/
CMakeLists.txt
238 lines (211 loc) · 9.99 KB
/
CMakeLists.txt
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
if (WASI OR EMSCRIPTEN)
# Avoid RLEImage dependency for wasm builds
return()
endif()
itk_module_test()
set( MorphologicalContourInterpolationTests
itkMorphologicalContourInterpolationTest.cxx
itkMorphologicalContourInterpolationTestWithRLEImage.cxx
)
CreateTestDriver( MorphologicalContourInterpolation "${MorphologicalContourInterpolation-Test_LIBRARIES}" "${MorphologicalContourInterpolationTests}" )
add_executable(manualTest manualTest.cxx ${MorphologicalContourInterpolationTests})
target_link_libraries(manualTest ${MorphologicalContourInterpolation-Test_LIBRARIES})
add_executable(dscComparison dscComparison.cxx)
target_link_libraries(dscComparison ${MorphologicalContourInterpolation-Test_LIBRARIES})
# used to produce an output which is then taken as a baseline for a regression test
function(JustInputTest ImageName Ext) #optional: Axis Label
foreach(f ${ARGN}) # for creating unique test name
set(optArgs "${optArgs}_${f}")
endforeach()
foreach(algo B;C;T)
set(imageAlgoArgs "${ImageName}_${algo}${optArgs}")
itk_add_test( NAME itkMCI_JustInOut_${imageAlgoArgs}
COMMAND MorphologicalContourInterpolationTestDriver
itkMorphologicalContourInterpolationTest
DATA{Input/${ImageName}.${Ext}} "${ITK_TEST_OUTPUT_DIR}/${imageAlgoArgs}.${Ext}" ${algo} ${ARGN})
endforeach()
endfunction()
function(RegressionTest RunsLong ImageName Ext) #optional: Axis Label
foreach(f ${ARGN}) # for creating unique test name
set(optArgs "${optArgs}_${f}")
endforeach()
# B = repeated dilations with ball structuring element
# C = repeated dilations with cross structuring element
# T = distance transform (not geodesic!)
foreach(algo B;C;T)
set(imageAlgoArgs "${ImageName}_${algo}${optArgs}")
set(outImage "${ITK_TEST_OUTPUT_DIR}/${imageAlgoArgs}.${Ext}")
# have the RLE version output the results into a different file
# otherwise parallel invocation of tests causes undeterministic failures
# when both tests try to write to the same file at the same time
set(outImageRLE "${ITK_TEST_OUTPUT_DIR}/${imageAlgoArgs}_RLE.${Ext}")
itk_add_test( NAME itkMCI_${imageAlgoArgs}
COMMAND MorphologicalContourInterpolationTestDriver
--compare DATA{Baseline/${imageAlgoArgs}.${Ext}} ${outImage}
itkMorphologicalContourInterpolationTest
DATA{Input/${ImageName}.${Ext}} ${outImage} ${algo} ${ARGN})
itk_add_test( NAME itkMCIRLE_${imageAlgoArgs}
COMMAND MorphologicalContourInterpolationTestDriver
--compare DATA{Baseline/${imageAlgoArgs}.${Ext}} ${outImageRLE}
itkMorphologicalContourInterpolationTestWithRLEImage
DATA{Input/${ImageName}.${Ext}} ${outImageRLE} ${algo} ${ARGN})
set_property(TEST itkMCI_${imageAlgoArgs} APPEND PROPERTY LABELS MCI_PLAIN)
set_property(TEST itkMCIRLE_${imageAlgoArgs} APPEND PROPERTY LABELS MCI_RLE)
if (RunsLong)
set_property(TEST itkMCI_${imageAlgoArgs} APPEND PROPERTY LABELS RUNS_LONG)
set_property(TEST itkMCIRLE_${imageAlgoArgs} APPEND PROPERTY LABELS RUNS_LONG)
endif()
endforeach()
endfunction()
function(RegressionTestShort)
RegressionTest(No ${ARGN})
endfunction()
function(RegressionTestLong)
RegressionTest(Yes ${ARGN})
endfunction()
# functional comparison using Dice Similarity Coefficient
function(DSCTest ImageName Ext)
set(outFilenameBase "${ITK_TEST_OUTPUT_DIR}/${ImageName}")
itk_add_test( NAME itkMCI_DSC_${ImageName}
