1
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.lcon b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.lcon
new file mode 100644
index 000000000..f47c50abb
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.lcon
@@ -0,0 +1 @@
+1.32922633333
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.lev b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.lev
new file mode 100644
index 000000000..bbf8bc93e
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.lev
@@ -0,0 +1 @@
+visual
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.mat b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.mat
new file mode 100644
index 000000000..494652d56
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/design.mat
@@ -0,0 +1,8 @@
+/NumWaves 2
+/NumPoints 3
+/PPheights 1.000000e+00 5.001823e-01
+
+/Matrix
+1.000000e+00 5.000837e-01
+1.000000e+00 5.001823e-01
+1.000000e+00 5.001329e-01
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/example_func.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/example_func.nii.gz
new file mode 100644
index 000000000..b4ce77d9b
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/example_func.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/example_func.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/filtered_func_data.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/filtered_func_data.nii.gz
new file mode 100644
index 000000000..ec3e3fc95
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/filtered_func_data.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/filtered_func_data.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/lmax_zstat1_std.txt b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/lmax_zstat1_std.txt
new file mode 100644
index 000000000..810c2172d
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/lmax_zstat1_std.txt
@@ -0,0 +1,135 @@
+Cluster Index Z x y z
+27 4.37 -28 -24 4
+27 3.97 -58 -44 -2
+27 3.93 -42 -34 6
+27 3.91 -58 -24 6
+27 3.81 -56 -56 -2
+27 3.79 -46 4 -6
+26 3.82 32 2 -4
+26 3.72 62 -24 8
+26 3.65 50 -14 2
+26 3.65 50 -18 2
+26 3.63 58 -8 -4
+26 3.6 60 0 -2
+25 4.77 -50 46 -4
+25 3.67 -50 32 6
+25 3.66 -40 38 -8
+25 3.62 -54 32 2
+25 3.58 -46 32 8
+25 3.56 -48 28 16
+24 3.98 -10 -40 2
+24 3.83 -4 -16 -2
+24 3.45 -8 -12 0
+24 3.25 -12 -16 -2
+24 3.24 -16 -28 -2
+24 3.16 -14 -34 6
+23 3.86 -62 30 2
+23 3.84 -60 20 0
+23 3.74 -60 24 0
+23 3.09 -62 30 8
+23 2.96 -64 24 6
+23 2.92 -58 20 -4
+22 3.62 38 -24 0
+22 3.48 42 -26 -6
+22 3.41 26 -18 0
+22 3.34 42 -34 -4
+22 3.31 36 -28 -2
+22 3.24 44 -24 6
+21 3.46 42 -58 0
+21 3.34 44 -62 0
+21 3.22 42 -70 0
+21 3.2 36 -56 0
+21 3.15 38 -64 2
+21 3.07 40 -68 6
+20 3.5 32 38 -10
+20 3.22 36 40 -4
+20 3.05 40 36 -6
+20 3.05 34 42 -8
+20 2.67 44 38 -4
+20 2.67 36 38 -10
+19 3.65 -30 -74 0
+19 3.33 -32 -66 -2
+19 3.12 -26 -76 -4
+19 2.82 -38 -68 4
+19 2.69 -24 -82 6
+19 2.69 -28 -78 2
+18 3.59 18 -14 2
+18 3.28 16 -18 6
+18 3.11 22 -20 -2
+18 2.97 14 -10 4
+18 2.94 20 -20 6
+18 2.77 14 -14 0
+17 2.93 60 -58 -8
+17 2.61 68 -52 -8
+17 2.59 62 -62 -6
+17 2.52 54 -58 -8
+17 2.49 68 -58 -8
+17 2.48 68 -48 -10
+16 3.06 40 -38 8
+16 2.99 42 -44 10
+16 2.94 42 -46 4
+16 2.89 44 -40 8
+16 2.71 38 -50 4
+16 2.68 40 -38 2
+15 3.28 22 -54 4
+15 3.26 18 -52 -2
+15 3.1 16 -48 0
+15 3.04 18 -44 0
+15 2.96 26 -54 0
+14 3.5 54 -70 6
+14 2.98 50 -70 -2
+14 2.93 56 -68 2
+14 2.86 50 -72 2
+14 2.85 50 -78 2
+14 2.5 44 -78 0
+13 3.92 30 -16 2
+13 3.2 28 -22 4
+13 3.19 26 -18 6
+13 3.09 24 -24 4
+13 2.75 26 -24 0
+13 2.59 28 -26 8
+12 4.27 -58 26 14
+12 2.93 -64 30 14
+12 2.91 -62 22 16
+11 3.01 -30 -44 4
+11 3 -28 -46 8
+11 2.82 -26 -52 8
+11 2.53 -26 -40 -2
+10 3.05 -10 -42 -8
+10 2.97 -6 -44 -8
+10 2.88 -12 -38 -4
+10 2.76 0 -44 -4
+10 2.6 -4 -46 -4
+9 3.2 34 -16 -4
+9 2.98 40 -16 -8
+9 2.85 38 -20 -8
+9 2.78 38 -16 2
+9 2.62 42 -22 -6
+9 2.57 36 -20 -2
+8 3.4 4 -50 2
+8 3.31 -2 -50 6
+8 3.02 6 -44 -4
+8 2.76 4 -46 0
+7 3.44 20 26 -10
+7 2.96 16 24 -8
+6 3.88 30 -94 -2
+6 2.94 22 -100 -4
+6 2.75 22 -96 -6
+6 2.63 22 -104 -2
+6 2.38 28 -100 -6
+5 3.26 -18 -38 -2
+5 3.14 -14 -40 0
+5 2.69 -22 -40 -6
+4 3.31 -46 24 -6
+4 2.45 -50 18 -8
+3 4.37 -32 -46 -6
+3 3.62 -32 -52 -8
+3 3.33 -28 -52 -8
+3 2.7 -32 -48 -2
+3 2.58 -36 -46 -8
+2 3.03 2 -28 -4
+2 3.01 -2 -28 -4
