junifer 0.0.7.dev18__py3-none-any.whl → 0.0.7.dev43__py3-none-any.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (89) hide show
  1. junifer/_version.py +2 -2
  2. junifer/api/decorators.py +0 -1
  3. junifer/api/functions.py +1 -2
  4. junifer/api/queue_context/gnu_parallel_local_adapter.py +4 -7
  5. junifer/api/queue_context/htcondor_adapter.py +6 -10
  6. junifer/cli/tests/test_parser.py +66 -0
  7. junifer/data/_dispatch.py +5 -5
  8. junifer/data/coordinates/_ants_coordinates_warper.py +1 -1
  9. junifer/data/coordinates/_coordinates.py +1 -1
  10. junifer/data/coordinates/_fsl_coordinates_warper.py +1 -1
  11. junifer/data/coordinates/tests/test_coordinates.py +38 -16
  12. junifer/data/masks/_ants_mask_warper.py +1 -1
  13. junifer/data/masks/_fsl_mask_warper.py +1 -1
  14. junifer/data/masks/tests/test_masks.py +66 -33
  15. junifer/data/parcellations/_ants_parcellation_warper.py +1 -1
  16. junifer/data/parcellations/_fsl_parcellation_warper.py +1 -1
  17. junifer/data/parcellations/_parcellations.py +7 -7
  18. junifer/data/parcellations/tests/test_parcellations.py +162 -76
  19. junifer/data/tests/test_data_utils.py +0 -1
  20. junifer/data/utils.py +1 -1
  21. junifer/datagrabber/aomic/id1000.py +6 -0
  22. junifer/datagrabber/aomic/piop1.py +4 -3
  23. junifer/datagrabber/aomic/piop2.py +4 -3
  24. junifer/datagrabber/pattern_datalad.py +0 -1
  25. junifer/datagrabber/pattern_validation_mixin.py +0 -1
  26. junifer/datagrabber/tests/test_dmcc13_benchmark.py +4 -8
  27. junifer/markers/base.py +3 -3
  28. junifer/markers/brainprint.py +5 -5
  29. junifer/markers/complexity/multiscale_entropy_auc.py +3 -3
  30. junifer/markers/complexity/range_entropy.py +3 -3
  31. junifer/markers/complexity/sample_entropy.py +3 -3
  32. junifer/markers/falff/falff_parcels.py +2 -6
  33. junifer/markers/falff/falff_spheres.py +2 -6
  34. junifer/markers/functional_connectivity/functional_connectivity_base.py +0 -1
  35. junifer/markers/functional_connectivity/tests/test_functional_connectivity_parcels.py +2 -1
  36. junifer/markers/functional_connectivity/tests/test_functional_connectivity_spheres.py +2 -1
  37. junifer/markers/reho/_afni_reho.py +1 -1
  38. junifer/markers/reho/reho_base.py +0 -1
  39. junifer/markers/reho/reho_parcels.py +0 -1
  40. junifer/markers/reho/reho_spheres.py +0 -1
  41. junifer/markers/temporal_snr/temporal_snr_base.py +0 -1
  42. junifer/markers/tests/test_markers_base.py +0 -1
  43. junifer/onthefly/_brainprint.py +3 -3
  44. junifer/onthefly/read_transform.py +1 -2
  45. junifer/onthefly/tests/test_read_transform.py +0 -1
  46. junifer/pipeline/tests/test_marker_collection.py +2 -1
  47. junifer/pipeline/workdir_manager.py +1 -2
  48. junifer/preprocess/confounds/fmriprep_confound_remover.py +1 -1
  49. junifer/preprocess/confounds/tests/test_fmriprep_confound_remover.py +0 -1
