Mercurial > repos > imgteam > superdsm

annotate test-data/cfg.tsv @ 3:7fd8dba15bd3 draft

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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
author imgteam
date Thu, 16 Nov 2023 12:29:41 +0000
parents
children dc5f72f6b1e9
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3
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
1 Hyperparameter Value
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
2 c2f_region_analysis_min_norm_energy_improvement 0.1
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
3 c2f_region_analysis_max_atom_norm_energy 0.05
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
4 c2f_region_analysis_max_cluster_marker_irregularity 0.2
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
5 dsm_AF_alpha 0.0005
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
6 global_energy_minimization_AF_beta 0.66
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
7 postprocess_mask_max_distance 1
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
8 postprocess_mask_stdamp 2.0
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
9 postprocess_max_norm_energy 0.2
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
10 postprocess_min_contrast 1.35
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
11 postprocess_min_object_radius 0.0
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
12 AF_scale
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
13 preprocess/AF_sigma2 1.0
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
14 preprocess/sigma2 65.05382386916237
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
15 preprocess/enabled True
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
16 preprocess/sigma1 1.4142135623730951
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
17 preprocess/offset_clip 3
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
18 preprocess/lower_clip_mean False
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
19 dsm/AF_alpha 0.0005
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
20 dsm/alpha 2.116
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
21 dsm/AF_smooth_amount 0.2
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
22 dsm/smooth_amount 13
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
23 dsm/AF_smooth_subsample 0.4
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
24 dsm/smooth_subsample 26
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
25 dsm/AF_background_margin 0.4
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
26 dsm/background_margin 26
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
27 dsm/enabled True
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
28 dsm/cachesize 1
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
29 dsm/cachetest
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
30 dsm/sparsity_tol 0
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
31 dsm/init elliptical
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
32 dsm/epsilon 1.0
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
33 dsm/scale 1000
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
34 dsm/gaussian_shape_multiplier 2
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
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diff changeset
35 dsm/smooth_mat_dtype float32
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
36 dsm/smooth_mat_max_allocations inf
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
37 dsm/cp_timeout 300
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
38 c2f-region-analysis/AF_min_atom_radius 0.33
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
39 c2f-region-analysis/min_atom_radius 30
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
40 c2f-region-analysis/enabled True
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
41 c2f-region-analysis/seed_connectivity 8
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
42 c2f-region-analysis/max_atom_norm_energy 0.05
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
43 c2f-region-analysis/min_norm_energy_improvement 0.1
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
44 c2f-region-analysis/max_cluster_marker_irregularity 0.2
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
45 global-energy-minimization/AF_beta 0.66
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
46 global-energy-minimization/beta 2793.1200000000003
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
47 global-energy-minimization/AF_max_seed_distance inf
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
48 global-energy-minimization/max_seed_distance inf
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
49 global-energy-minimization/enabled True
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
50 global-energy-minimization/strict True
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
51 global-energy-minimization/max_iter 5
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
52 global-energy-minimization/gamma 0.8
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
53 global-energy-minimization/max_work_amount 1000000
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
54 postprocess/AF_min_object_radius 0.0
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
55 postprocess/min_object_radius 0.0
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
56 postprocess/AF_max_object_radius inf
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
57 postprocess/max_object_radius inf
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
58 postprocess/AF_min_glare_radius inf
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
59 postprocess/min_glare_radius inf
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
60 postprocess/enabled True
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
61 postprocess/max_norm_energy 0.2
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
62 postprocess/discard_image_boundary False
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
63 postprocess/min_boundary_obj_radius 0
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
64 postprocess/max_eccentricity 0.99
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
65 postprocess/max_boundary_eccentricity inf
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
66 postprocess/exterior_scale 5
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
67 postprocess/exterior_offset 5
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
68 postprocess/min_contrast 1.35
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
69 postprocess/contrast_epsilon 0.0001
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
70 postprocess/mask_stdamp 2
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
71 postprocess/mask_max_distance 1
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
72 postprocess/mask_smoothness 3
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
73 postprocess/fill_holes True
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
74 postprocess/glare_detection_smoothness 3
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
75 postprocess/glare_detection_num_layers 5
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
76 postprocess/glare_detection_min_layer 0.5
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
parents:
diff changeset
77 postprocess/min_boundary_glare_radius inf
7fd8dba15bd3 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/superdsm/ commit fea6c8161c4b3e6394fe035b12b69b73e6fa7d75
imgteam
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diff changeset
78 histological False