+2 2.44 6 -30 -6
+1 3.06 26 -56 -6
+1 2.67 30 -50 -8
+1 2.6 34 -50 -6
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/mask.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/mask.nii.gz
new file mode 100644
index 000000000..f6e199d6f
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/mask.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/mask.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/mean_func.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/mean_func.nii.gz
new file mode 100644
index 000000000..90d05246e
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/mean_func.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/mean_func.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/rendered_thresh_zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/rendered_thresh_zstat1.nii.gz
new file mode 100644
index 000000000..199ac3420
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/rendered_thresh_zstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/rendered_thresh_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/cope1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/cope1.nii.gz
new file mode 100644
index 000000000..9b19c4c16
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/cope1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/cope1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/dof b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/dof
new file mode 100644
index 000000000..d00491fd7
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/dof
@@ -0,0 +1 @@
+1
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/logfile b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/logfile
new file mode 100644
index 000000000..e9c80f1b7
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/logfile
@@ -0,0 +1,3 @@
+/Users/paulmc/fsl_builds/fsl-5_0_9/bin/flameo --cope=filtered_func_data --vc=var_filtered_func_data --mask=mask --ld=stats --dm=design.mat --cs=design.grp --tc=design.con --runmode=ols --voxelwise_ev_numbers=2 --voxelwise_ev_filenames=/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_voxelwise_confounds.nii.gz
+---------------------------------------------
+
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/mean_random_effects_var1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/mean_random_effects_var1.nii.gz
new file mode 100644
index 000000000..55567aeb5
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/mean_random_effects_var1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/mean_random_effects_var1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/pe1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/pe1.nii.gz
new file mode 100644
index 000000000..29813a2aa
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/pe1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/pe1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/pe2.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/pe2.nii.gz
new file mode 100644
index 000000000..667437d79
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/pe2.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/pe2.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/res4d.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/res4d.nii.gz
new file mode 100644
index 000000000..cfb8d83d3
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/res4d.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/res4d.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/smoothness b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/smoothness
new file mode 100644
index 000000000..479126b75
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/smoothness
@@ -0,0 +1,3 @@
+DLH 3.36331
+VOLUME 65410
+RESELS 1.50992
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/tdof_t1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/tdof_t1.nii.gz
new file mode 100644
index 000000000..89d2748b3
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/tdof_t1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/tdof_t1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/tstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/tstat1.nii.gz
new file mode 100644
index 000000000..fd4bc98f2