  50. junifer/preprocess/smoothing/tests/test_smoothing.py +0 -1
  51. junifer/preprocess/warping/_ants_warper.py +2 -3
  52. junifer/preprocess/warping/_fsl_warper.py +1 -1
  53. junifer/preprocess/warping/space_warper.py +4 -2
  54. junifer/storage/pandas_base.py +3 -1
  55. junifer/storage/sqlite.py +3 -8
  56. junifer/storage/tests/test_pandas_base.py +6 -3
  57. junifer/storage/tests/test_storage_base.py +2 -1
  58. junifer/utils/logging.py +38 -128
  59. junifer/utils/tests/test_logging.py +12 -4
  60. {junifer-0.0.7.dev18.dist-info → junifer-0.0.7.dev43.dist-info}/METADATA +3 -2
  61. {junifer-0.0.7.dev18.dist-info → junifer-0.0.7.dev43.dist-info}/RECORD +66 -89
  62. junifer/data/coordinates/VOIs/meta/AutobiographicalMemory_VOIs.txt +0 -23
  63. junifer/data/coordinates/VOIs/meta/CogAC_VOIs.txt +0 -19
  64. junifer/data/coordinates/VOIs/meta/CogAR_VOIs.txt +0 -8
  65. junifer/data/coordinates/VOIs/meta/DMNBuckner_VOIs.txt +0 -6
  66. junifer/data/coordinates/VOIs/meta/Dosenbach2010_MNI_VOIs.txt +0 -160
  67. junifer/data/coordinates/VOIs/meta/Empathy_VOIs.txt +0 -22
  68. junifer/data/coordinates/VOIs/meta/Motor_VOIs.txt +0 -10
  69. junifer/data/coordinates/VOIs/meta/MultiTask_VOIs.txt +0 -9
  70. junifer/data/coordinates/VOIs/meta/PhysioStress_VOIs.txt +0 -18
  71. junifer/data/coordinates/VOIs/meta/Power2011_MNI_VOIs.txt +0 -264
  72. junifer/data/coordinates/VOIs/meta/Power2013_MNI_VOIs.tsv +0 -264
  73. junifer/data/coordinates/VOIs/meta/Rew_VOIs.txt +0 -25
  74. junifer/data/coordinates/VOIs/meta/Somatosensory_VOIs.txt +0 -10
  75. junifer/data/coordinates/VOIs/meta/ToM_VOIs.txt +0 -15
  76. junifer/data/coordinates/VOIs/meta/VigAtt_VOIs.txt +0 -16
  77. junifer/data/coordinates/VOIs/meta/WM_VOIs.txt +0 -23
  78. junifer/data/coordinates/VOIs/meta/eMDN_VOIs.txt +0 -17
  79. junifer/data/coordinates/VOIs/meta/eSAD_VOIs.txt +0 -12
  80. junifer/data/coordinates/VOIs/meta/extDMN_VOIs.txt +0 -16
  81. junifer/data/masks/ukb/UKB_15K_GM_template.nii.gz +0 -0
  82. junifer/data/masks/vickery-patil/CAT12_IXI555_MNI152_TMP_GS_GMprob0.2_clean.nii.gz +0 -0
  83. junifer/data/masks/vickery-patil/CAT12_IXI555_MNI152_TMP_GS_GMprob0.2_clean_3mm.nii.gz +0 -0
  84. junifer/data/masks/vickery-patil/GMprob0.2_cortex_3mm_NA_rm.nii.gz +0 -0
  85. {junifer-0.0.7.dev18.dist-info → junifer-0.0.7.dev43.dist-info}/WHEEL +0 -0
  86. {junifer-0.0.7.dev18.dist-info → junifer-0.0.7.dev43.dist-info}/entry_points.txt +0 -0
  87. {junifer-0.0.7.dev18.dist-info → junifer-0.0.7.dev43.dist-info}/licenses/AUTHORS.rst +0 -0
  88. {junifer-0.0.7.dev18.dist-info → junifer-0.0.7.dev43.dist-info}/licenses/LICENSE.md +0 -0
  89. {junifer-0.0.7.dev18.dist-info → junifer-0.0.7.dev43.dist-info}/top_level.txt +0 -0
junifer/data/coordinates/VOIs/meta/AutobiographicalMemory_VOIs.txt DELETED
@@ -1,23 +0,0 @@
1
- -2 -53 18 PCu-PCC_LR
2
- -25 -26 -14 HC-PHC-AMG_L
