From 90014e5ed923e533616de325c7a9ed7a4dbf7c3c Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Antoine=20Th=C3=A9berge?= <thea1603@usherbrooke.ca>
Date: Fri, 5 Apr 2024 04:02:39 -0400
Subject: [PATCH 1/3] ENH: example config

---
 example_config/tractoinferno_config.json | 2564 ++++++++++++++++++++++
 1 file changed, 2564 insertions(+)
 create mode 100644 example_config/tractoinferno_config.json

diff --git a/example_config/tractoinferno_config.json b/example_config/tractoinferno_config.json
new file mode 100644
index 0000000..9ed7166
--- /dev/null
+++ b/example_config/tractoinferno_config.json
@@ -0,0 +1,2564 @@
+{
+    "training": {
+        "sub-1001": {
+            "inputs": [
+                "trainset/sub-1001/fodf/sub-1001__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1001/fodf/sub-1001__peaks.nii.gz",
+            "tracking": "trainset/sub-1001/masks/sub-1001__tracking.nii.gz",
+            "seeding": "trainset/sub-1001/maps/sub-1001__interface.nii.gz",
+            "anat": "trainset/sub-1001/anat/sub-1001__T1w.nii.gz"
+        },
+        "sub-1002": {
+            "inputs": [
+                "trainset/sub-1002/fodf/sub-1002__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1002/fodf/sub-1002__peaks.nii.gz",
+            "tracking": "trainset/sub-1002/masks/sub-1002__tracking.nii.gz",
+            "seeding": "trainset/sub-1002/maps/sub-1002__interface.nii.gz",
+            "anat": "trainset/sub-1002/anat/sub-1002__T1w.nii.gz"
+        },
+        "sub-1003": {
+            "inputs": [
+                "trainset/sub-1003/fodf/sub-1003__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1003/fodf/sub-1003__peaks.nii.gz",
+            "tracking": "trainset/sub-1003/masks/sub-1003__tracking.nii.gz",
+            "seeding": "trainset/sub-1003/maps/sub-1003__interface.nii.gz",
+            "anat": "trainset/sub-1003/anat/sub-1003__T1w.nii.gz"
+        },
+        "sub-1004": {
+            "inputs": [
+                "trainset/sub-1004/fodf/sub-1004__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1004/fodf/sub-1004__peaks.nii.gz",
+            "tracking": "trainset/sub-1004/masks/sub-1004__tracking.nii.gz",
+            "seeding": "trainset/sub-1004/maps/sub-1004__interface.nii.gz",
+            "anat": "trainset/sub-1004/anat/sub-1004__T1w.nii.gz"
+        },
+        "sub-1005": {
+            "inputs": [
+                "trainset/sub-1005/fodf/sub-1005__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1005/fodf/sub-1005__peaks.nii.gz",
+            "tracking": "trainset/sub-1005/masks/sub-1005__tracking.nii.gz",
+            "seeding": "trainset/sub-1005/maps/sub-1005__interface.nii.gz",
+            "anat": "trainset/sub-1005/anat/sub-1005__T1w.nii.gz"
+        },
+        "sub-1007": {
+            "inputs": [
+                "trainset/sub-1007/fodf/sub-1007__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1007/fodf/sub-1007__peaks.nii.gz",
+            "tracking": "trainset/sub-1007/masks/sub-1007__tracking.nii.gz",
+            "seeding": "trainset/sub-1007/maps/sub-1007__interface.nii.gz",
+            "anat": "trainset/sub-1007/anat/sub-1007__T1w.nii.gz"
+        },
+        "sub-1011": {
+            "inputs": [
+                "trainset/sub-1011/fodf/sub-1011__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1011/fodf/sub-1011__peaks.nii.gz",
+            "tracking": "trainset/sub-1011/masks/sub-1011__tracking.nii.gz",
+            "seeding": "trainset/sub-1011/maps/sub-1011__interface.nii.gz",
+            "anat": "trainset/sub-1011/anat/sub-1011__T1w.nii.gz"
+        },
+        "sub-1012": {
+            "inputs": [