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/tstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/tstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/varcope1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/varcope1.nii.gz
new file mode 100644
index 000000000..8e53e8ebc
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/varcope1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/varcope1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/weights1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/weights1.nii.gz
new file mode 100644
index 000000000..028abc517
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/weights1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/weights1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/zflame1lowertstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/zflame1lowertstat1.nii.gz
new file mode 100644
index 000000000..a67e9329b
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/zflame1lowertstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/zflame1lowertstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/zflame1uppertstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/zflame1uppertstat1.nii.gz
new file mode 100644
index 000000000..cc91aab56
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/zflame1uppertstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/zflame1uppertstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/zstat1.nii.gz
new file mode 100644
index 000000000..09031b5a7
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/stats/zstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/stats/zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/thresh_zstat1.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/thresh_zstat1.nii.gz
new file mode 100644
index 000000000..11b327787
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/thresh_zstat1.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/thresh_zstat1.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/thresh_zstat1.vol b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/thresh_zstat1.vol
new file mode 100644
index 000000000..2c34a7413
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/thresh_zstat1.vol
@@ -0,0 +1 @@
+65410
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/var_filtered_func_data.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/var_filtered_func_data.nii.gz
new file mode 100644
index 000000000..d3ee67522
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/cope2.feat/var_filtered_func_data.nii.gz
@@ -0,0 +1 @@
+./cope2.feat/var_filtered_func_data.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/design.con b/tests/testdata/test_feat/2ndlevel_2.gfeat/design.con
new file mode 100644
index 000000000..e487eef00
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/design.con
@@ -0,0 +1,8 @@
+/ContrastName1 group mean
+/NumWaves 2
+/NumContrasts 1
+/PPheights 1.971480e-04
+/RequiredEffect 5128643.500
+
+/Matrix
+1.000000e+00 0.000000e+00
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/design.fsf b/tests/testdata/test_feat/2ndlevel_2.gfeat/design.fsf
new file mode 100644
index 000000000..2bf1e00c1
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/design.fsf
@@ -0,0 +1,384 @@
+
+# FEAT version number
+set fmri(version) 6.00
+
+# Are we in MELODIC?
+set fmri(inmelodic) 0
+
+# Analysis level
+# 1 : First-level analysis
+# 2 : Higher-level analysis
+set fmri(level) 2
+
+# Which stages to run
+# 0 : No first-level analysis (registration and/or group stats only)
+# 7 : Full first-level analysis
+# 1 : Pre-processing
+# 2 : Statistics
+set fmri(analysis) 2
+
+# Use relative filenames
+set fmri(relative_yn) 0
+
+# Balloon help
+set fmri(help_yn) 1
+
+# Run Featwatcher
+set fmri(featwatcher_yn) 1
+
+# Cleanup first-level standard-space images
+set fmri(sscleanup_yn) 0
+
+# Output directory
+set fmri(outputdir) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_2"
+
+# TR(s)
+set fmri(tr) 3
+
+# Total volumes
+set fmri(npts) 3
+
+# Delete volumes
+set fmri(ndelete) 0
+
+# Perfusion tag/control order
+set fmri(tagfirst) 1
+
+# Number of first-level analyses
+set fmri(multiple) 3
+
+# Higher-level input type
+# 1 : Inputs are lower-level FEAT directories
+# 2 : Inputs are cope images from FEAT directories
+set fmri(inputtype) 1
+
+# Carry out pre-stats processing?