COMMAND dscComparison DATA{Input/${ImageName}.${Ext}} ${outFilenameBase} ${ARGN})
set_property(TEST itkMCI_DSC_${ImageName} APPEND PROPERTY LABELS RUNS_LONG)
endfunction()
# Handcrafted tests
RegressionTestShort(Empty nrrd)
RegressionTestShort(NoSlices nrrd) #interpolation should not be invoked (output==input)
RegressionTestShort(Micro1 nrrd)
RegressionTestShort(SimplestOneToOne nrrd)
RegressionTestShort(OneToOne nrrd)
RegressionTestShort(OneToThree nrrd)
RegressionTestShort(ExtrapolationAppearing nrrd)
RegressionTestShort(DoubleTwoLabelBranching nrrd)
RegressionTestShort(TwoAxisDoubleTwoLabelBC nrrd)
RegressionTestShort(AccidentalMiddleSliceSeg nrrd)
RegressionTestShort(SevenLabels nrrd)
RegressionTestShort(FullEnd nrrd)
RegressionTestShort(1MN1 nrrd) # double sided many broken into many + 1
RegressionTestShort(ManyToMany16 nrrd)
RegressionTestShort(ManyToMany nrrd)
RegressionTestShort(GridSeg nrrd)
RegressionTestShort(GridSeg2 nrrd)
# Per axis/label tests
RegressionTestShort(GridSeg nrrd 0)
RegressionTestShort(GridSeg nrrd 1)
RegressionTestShort(GridSeg nrrd 2)
RegressionTestShort(GridSeg2 nrrd 0)
RegressionTestShort(GridSeg2 nrrd 1)
RegressionTestShort(GridSeg2 nrrd 2)
RegressionTestShort(ThreeAxisFourLabelConflict nrrd)
RegressionTestShort(ThreeAxisFourLabelConflict nrrd 0)
RegressionTestShort(ThreeAxisFourLabelConflict nrrd 1)
RegressionTestShort(ThreeAxisFourLabelConflict nrrd 2)
RegressionTestShort(ThreeAxisFourLabelConflict nrrd 0 0) # equals to _0
RegressionTestShort(ThreeAxisFourLabelConflict nrrd 1 1)
RegressionTestShort(ThreeAxisFourLabelConflict nrrd 2 3) # equals to _2
RegressionTestShort(ThreeAxisFourLabelConflict nrrd 0 4) # equals to _0
RegressionTestShort(ThreeAxisFourLabelConflict nrrd 1 2)
RegressionTestShort(ThreeAxisFourLabelConflict nrrd 2 2) # does not modify image
# Paul's single axis tests
RegressionTestShort(105769moving nii.gz) #defaults: all axes all labels
RegressionTestShort(105769moving nii.gz 2) #axis 2
RegressionTestShort(105769moving nii.gz -1 0) #all axes all labels
RegressionTestShort(105769moving nii.gz -1 1) #all axes label 1
RegressionTestShort(105769moving nii.gz -1 2) #all axes label 2
RegressionTestShort(105769moving nii.gz 2 1) #axis 2 label 1
RegressionTestShort(105769moving nii.gz 2 2) #axis 2 label 2
RegressionTestShort(105769fixed nii.gz) #defaults: all axes all labels
RegressionTestShort(105769fixed nii.gz 2) #axis 2
RegressionTestShort(105769fixed nii.gz -1 0) #all axes all labels
RegressionTestShort(105769fixed nii.gz -1 1) #all axes label 1
RegressionTestShort(105769fixed nii.gz -1 2) #all axes label 2
RegressionTestShort(105769fixed nii.gz 2 1) #axis 2 label 1
RegressionTestShort(105769fixed nii.gz 2 2) #axis 2 label 2
# 64816L_amygdala_int
RegressionTestShort(64816L_amygdala_int nii.gz)
RegressionTestShort(64816L_amygdala_int nii.gz 0)
RegressionTestShort(64816L_amygdala_int nii.gz 1)
RegressionTestShort(64816L_amygdala_int nii.gz 2)
RegressionTestShort(64816L_amygdala_int nii.gz 0 1)
RegressionTestShort(64816L_amygdala_int nii.gz 0 2)
RegressionTestShort(64816L_amygdala_int nii.gz 0 3)
RegressionTestShort(64816L_amygdala_int nii.gz 0 4)
RegressionTestShort(64816L_amygdala_int nii.gz 1 1)
RegressionTestShort(64816L_amygdala_int nii.gz 1 2)
RegressionTestShort(64816L_amygdala_int nii.gz 1 3)
RegressionTestShort(64816L_amygdala_int nii.gz 1 4)
RegressionTestShort(64816L_amygdala_int nii.gz 2 1)