+                "trainset/sub-1012/fodf/sub-1012__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1012/fodf/sub-1012__peaks.nii.gz",
+            "tracking": "trainset/sub-1012/masks/sub-1012__tracking.nii.gz",
+            "seeding": "trainset/sub-1012/maps/sub-1012__interface.nii.gz",
+            "anat": "trainset/sub-1012/anat/sub-1012__T1w.nii.gz"
+        },
+        "sub-1013": {
+            "inputs": [
+                "trainset/sub-1013/fodf/sub-1013__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1013/fodf/sub-1013__peaks.nii.gz",
+            "tracking": "trainset/sub-1013/masks/sub-1013__tracking.nii.gz",
+            "seeding": "trainset/sub-1013/maps/sub-1013__interface.nii.gz",
+            "anat": "trainset/sub-1013/anat/sub-1013__T1w.nii.gz"
+        },
+        "sub-1014": {
+            "inputs": [
+                "trainset/sub-1014/fodf/sub-1014__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1014/fodf/sub-1014__peaks.nii.gz",
+            "tracking": "trainset/sub-1014/masks/sub-1014__tracking.nii.gz",
+            "seeding": "trainset/sub-1014/maps/sub-1014__interface.nii.gz",
+            "anat": "trainset/sub-1014/anat/sub-1014__T1w.nii.gz"
+        },
+        "sub-1015": {
+            "inputs": [
+                "trainset/sub-1015/fodf/sub-1015__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1015/fodf/sub-1015__peaks.nii.gz",
+            "tracking": "trainset/sub-1015/masks/sub-1015__tracking.nii.gz",
+            "seeding": "trainset/sub-1015/maps/sub-1015__interface.nii.gz",
+            "anat": "trainset/sub-1015/anat/sub-1015__T1w.nii.gz"
+        },
+        "sub-1016": {
+            "inputs": [
+                "trainset/sub-1016/fodf/sub-1016__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1016/fodf/sub-1016__peaks.nii.gz",
+            "tracking": "trainset/sub-1016/masks/sub-1016__tracking.nii.gz",
+            "seeding": "trainset/sub-1016/maps/sub-1016__interface.nii.gz",
+            "anat": "trainset/sub-1016/anat/sub-1016__T1w.nii.gz"
+        },
+        "sub-1017": {
+            "inputs": [
+                "trainset/sub-1017/fodf/sub-1017__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1017/fodf/sub-1017__peaks.nii.gz",
+            "tracking": "trainset/sub-1017/masks/sub-1017__tracking.nii.gz",
+            "seeding": "trainset/sub-1017/maps/sub-1017__interface.nii.gz",
+            "anat": "trainset/sub-1017/anat/sub-1017__T1w.nii.gz"
+        },
+        "sub-1018": {
+            "inputs": [
+                "trainset/sub-1018/fodf/sub-1018__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1018/fodf/sub-1018__peaks.nii.gz",
+            "tracking": "trainset/sub-1018/masks/sub-1018__tracking.nii.gz",
+            "seeding": "trainset/sub-1018/maps/sub-1018__interface.nii.gz",
+            "anat": "trainset/sub-1018/anat/sub-1018__T1w.nii.gz"
+        },
+        "sub-1020": {
+            "inputs": [
+                "trainset/sub-1020/fodf/sub-1020__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1020/fodf/sub-1020__peaks.nii.gz",
+            "tracking": "trainset/sub-1020/masks/sub-1020__tracking.nii.gz",
+            "seeding": "trainset/sub-1020/maps/sub-1020__interface.nii.gz",
+            "anat": "trainset/sub-1020/anat/sub-1020__T1w.nii.gz"
+        },
+        "sub-1023": {
+            "inputs": [
+                "trainset/sub-1023/fodf/sub-1023__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1023/fodf/sub-1023__peaks.nii.gz",
+            "tracking": "trainset/sub-1023/masks/sub-1023__tracking.nii.gz",
+            "seeding": "trainset/sub-1023/maps/sub-1023__interface.nii.gz",
+            "anat": "trainset/sub-1023/anat/sub-1023__T1w.nii.gz"
+        },
+        "sub-1025": {