+set fmri(filtering_yn) 0
+
+# Brain/background threshold, %
+set fmri(brain_thresh) 10
+
+# Critical z for design efficiency calculation
+set fmri(critical_z) 5.3
+
+# Noise level
+set fmri(noise) 0.66
+
+# Noise AR(1)
+set fmri(noisear) 0.34
+
+# Motion correction
+# 0 : None
+# 1 : MCFLIRT
+set fmri(mc) 1
+
+# Spin-history (currently obsolete)
+set fmri(sh_yn) 0
+
+# B0 fieldmap unwarping?
+set fmri(regunwarp_yn) 0
+
+# EPI dwell time (ms)
+set fmri(dwell) 0.7
+
+# EPI TE (ms)
+set fmri(te) 35
+
+# % Signal loss threshold
+set fmri(signallossthresh) 10
+
+# Unwarp direction
+set fmri(unwarp_dir) y-
+
+# Slice timing correction
+# 0 : None
+# 1 : Regular up (0, 1, 2, 3, ...)
+# 2 : Regular down
+# 3 : Use slice order file
+# 4 : Use slice timings file
+# 5 : Interleaved (0, 2, 4 ... 1, 3, 5 ... )
+set fmri(st) 0
+
+# Slice timings file
+set fmri(st_file) ""
+
+# BET brain extraction
+set fmri(bet_yn) 1
+
+# Spatial smoothing FWHM (mm)
+set fmri(smooth) 5
+
+# Intensity normalization
+set fmri(norm_yn) 0
+
+# Perfusion subtraction
+set fmri(perfsub_yn) 0
+
+# Highpass temporal filtering
+set fmri(temphp_yn) 1
+
+# Lowpass temporal filtering
+set fmri(templp_yn) 0
+
+# MELODIC ICA data exploration
+set fmri(melodic_yn) 0
+
+# Carry out main stats?
+set fmri(stats_yn) 1
+
+# Carry out prewhitening?
+set fmri(prewhiten_yn) 1
+
+# Add motion parameters to model
+# 0 : No
+# 1 : Yes
+set fmri(motionevs) 0
+set fmri(motionevsbeta) ""
+set fmri(scriptevsbeta) ""
+
+# Robust outlier detection in FLAME?
+set fmri(robust_yn) 0
+
+# Higher-level modelling
+# 3 : Fixed effects
+# 0 : Mixed Effects: Simple OLS
+# 2 : Mixed Effects: FLAME 1
+# 1 : Mixed Effects: FLAME 1+2
+set fmri(mixed_yn) 0
+
+# Number of EVs
+set fmri(evs_orig) 1
+set fmri(evs_real) 2
+set fmri(evs_vox) 1
+
+# Number of contrasts
+set fmri(ncon_orig) 1
+set fmri(ncon_real) 1
+
+# Number of F-tests
+set fmri(nftests_orig) 0
+set fmri(nftests_real) 0
+
+# Add constant column to design matrix? (obsolete)
+set fmri(constcol) 0
+
+# Carry out post-stats steps?
+set fmri(poststats_yn) 0
+
+# Pre-threshold masking?
+set fmri(threshmask) ""
+
+# Thresholding
+# 0 : None
+# 1 : Uncorrected
+# 2 : Voxel
+# 3 : Cluster
+set fmri(thresh) 3
+
+# P threshold
+set fmri(prob_thresh) 0.05
+
+# Z threshold
+set fmri(z_thresh) 2.3
+
+# Z min/max for colour rendering
+# 0 : Use actual Z min/max
+# 1 : Use preset Z min/max
+set fmri(zdisplay) 0
+
+# Z min in colour rendering
+set fmri(zmin) 2
+
+# Z max in colour rendering
+set fmri(zmax) 8
+
+# Colour rendering type
+# 0 : Solid blobs
+# 1 : Transparent blobs
+set fmri(rendertype) 1
+
+# Background image for higher-level stats overlays
+# 1 : Mean highres
+# 2 : First highres
+# 3 : Mean functional
+# 4 : First functional
+# 5 : Standard space template
+set fmri(bgimage) 1
+
+# Create time series plots
+set fmri(tsplot_yn) 1
+
+# Registration to initial structural
+set fmri(reginitial_highres_yn) 0
+
+# Search space for registration to initial structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reginitial_highres_search) 90
+
+# Degrees of Freedom for registration to initial structural
+set fmri(reginitial_highres_dof) 3
+
+# Registration to main structural
+set fmri(reghighres_yn) 0
+
+# Search space for registration to main structural
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(reghighres_search) 90
+
+# Degrees of Freedom for registration to main structural
+set fmri(reghighres_dof) BBR
+
+# Registration to standard image?