3
- -47 -61 26 TPJ_L
4
- -3 47 -1 Medial-prefrontal-cortex_rACC(bilateral)_L
5
- -56 -8 -14 STS_MTG_inferior-temporal-sulcus_L
6
- -47 25 -5 Ventrolateral-prefrontal-cortex_temporal-pole_L
7
- 23 -31 -12 HC-PHC_R
8
- -3 12 57 Middle-frontal-gyrus_LR
9
- 49 -59 27 TPJ_R
10
- -45 3 45 Posterior-lateral-prefrontal-cortex_L
11
- -40 47 14 Frontal-pole(lateral)_L
12
- 23 -13 -15 HC-PHC_R
13
- 49 -5 -13 Temporal-pole_STS_MTG_R
14
- -37 14 -32 Temporal-pole_L
15
- -37 -81 30 Occ_L
16
- -46 24 21 Dorsolateral-prefrontal-cortex_L
17
- 50 27 -5 Ventrolateral-prefrontal-cortex_R
18
- -11 55 17 Frontal_pole(medial)_L
19
- 3 -9 5 Thalamus_R
20
- -5 33 22 rACC_L
21
- -6 -37 33 PCC_L
22
- -28 9 51 Superior-frontal-sulcus_L
23
- 28 1 -19 AMG_R
junifer/data/coordinates/VOIs/meta/CogAC_VOIs.txt DELETED
@@ -1,19 +0,0 @@
1
- 36.0 22.0 -4.0 RaIns
2
- 2.0 16.0 48.0 preSMA
3
- 48.0 12.0 30.0 rIFGp
4
- 36.0 2.0 54.0 rdPMC
5
- 48.0 30.0 24.0 rIFGa
6
- -38.0 -44.0 46.0 lIPS
7
- -24.0 -66.0 48.0 lSPL
8
- 40.0 -46.0 46.0 rIPS
9
- 60.0 -44.0 24.0 rIPC
10
- 30.0 -62.0 52.0 rSPL
11
- -44.0 10.0 30.0 lIFG
12
- -34.0 20.0 -4.0 LaIns
13
- -26.0 2.0 52.0 ldPMC
14
- 6.0 -18.0 -2.0 rThal
15
- -40.0 -66.0 -10.0 lIOG
16
- 48.0 19.0 6.0 rIFG
17
- 8.0 29.0 30.0 aMCC
18
- -45.0 27.0 30.0 lIFG
19
- 11.0 7.0 7.0 rNcaud
junifer/data/coordinates/VOIs/meta/CogAR_VOIs.txt DELETED
@@ -1,8 +0,0 @@
1
- -40 -64 -12 Fusiform_L
2
- 36 22 -4 Insula_R
3
- -44 10 32 Precentral_L
4
- 60 -44 24 Temporal_Sup_R
5
- 0 18 48 Supp_Motor_Area_L
6
- -36 -46 46 Parietal_Inf_L
7
- 38 -46 44 Parietal_Inf_R
8
- -26 0 54 Frontal_Mid_L
junifer/data/coordinates/VOIs/meta/DMNBuckner_VOIs.txt DELETED
@@ -1,6 +0,0 @@
1
- 0 -53 26 PCC
2
- 0 52 -6 MPFC
3
- -48 -62 36 lAG
4
- 46 -62 32 rAG
5
- -24 -22 -20 lHF
6
- 24 -22 -20 rHF
junifer/data/coordinates/VOIs/meta/Dosenbach2010_MNI_VOIs.txt DELETED
@@ -1,160 +0,0 @@
1
- 6 64 3 vmPFC
2
- 29 57 18 aPFC
3
- -29 57 10 aPFC
4
- 0 51 32 mPFC
5
- -25 51 27 aPFC
6
- 9 51 16 vmPFC
7
- -6 50 -1 vmPFC
8
- 27 49 26 aPFC
9
- 42 48 -3 vent aPFC
10
- -43 47 2 vent aPFC
11
- -11 45 17 vmPFC
12
- 39 42 16 vlPFC
13
- 8 42 -5 vmPFC
14
- 9 39 20 ACC
15
- 46 39 -15 vlPFC
16
- 40 36 29 dlPFC
17
- 23 33 47 sup frontal
18
- 34 32 7 vPFC
19
- -2 30 27 ACC
20
- -16 29 54 sup frontal
21
- -1 28 40 ACC
22
- 46 28 31 dlPFC
23
- -52 28 17 vPFC
24
- -44 27 33 dlPFC
25
- 51 23 8 vFC
26
- 38 21 -1 ant insula
27
- 9 20 34 dACC
28
- -36 18 2 ant insula
29
- 40 17 40 dFC
30
- -6 17 34 basal ganglia
31
- 0 15 45 mFC
32
- 58 11 14 frontal
33
- -46 10 14 vFC
34
- 44 8 34 dFC
35
- 60 8 34 dFC
36
- -42 7 36 dFC
37
- -55 7 23 vFC
38
- -20 6 7 basal ganglia
39
- 14 6 7 basal ganglia
40
- -48 6 1 vFC
41
- 10 5 51 pre-SMA
42
- 43 1 12 vFC
43
- 0 -1 52 SMA
44
- 37 -2 -3 mid insula
45
- 53 -3 32 frontal
46
- 58 -3 17 precentral gyrus
47
- -12 -3 13 thalamus
48
- -42 -3 11 mid insula
49