+            "inputs": [
+                "trainset/sub-1025/fodf/sub-1025__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1025/fodf/sub-1025__peaks.nii.gz",
+            "tracking": "trainset/sub-1025/masks/sub-1025__tracking.nii.gz",
+            "seeding": "trainset/sub-1025/maps/sub-1025__interface.nii.gz",
+            "anat": "trainset/sub-1025/anat/sub-1025__T1w.nii.gz"
+        },
+        "sub-1026": {
+            "inputs": [
+                "trainset/sub-1026/fodf/sub-1026__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1026/fodf/sub-1026__peaks.nii.gz",
+            "tracking": "trainset/sub-1026/masks/sub-1026__tracking.nii.gz",
+            "seeding": "trainset/sub-1026/maps/sub-1026__interface.nii.gz",
+            "anat": "trainset/sub-1026/anat/sub-1026__T1w.nii.gz"
+        },
+        "sub-1027": {
+            "inputs": [
+                "trainset/sub-1027/fodf/sub-1027__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1027/fodf/sub-1027__peaks.nii.gz",
+            "tracking": "trainset/sub-1027/masks/sub-1027__tracking.nii.gz",
+            "seeding": "trainset/sub-1027/maps/sub-1027__interface.nii.gz",
+            "anat": "trainset/sub-1027/anat/sub-1027__T1w.nii.gz"
+        },
+        "sub-1029": {
+            "inputs": [
+                "trainset/sub-1029/fodf/sub-1029__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1029/fodf/sub-1029__peaks.nii.gz",
+            "tracking": "trainset/sub-1029/masks/sub-1029__tracking.nii.gz",
+            "seeding": "trainset/sub-1029/maps/sub-1029__interface.nii.gz",
+            "anat": "trainset/sub-1029/anat/sub-1029__T1w.nii.gz"
+        },
+        "sub-1030": {
+            "inputs": [
+                "trainset/sub-1030/fodf/sub-1030__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1030/fodf/sub-1030__peaks.nii.gz",
+            "tracking": "trainset/sub-1030/masks/sub-1030__tracking.nii.gz",
+            "seeding": "trainset/sub-1030/maps/sub-1030__interface.nii.gz",
+            "anat": "trainset/sub-1030/anat/sub-1030__T1w.nii.gz"
+        },
+        "sub-1032": {
+            "inputs": [
+                "trainset/sub-1032/fodf/sub-1032__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1032/fodf/sub-1032__peaks.nii.gz",
+            "tracking": "trainset/sub-1032/masks/sub-1032__tracking.nii.gz",
+            "seeding": "trainset/sub-1032/maps/sub-1032__interface.nii.gz",
+            "anat": "trainset/sub-1032/anat/sub-1032__T1w.nii.gz"
+        },
+        "sub-1033": {
+            "inputs": [
+                "trainset/sub-1033/fodf/sub-1033__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1033/fodf/sub-1033__peaks.nii.gz",
+            "tracking": "trainset/sub-1033/masks/sub-1033__tracking.nii.gz",
+            "seeding": "trainset/sub-1033/maps/sub-1033__interface.nii.gz",
+            "anat": "trainset/sub-1033/anat/sub-1033__T1w.nii.gz"
+        },
+        "sub-1034": {
+            "inputs": [
+                "trainset/sub-1034/fodf/sub-1034__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1034/fodf/sub-1034__peaks.nii.gz",
+            "tracking": "trainset/sub-1034/masks/sub-1034__tracking.nii.gz",
+            "seeding": "trainset/sub-1034/maps/sub-1034__interface.nii.gz",
+            "anat": "trainset/sub-1034/anat/sub-1034__T1w.nii.gz"
+        },
+        "sub-1035": {
+            "inputs": [
+                "trainset/sub-1035/fodf/sub-1035__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1035/fodf/sub-1035__peaks.nii.gz",
+            "tracking": "trainset/sub-1035/masks/sub-1035__tracking.nii.gz",
+            "seeding": "trainset/sub-1035/maps/sub-1035__interface.nii.gz",