+set fmri(regstandard_yn) 1
+
+# Use alternate reference images?
+set fmri(alternateReference_yn) 0
+
+# Standard image
+set fmri(regstandard) "/Users/paulmc/fsl_builds/fsl-5_0_9/data/standard/MNI152_T1_2mm_brain"
+
+# Search space for registration to standard space
+# 0 : No search
+# 90 : Normal search
+# 180 : Full search
+set fmri(regstandard_search) 90
+
+# Degrees of Freedom for registration to standard space
+set fmri(regstandard_dof) 12
+
+# Do nonlinear registration from structural to standard space?
+set fmri(regstandard_nonlinear_yn) 0
+
+# Control nonlinear warp field resolution
+set fmri(regstandard_nonlinear_warpres) 10
+
+# High pass filter cutoff
+set fmri(paradigm_hp) 100
+
+# Number of lower-level copes feeding into higher-level analysis
+set fmri(ncopeinputs) 2
+
+# Use lower-level cope 1 for higher-level analysis
+set fmri(copeinput.1) 1
+
+# Use lower-level cope 2 for higher-level analysis
+set fmri(copeinput.2) 1
+
+# 4D AVW data or FEAT directory (1)
+set feat_files(1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri.feat"
+
+# 4D AVW data or FEAT directory (2)
+set feat_files(2) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri1_fmri.feat"
+
+# 4D AVW data or FEAT directory (3)
+set feat_files(3) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/fmri2_fmri.feat"
+
+# Add confound EVs text file
+set fmri(confoundevs) 0
+
+# EV 1 title
+set fmri(evtitle1) "mean"
+
+# Basic waveform shape (EV 1)
+# 0 : Square
+# 1 : Sinusoid
+# 2 : Custom (1 entry per volume)
+# 3 : Custom (3 column format)
+# 4 : Interaction
+# 10 : Empty (all zeros)
+set fmri(shape1) 2
+
+# Convolution (EV 1)
+# 0 : None
+# 1 : Gaussian
+# 2 : Gamma
+# 3 : Double-Gamma HRF
+# 4 : Gamma basis functions
+# 5 : Sine basis functions
+# 6 : FIR basis functions
+set fmri(convolve1) 0
+
+# Convolve phase (EV 1)
+set fmri(convolve_phase1) 0
+
+# Apply temporal filtering (EV 1)
+set fmri(tempfilt_yn1) 0
+
+# Add temporal derivative (EV 1)
+set fmri(deriv_yn1) 0
+
+# Custom EV file (EV 1)
+set fmri(custom1) "dummy"
+
+# Orthogonalise EV 1 wrt EV 0
+set fmri(ortho1.0) 0
+
+# Orthogonalise EV 1 wrt EV 1
+set fmri(ortho1.1) 0
+
+# Higher-level EV value for EV 1 and input 1
+set fmri(evg1.1) 1
+
+# Higher-level EV value for EV 1 and input 2
+set fmri(evg2.1) 1
+
+# Higher-level EV value for EV 1 and input 3
+set fmri(evg3.1) 1
+
+# Group membership for input 1
+set fmri(groupmem.1) 1
+
+# Group membership for input 2
+set fmri(groupmem.2) 1
+
+# Group membership for input 3
+set fmri(groupmem.3) 1
+
+# EV 2 voxelwise image filename
+set fmri(evs_vox_1) "/Users/paulmc/Projects/fslpy/tests/testdata/test_feat/2ndlevel_voxelwise_confounds.nii.gz"
+
+# Contrast & F-tests mode
+# real : control real EVs
+# orig : control original EVs
+set fmri(con_mode_old) real
+set fmri(con_mode) real
+
+# Display images for contrast_real 1
+set fmri(conpic_real.1) 1
+
+# Title for contrast_real 1
+set fmri(conname_real.1) "group mean"
+
+# Real contrast_real vector 1 element 1
+set fmri(con_real1.1) 1
+
+# Real contrast_real vector 1 element 2
+set fmri(con_real1.2) 0
+
+# Contrast masking - use >0 instead of thresholding?