- -44 -6 49 precentral gyrus
50
- -26 -8 54 parietal
51
- 46 -8 24 precentral gyrus
52
- -54 -9 23 precentral gyrus
53
- 44 -11 38 precentral gyrus
54
- -47 -12 36 parietal
55
- 33 -12 16 mid insula
56
- -36 -12 15 mid insula
57
- -12 -12 6 thalamus
58
- 11 -12 6 thalamus
59
- 32 -12 2 mid insula
60
- 59 -13 8 temporal
61
- -30 -14 1 mid insula
62
- -38 -15 59 parietal
63
- 52 -15 -13 inf temporal
64
- -47 -18 50 parietal
65
- 46 -20 45 parietal
66
- -55 -22 38 parietal
67
- -54 -22 22 precentral gyrus
68
- -54 -22 9 temporal
69
- 41 -23 55 parietal
70
- 42 -24 17 post insula
71
- 11 -24 2 basal ganglia
72
- -59 -25 -15 inf temporal
73
- 1 -26 31 post cingulate
74
- 18 -27 62 parietal
75
- -38 -27 60 parietal
76
- -30 -28 9 post insula
77
- -24 -30 64 parietal
78
- 51 -30 5 temporal
79
- -41 -31 48 post parietal
80
- -4 -31 -4 post cingulate
81
- 54 -31 -18 fusiform
82
- -41 -37 16 temporal
83
- -53 -37 13 temporal
84
- 28 -37 -15 fusiform
85
- -3 -38 45 precuneus
86
- 34 -39 65 sup parietal
87
- 8 -40 50 precuneus
88
- -41 -40 42 IPL
89
- 58 -41 20 parietal
90
- -8 -41 3 post cingulate
91
- -61 -41 -2 inf temporal
92
- -28 -42 -11 occipital
93
- -5 -43 25 post cingulate
94
- 9 -43 25 precuneus
95
- 43 -43 8 temporal
96
- 54 -44 43 IPL
97
- -55 -44 30 parietal
98
- -28 -44 -25 lat cerebellum
99
- -35 -46 48 post parietal
100
- 42 -46 21 sup temporal
101
- -48 -47 49 IPL
102
- -41 -47 29 angular gyrus
103
- -59 -47 11 temporal
104
- -53 -50 39 IPL
105
- 5 -50 33 precuneus
106
- -18 -50 1 occipital
107
- 44 -52 47 IPL
108
- -5 -52 17 post cingulate
109
- -24 -54 -21 lat cerebellum
110
- -37 -54 -37 inf cerebellum
111
- 10 -55 17 post cingulate
112
- -6 -56 29 precuneus
113
- -34 -57 -24 lat cerebellum
114
- -32 -58 46 IPS
115
- -11 -58 17 post cingulate
116
- 32 -59 41 IPS
117
- 51 -59 34 angular gyrus
118
- -34 -60 -5 occipital
119
- 36 -60 -8 occipital
120
- -6 -60 -15 med cerebellum
121
- -25 -60 -34 inf cerebellum
122
- 32 -61 -31 inf cerebellum
123
- 46 -62 5 temporal
124
- -48 -63 35 angular gyrus
125
- -52 -63 15 TPJ
126
- -44 -63 -7 occipital
127
- -16 -64 -21 med cerebellum
128
- 21 -64 -22 lat cerebellum
129
- 19 -66 -1 occipital
130
- 1 -66 -24 med cerebellum
131
- -34 -67 -29 inf cerebellum
132
- 11 -68 42 precuneus
133
- 17 -68 20 occipital
134
- -36 -69 40 IPS
135
- 39 -71 13 occipital
136
- -9 -72 41 occipital
137
- 45 -72 29 occipital
138
- -11 -72 -14 med cerebellum
139
- 29 -73 29 occipital
140
- 33 -73 -30 inf cerebellum
141
- -2 -75 32 occipital
142
- -29 -75 28 occipital
143
- 5 -75 -11 med cerebellum
144
- 14 -75 -21 med cerebellum
145
- -16 -76 33 occipital
146
- -42 -76 26 occipital
147
- 9 -76 14 occipital
148
- 15 -77 32 occipital
149
- 20 -78 -2 occipital
150
- -21 -79 -33 inf cerebellum
151
- -6 -79 -33 inf cerebellum
152
- -5 -80 9 post occipital
153
- 29 -81 14 post occipital
154