+            "anat": "trainset/sub-1035/anat/sub-1035__T1w.nii.gz"
+        },
+        "sub-1038": {
+            "inputs": [
+                "trainset/sub-1038/fodf/sub-1038__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1038/fodf/sub-1038__peaks.nii.gz",
+            "tracking": "trainset/sub-1038/masks/sub-1038__tracking.nii.gz",
+            "seeding": "trainset/sub-1038/maps/sub-1038__interface.nii.gz",
+            "anat": "trainset/sub-1038/anat/sub-1038__T1w.nii.gz"
+        },
+        "sub-1039": {
+            "inputs": [
+                "trainset/sub-1039/fodf/sub-1039__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1039/fodf/sub-1039__peaks.nii.gz",
+            "tracking": "trainset/sub-1039/masks/sub-1039__tracking.nii.gz",
+            "seeding": "trainset/sub-1039/maps/sub-1039__interface.nii.gz",
+            "anat": "trainset/sub-1039/anat/sub-1039__T1w.nii.gz"
+        },
+        "sub-1040": {
+            "inputs": [
+                "trainset/sub-1040/fodf/sub-1040__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1040/fodf/sub-1040__peaks.nii.gz",
+            "tracking": "trainset/sub-1040/masks/sub-1040__tracking.nii.gz",
+            "seeding": "trainset/sub-1040/maps/sub-1040__interface.nii.gz",
+            "anat": "trainset/sub-1040/anat/sub-1040__T1w.nii.gz"
+        },
+        "sub-1041": {
+            "inputs": [
+                "trainset/sub-1041/fodf/sub-1041__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1041/fodf/sub-1041__peaks.nii.gz",
+            "tracking": "trainset/sub-1041/masks/sub-1041__tracking.nii.gz",
+            "seeding": "trainset/sub-1041/maps/sub-1041__interface.nii.gz",
+            "anat": "trainset/sub-1041/anat/sub-1041__T1w.nii.gz"
+        },
+        "sub-1042": {
+            "inputs": [
+                "trainset/sub-1042/fodf/sub-1042__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1042/fodf/sub-1042__peaks.nii.gz",
+            "tracking": "trainset/sub-1042/masks/sub-1042__tracking.nii.gz",
+            "seeding": "trainset/sub-1042/maps/sub-1042__interface.nii.gz",
+            "anat": "trainset/sub-1042/anat/sub-1042__T1w.nii.gz"
+        },
+        "sub-1043": {
+            "inputs": [
+                "trainset/sub-1043/fodf/sub-1043__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1043/fodf/sub-1043__peaks.nii.gz",
+            "tracking": "trainset/sub-1043/masks/sub-1043__tracking.nii.gz",
+            "seeding": "trainset/sub-1043/maps/sub-1043__interface.nii.gz",
+            "anat": "trainset/sub-1043/anat/sub-1043__T1w.nii.gz"
+        },
+        "sub-1044": {
+            "inputs": [
+                "trainset/sub-1044/fodf/sub-1044__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1044/fodf/sub-1044__peaks.nii.gz",
+            "tracking": "trainset/sub-1044/masks/sub-1044__tracking.nii.gz",
+            "seeding": "trainset/sub-1044/maps/sub-1044__interface.nii.gz",
+            "anat": "trainset/sub-1044/anat/sub-1044__T1w.nii.gz"
+        },
+        "sub-1045": {
+            "inputs": [
+                "trainset/sub-1045/fodf/sub-1045__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1045/fodf/sub-1045__peaks.nii.gz",
+            "tracking": "trainset/sub-1045/masks/sub-1045__tracking.nii.gz",
+            "seeding": "trainset/sub-1045/maps/sub-1045__interface.nii.gz",
+            "anat": "trainset/sub-1045/anat/sub-1045__T1w.nii.gz"
+        },
+        "sub-1048": {
+            "inputs": [
+                "trainset/sub-1048/fodf/sub-1048__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1048/fodf/sub-1048__peaks.nii.gz",
+            "tracking": "trainset/sub-1048/masks/sub-1048__tracking.nii.gz",