+set fmri(conmask_zerothresh_yn) 0
+
+# Do contrast masking at all?
+set fmri(conmask1_1) 0
+
+##########################################################
+# Now options that don't appear in the GUI
+
+# Alternative (to BETting) mask image
+set fmri(alternative_mask) ""
+
+# Initial structural space registration initialisation transform
+set fmri(init_initial_highres) ""
+
+# Structural space registration initialisation transform
+set fmri(init_highres) ""
+
+# Standard space registration initialisation transform
+set fmri(init_standard) ""
+
+# For full FEAT analysis: overwrite existing .feat output dir?
+set fmri(overwrite_yn) 0
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/design.grp b/tests/testdata/test_feat/2ndlevel_2.gfeat/design.grp
new file mode 100644
index 000000000..d3bf7a597
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/design.grp
@@ -0,0 +1,7 @@
+/NumWaves 1
+/NumPoints 3
+
+/Matrix
+1
+1
+1
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/design.lcon b/tests/testdata/test_feat/2ndlevel_2.gfeat/design.lcon
new file mode 100644
index 000000000..f986d24a5
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/design.lcon
@@ -0,0 +1 @@
+1.48357333333 1.32922633333
\ No newline at end of file
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/design.mat b/tests/testdata/test_feat/2ndlevel_2.gfeat/design.mat
new file mode 100644
index 000000000..494652d56
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/design.mat
@@ -0,0 +1,8 @@
+/NumWaves 2
+/NumPoints 3
+/PPheights 1.000000e+00 5.001823e-01
+
+/Matrix
+1.000000e+00 5.000837e-01
+1.000000e+00 5.001823e-01
+1.000000e+00 5.001329e-01
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/masksum.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/masksum.nii.gz
new file mode 100644
index 000000000..fa4f11ee1
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/masksum.nii.gz
@@ -0,0 +1 @@
+./inputreg/masksum.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/masksum_overlay.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/masksum_overlay.nii.gz
new file mode 100644
index 000000000..72ea8e942
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/masksum_overlay.nii.gz
@@ -0,0 +1 @@
+./inputreg/masksum_overlay.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/maskunique.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/maskunique.nii.gz
new file mode 100644
index 000000000..b5d4ae2f6
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/maskunique.nii.gz
@@ -0,0 +1 @@
+./inputreg/maskunique.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/maskunique_overlay.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/maskunique_overlay.nii.gz
new file mode 100644
index 000000000..8391a277d
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/inputreg/maskunique_overlay.nii.gz
@@ -0,0 +1 @@
+./inputreg/maskunique_overlay.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/mask.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/mask.nii.gz
new file mode 100644
index 000000000..6ded8cbea
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/mask.nii.gz
@@ -0,0 +1 @@
+./mask.nii.gz
diff --git a/tests/testdata/test_feat/2ndlevel_2.gfeat/mean_func.nii.gz b/tests/testdata/test_feat/2ndlevel_2.gfeat/mean_func.nii.gz
new file mode 100644
index 000000000..2f367aa5b
--- /dev/null
+++ b/tests/testdata/test_feat/2ndlevel_2.gfeat/mean_func.nii.gz
@@ -0,0 +1 @@
+./mean_func.nii.gz
--
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