- 33 -81 -2 post occipital
155
- 18 -81 -33 inf cerebellum
156
- -37 -83 -2 post occipital
157
- -29 -88 8 post occipital
158
- 13 -91 2 post occipital
159
- 27 -91 2 post occipital
160
- -4 -94 12 post occipital
junifer/data/coordinates/VOIs/meta/Empathy_VOIs.txt DELETED
@@ -1,22 +0,0 @@
1
- 2.0 56.0 18.0 dmPFC
2
- -8.0 54.0 34.0 dmPFC
3
- 36.0 22.0 -8.0 raI
4
- -30.0 20.0 4.0 laI
5
- 50.0 12.0 -8.0 rIFG
6
- 54.0 16.0 20.0 rIFG/Area44
7
- 50.0 30.0 4.0 rIFG/Area45
8
- -44.0 24.0 -6.0 lIFG
9
- -4.0 18.0 50.0 SMA
10
- -2.0 28.0 20.0 aMCC
11
- -4.0 42.0 18.0 rACC
12
- -2.0 -32.0 28.0 PCC
13
- 52.0 -58.0 22.0 rTPJ
14
- -56.0 -58.0 22.0 lTPJ
15
- 22.0 -2.0 -16.0 rAm
16
- 54.0 -8.0 -16.0 rMTG
17
- 52.0 -36.0 2.0 rpSTS
18
- -12.0 -4.0 12.0 laTh
19
- 6.0 -32.0 2.0 rpTh
20
- 26.0 -26.0 -12.0 rHippo
21
- 2.0 -20.0 -12.0 Midbrain
22
- 14.0 4.0 0.0 rGP
junifer/data/coordinates/VOIs/meta/Motor_VOIs.txt DELETED
@@ -1,10 +0,0 @@
1
- -39.0 -21.0 54.0 lSMC*
2
- 41.0 -16.0 57.0 rSMC*
3
- -3.0 -2.0 54.0 SMA
4
- -57.0 2.0 32.0 lPMCv
5
- -53.0 -24.0 21.0 lIPC
6
- 45.0 -38.0 48.0 rIPC
7
- -23.0 -7.0 1.0 lBG
8
- 25.0 -8.0 3.0 rBG
9
- -22.0 -52.0 26.0 lCba
10
- 18.0 -54.0 -22.0 rCba
junifer/data/coordinates/VOIs/meta/MultiTask_VOIs.txt DELETED
@@ -1,9 +0,0 @@
1
- -34 22 -4 leftInsula
2
- 34 24 0 rightInsula
3
- -26 0 52 Frontal_Mid_L
4
- 44 38 28 Frontal_Inf_Tri_R
5
- 46 10 28 Frontal_Inf_Oper_R
6
- -6 18 50 Supp_Motor_Area_L
7
- -34 -52 56 Parietal_Inf_L
8
- 32 -52 50 Parietal_Inf_R
9
- 32 6 58 Frontal_Mid_R
junifer/data/coordinates/VOIs/meta/PhysioStress_VOIs.txt DELETED
@@ -1,18 +0,0 @@
1
- 38.0 18.0 0.0 rIns
2
- 52.0 12.0 -4.0 rSTG
3
- 60.0 6.0 2.0 rTP
4
- 22.0 0.0 -4.0 rPall
5
- -38.0 14.0 4.0 lIns
6
- -58.0 0.0 6.0 lOP4
7
- -20.0 6.0 2.0 lPut
8
- 4.0 6.0 46.0 rSMA
9
- 0.0 14.0 36.0 lMCC
10
- -42.0 -18.0 18.0 lOP3
11
- -54.0 -24.0 24.0 lSMG
12
- -36.0 -20.0 2.0 lIns
13
- -14.0 -12.0 10.0 lTh
14
- 10.0 -18.0 4.0 rTh
15
- 56.0 -24.0 24.0 lSMG
16
- 44.0 -14.0 16.0 rOP3
17
- 38.0 50.0 12.0 rMFG
18
- -24.0 -66.0 -26.0 lCb
junifer/data/coordinates/VOIs/meta/Power2011_MNI_VOIs.txt DELETED
@@ -1,264 +0,0 @@
1
- -25 -98 -12 1
2
- 27 -97 -13 2
3
- 24 32 -18 3
4
- -56 -45 -24 4
5
- 8 41 -24 5
6
- -21 -22 -20 6
7
- 17 -28 -17 7
8
- -37 -29 -26 8
9
- 65 -24 -19 9
10
- 52 -34 -27 10
11
- 55 -31 -17 11
12
- 34 38 -12 12
13
- -7 -52 61 13
14
- -14 -18 40 14
15
- 0 -15 47 15
16
- 10 -2 45 16
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- -7 -21 65 17
18
- -7 -33 72 18
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- 13 -33 75 19
20
- -54 -23 43 20
21
- 29 -17 71 21
22
- 10 -46 73 22
23
- -23 -30 72 23
24
- -40 -19 54 24
25
- 29 -39 59 25
26
- 50 -20 42 26
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- -38 -27 69 27
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- 20 -29 60 28
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- 44 -8 57 29