+            "seeding": "trainset/sub-1048/maps/sub-1048__interface.nii.gz",
+            "anat": "trainset/sub-1048/anat/sub-1048__T1w.nii.gz"
+        },
+        "sub-1051": {
+            "inputs": [
+                "trainset/sub-1051/fodf/sub-1051__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1051/fodf/sub-1051__peaks.nii.gz",
+            "tracking": "trainset/sub-1051/masks/sub-1051__tracking.nii.gz",
+            "seeding": "trainset/sub-1051/maps/sub-1051__interface.nii.gz",
+            "anat": "trainset/sub-1051/anat/sub-1051__T1w.nii.gz"
+        },
+        "sub-1052": {
+            "inputs": [
+                "trainset/sub-1052/fodf/sub-1052__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1052/fodf/sub-1052__peaks.nii.gz",
+            "tracking": "trainset/sub-1052/masks/sub-1052__tracking.nii.gz",
+            "seeding": "trainset/sub-1052/maps/sub-1052__interface.nii.gz",
+            "anat": "trainset/sub-1052/anat/sub-1052__T1w.nii.gz"
+        },
+        "sub-1054": {
+            "inputs": [
+                "trainset/sub-1054/fodf/sub-1054__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1054/fodf/sub-1054__peaks.nii.gz",
+            "tracking": "trainset/sub-1054/masks/sub-1054__tracking.nii.gz",
+            "seeding": "trainset/sub-1054/maps/sub-1054__interface.nii.gz",
+            "anat": "trainset/sub-1054/anat/sub-1054__T1w.nii.gz"
+        },
+        "sub-1055": {
+            "inputs": [
+                "trainset/sub-1055/fodf/sub-1055__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1055/fodf/sub-1055__peaks.nii.gz",
+            "tracking": "trainset/sub-1055/masks/sub-1055__tracking.nii.gz",
+            "seeding": "trainset/sub-1055/maps/sub-1055__interface.nii.gz",
+            "anat": "trainset/sub-1055/anat/sub-1055__T1w.nii.gz"
+        },
+        "sub-1056": {
+            "inputs": [
+                "trainset/sub-1056/fodf/sub-1056__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1056/fodf/sub-1056__peaks.nii.gz",
+            "tracking": "trainset/sub-1056/masks/sub-1056__tracking.nii.gz",
+            "seeding": "trainset/sub-1056/maps/sub-1056__interface.nii.gz",
+            "anat": "trainset/sub-1056/anat/sub-1056__T1w.nii.gz"
+        },
+        "sub-1057": {
+            "inputs": [
+                "trainset/sub-1057/fodf/sub-1057__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1057/fodf/sub-1057__peaks.nii.gz",
+            "tracking": "trainset/sub-1057/masks/sub-1057__tracking.nii.gz",
+            "seeding": "trainset/sub-1057/maps/sub-1057__interface.nii.gz",
+            "anat": "trainset/sub-1057/anat/sub-1057__T1w.nii.gz"
+        },
+        "sub-1059": {
+            "inputs": [
+                "trainset/sub-1059/fodf/sub-1059__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1059/fodf/sub-1059__peaks.nii.gz",
+            "tracking": "trainset/sub-1059/masks/sub-1059__tracking.nii.gz",
+            "seeding": "trainset/sub-1059/maps/sub-1059__interface.nii.gz",
+            "anat": "trainset/sub-1059/anat/sub-1059__T1w.nii.gz"
+        },
+        "sub-1060": {
+            "inputs": [
+                "trainset/sub-1060/fodf/sub-1060__fodf.nii.gz"
+            ],
+            "peaks": "trainset/sub-1060/fodf/sub-1060__peaks.nii.gz",
+            "tracking": "trainset/sub-1060/masks/sub-1060__tracking.nii.gz",
+            "seeding": "trainset/sub-1060/maps/sub-1060__interface.nii.gz",
+            "anat": "trainset/sub-1060/anat/sub-1060__T1w.nii.gz"
+        },
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+        "sub-1019": {
+            "inputs": [
+                "testset/sub-1019/fodf/sub-1019__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1019/fodf/sub-1019__peaks.nii.gz",