RegressionTestShort(64816L_amygdala_int nii.gz 2 2)
RegressionTestShort(64816L_amygdala_int nii.gz 2 3)
RegressionTestShort(64816L_amygdala_int nii.gz 2 4)
# 64816L_amygdala_fin
RegressionTestShort(64816L_amygdala_fin nii.gz)
RegressionTestShort(64816L_amygdala_fin nii.gz 0)
RegressionTestShort(64816L_amygdala_fin nii.gz 1)
RegressionTestShort(64816L_amygdala_fin nii.gz 2)
RegressionTestShort(64816L_amygdala_fin nii.gz 0 1)
RegressionTestShort(64816L_amygdala_fin nii.gz 0 2)
RegressionTestShort(64816L_amygdala_fin nii.gz 0 3)
RegressionTestShort(64816L_amygdala_fin nii.gz 0 4)
RegressionTestShort(64816L_amygdala_fin nii.gz 1 1)
RegressionTestShort(64816L_amygdala_fin nii.gz 1 2)
RegressionTestShort(64816L_amygdala_fin nii.gz 1 3)
RegressionTestShort(64816L_amygdala_fin nii.gz 1 4)
RegressionTestShort(64816L_amygdala_fin nii.gz 2 1)
RegressionTestShort(64816L_amygdala_fin nii.gz 2 2)
RegressionTestShort(64816L_amygdala_fin nii.gz 2 3)
RegressionTestShort(64816L_amygdala_fin nii.gz 2 4)
# 65239R_amygdala_int
RegressionTestShort(65239R_amygdala_int nii.gz)
RegressionTestShort(65239R_amygdala_int nii.gz 0)
RegressionTestShort(65239R_amygdala_int nii.gz 1)
RegressionTestShort(65239R_amygdala_int nii.gz 2)
RegressionTestShort(65239R_amygdala_int nii.gz 0 1)
RegressionTestShort(65239R_amygdala_int nii.gz 0 2)
RegressionTestShort(65239R_amygdala_int nii.gz 0 3)
RegressionTestShort(65239R_amygdala_int nii.gz 0 4)
RegressionTestShort(65239R_amygdala_int nii.gz 1 1)
RegressionTestShort(65239R_amygdala_int nii.gz 1 2)
RegressionTestShort(65239R_amygdala_int nii.gz 1 3)
RegressionTestShort(65239R_amygdala_int nii.gz 1 4)
RegressionTestShort(65239R_amygdala_int nii.gz 2 1)
RegressionTestShort(65239R_amygdala_int nii.gz 2 2)
RegressionTestShort(65239R_amygdala_int nii.gz 2 3)
RegressionTestShort(65239R_amygdala_int nii.gz 2 4)
# 65239R_amygdala_fin
RegressionTestShort(65239R_amygdala_fin nii.gz)
RegressionTestShort(65239R_amygdala_fin nii.gz 0)
RegressionTestShort(65239R_amygdala_fin nii.gz 1)
RegressionTestShort(65239R_amygdala_fin nii.gz 2)
RegressionTestShort(65239R_amygdala_fin nii.gz 0 1)
RegressionTestShort(65239R_amygdala_fin nii.gz 0 2)
RegressionTestShort(65239R_amygdala_fin nii.gz 0 3)
RegressionTestShort(65239R_amygdala_fin nii.gz 0 4)
RegressionTestShort(65239R_amygdala_fin nii.gz 1 1)
RegressionTestShort(65239R_amygdala_fin nii.gz 1 2)
RegressionTestShort(65239R_amygdala_fin nii.gz 1 3)
RegressionTestShort(65239R_amygdala_fin nii.gz 1 4)
RegressionTestShort(65239R_amygdala_fin nii.gz 2 1)
RegressionTestShort(65239R_amygdala_fin nii.gz 2 2)
RegressionTestShort(65239R_amygdala_fin nii.gz 2 3)
RegressionTestShort(65239R_amygdala_fin nii.gz 2 4)
# Long-running handcrafted tests
RegressionTestLong(BigZ nrrd)
RegressionTestLong(BigZ nrrd 0)
RegressionTestLong(BigZ nrrd 1)
RegressionTestLong(BigZ nrrd 2)
RegressionTestLong(FaceRoI nrrd)
RegressionTestLong(FaceRoI nrrd 0)
RegressionTestLong(FaceRoI nrrd 1)
RegressionTestLong(FaceRoI nrrd 2)
# Non-3D tests
RegressionTestShort(FourD nrrd)
# dscComparison (crops)
DSCTest(c2l mha saveImages)
DSCTest(c2b mha saveImages)
DSCTest(c10l mha saveImages)
DSCTest(c10b mha saveImages)
# dscComparison (full resolution)
DSCTest(case_2_labels mha saveImages)
DSCTest(case_2_binary mha saveImages)
DSCTest(case_10_labels mha saveImages)
DSCTest(case_10_binary mha saveImages)