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- -29 -43 61 30
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- 10 -17 74 31
32
- 22 -42 69 32
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- -45 -32 47 33
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- -21 -31 61 34
35
- -13 -17 75 35
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- 42 -20 55 36
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- -38 -15 69 37
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- -16 -46 73 38
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- 2 -28 60 39
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- 3 -17 58 40
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- 38 -17 45 41
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- -49 -11 35 42
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- 36 -9 14 43
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- 51 -6 32 44
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- -53 -10 24 45
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- 66 -8 25 46
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- -3 2 53 47
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- 54 -28 34 48
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- 19 -8 64 49
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- -16 -5 71 50
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- -10 -2 42 51
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- 37 1 -4 52
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- 13 -1 70 53
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- 7 8 51 54
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- -45 0 9 55
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- 49 8 -1 56
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- -34 3 4 57
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- -51 8 -2 58
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- -5 18 34 59
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- 36 10 1 60
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- 32 -26 13 61
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- 65 -33 20 62
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- 58 -16 7 63
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- -38 -33 17 64
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- -60 -25 14 65
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- -49 -26 5 66
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- 43 -23 20 67
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- -50 -34 26 68
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- 56 -5 13 71
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- 59 -17 29 72
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- 27 16 -17 85
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- -7 -55 27 88
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