+            "tracking": "testset/sub-1019/masks/sub-1019__tracking.nii.gz",
+            "seeding": "testset/sub-1019/maps/sub-1019__interface.nii.gz",
+            "anat": "testset/sub-1019/anat/sub-1019__T1w.nii.gz"
+        },
+        "sub-1024": {
+            "inputs": [
+                "testset/sub-1024/fodf/sub-1024__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1024/fodf/sub-1024__peaks.nii.gz",
+            "tracking": "testset/sub-1024/masks/sub-1024__tracking.nii.gz",
+            "seeding": "testset/sub-1024/maps/sub-1024__interface.nii.gz",
+            "anat": "testset/sub-1024/anat/sub-1024__T1w.nii.gz"
+        },
+        "sub-1046": {
+            "inputs": [
+                "testset/sub-1046/fodf/sub-1046__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1046/fodf/sub-1046__peaks.nii.gz",
+            "tracking": "testset/sub-1046/masks/sub-1046__tracking.nii.gz",
+            "seeding": "testset/sub-1046/maps/sub-1046__interface.nii.gz",
+            "anat": "testset/sub-1046/anat/sub-1046__T1w.nii.gz"
+        },
+        "sub-1047": {
+            "inputs": [
+                "testset/sub-1047/fodf/sub-1047__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1047/fodf/sub-1047__peaks.nii.gz",
+            "tracking": "testset/sub-1047/masks/sub-1047__tracking.nii.gz",
+            "seeding": "testset/sub-1047/maps/sub-1047__interface.nii.gz",
+            "anat": "testset/sub-1047/anat/sub-1047__T1w.nii.gz"
+        },
+        "sub-1049": {
+            "inputs": [
+                "testset/sub-1049/fodf/sub-1049__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1049/fodf/sub-1049__peaks.nii.gz",
+            "tracking": "testset/sub-1049/masks/sub-1049__tracking.nii.gz",
+            "seeding": "testset/sub-1049/maps/sub-1049__interface.nii.gz",
+            "anat": "testset/sub-1049/anat/sub-1049__T1w.nii.gz"
+        },
+        "sub-1050": {
+            "inputs": [
+                "testset/sub-1050/fodf/sub-1050__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1050/fodf/sub-1050__peaks.nii.gz",
+            "tracking": "testset/sub-1050/masks/sub-1050__tracking.nii.gz",
+            "seeding": "testset/sub-1050/maps/sub-1050__interface.nii.gz",
+            "anat": "testset/sub-1050/anat/sub-1050__T1w.nii.gz"
+        },
+        "sub-1061": {
+            "inputs": [
+                "testset/sub-1061/fodf/sub-1061__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1061/fodf/sub-1061__peaks.nii.gz",
+            "tracking": "testset/sub-1061/masks/sub-1061__tracking.nii.gz",
+            "seeding": "testset/sub-1061/maps/sub-1061__interface.nii.gz",
+            "anat": "testset/sub-1061/anat/sub-1061__T1w.nii.gz"
+        },
+        "sub-1066": {
+            "inputs": [
+                "testset/sub-1066/fodf/sub-1066__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1066/fodf/sub-1066__peaks.nii.gz",
+            "tracking": "testset/sub-1066/masks/sub-1066__tracking.nii.gz",
+            "seeding": "testset/sub-1066/maps/sub-1066__interface.nii.gz",
+            "anat": "testset/sub-1066/anat/sub-1066__T1w.nii.gz"
+        },
+        "sub-1080": {
+            "inputs": [
+                "testset/sub-1080/fodf/sub-1080__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1080/fodf/sub-1080__peaks.nii.gz",
+            "tracking": "testset/sub-1080/masks/sub-1080__tracking.nii.gz",
+            "seeding": "testset/sub-1080/maps/sub-1080__interface.nii.gz",
+            "anat": "testset/sub-1080/anat/sub-1080__T1w.nii.gz"
+        },
+        "sub-1115": {
+            "inputs": [
+                "testset/sub-1115/fodf/sub-1115__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1115/fodf/sub-1115__peaks.nii.gz",
+            "tracking": "testset/sub-1115/masks/sub-1115__tracking.nii.gz",
+            "seeding": "testset/sub-1115/maps/sub-1115__interface.nii.gz",
+            "anat": "testset/sub-1115/anat/sub-1115__T1w.nii.gz"
+        },
+        "sub-1124": {
+            "inputs": [
+                "testset/sub-1124/fodf/sub-1124__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1124/fodf/sub-1124__peaks.nii.gz",
+            "tracking": "testset/sub-1124/masks/sub-1124__tracking.nii.gz",
+            "seeding": "testset/sub-1124/maps/sub-1124__interface.nii.gz",
+            "anat": "testset/sub-1124/anat/sub-1124__T1w.nii.gz"
+        },
+        "sub-1135": {
+            "inputs": [
+                "testset/sub-1135/fodf/sub-1135__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1135/fodf/sub-1135__peaks.nii.gz",
+            "tracking": "testset/sub-1135/masks/sub-1135__tracking.nii.gz",
+            "seeding": "testset/sub-1135/maps/sub-1135__interface.nii.gz",
+            "anat": "testset/sub-1135/anat/sub-1135__T1w.nii.gz"
+        },
+        "sub-1146": {
+            "inputs": [
+                "testset/sub-1146/fodf/sub-1146__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1146/fodf/sub-1146__peaks.nii.gz",
+            "tracking": "testset/sub-1146/masks/sub-1146__tracking.nii.gz",
+            "seeding": "testset/sub-1146/maps/sub-1146__interface.nii.gz",
+            "anat": "testset/sub-1146/anat/sub-1146__T1w.nii.gz"
+        },
+        "sub-1149": {
+            "inputs": [
+                "testset/sub-1149/fodf/sub-1149__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1149/fodf/sub-1149__peaks.nii.gz",
+            "tracking": "testset/sub-1149/masks/sub-1149__tracking.nii.gz",
+            "seeding": "testset/sub-1149/maps/sub-1149__interface.nii.gz",
+            "anat": "testset/sub-1149/anat/sub-1149__T1w.nii.gz"
+        },
+        "sub-1156": {
+            "inputs": [
+                "testset/sub-1156/fodf/sub-1156__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1156/fodf/sub-1156__peaks.nii.gz",
+            "tracking": "testset/sub-1156/masks/sub-1156__tracking.nii.gz",
+            "seeding": "testset/sub-1156/maps/sub-1156__interface.nii.gz",
+            "anat": "testset/sub-1156/anat/sub-1156__T1w.nii.gz"
+        },
+        "sub-1164": {
+            "inputs": [
+                "testset/sub-1164/fodf/sub-1164__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1164/fodf/sub-1164__peaks.nii.gz",
+            "tracking": "testset/sub-1164/masks/sub-1164__tracking.nii.gz",
+            "seeding": "testset/sub-1164/maps/sub-1164__interface.nii.gz",
+            "anat": "testset/sub-1164/anat/sub-1164__T1w.nii.gz"
+        },
+        "sub-1175": {
+            "inputs": [
+                "testset/sub-1175/fodf/sub-1175__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1175/fodf/sub-1175__peaks.nii.gz",
+            "tracking": "testset/sub-1175/masks/sub-1175__tracking.nii.gz",
+            "seeding": "testset/sub-1175/maps/sub-1175__interface.nii.gz",
+            "anat": "testset/sub-1175/anat/sub-1175__T1w.nii.gz"
+        },
+        "sub-1178": {
+            "inputs": [
+                "testset/sub-1178/fodf/sub-1178__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1178/fodf/sub-1178__peaks.nii.gz",
+            "tracking": "testset/sub-1178/masks/sub-1178__tracking.nii.gz",
+            "seeding": "testset/sub-1178/maps/sub-1178__interface.nii.gz",
+            "anat": "testset/sub-1178/anat/sub-1178__T1w.nii.gz"
+        },
+        "sub-1191": {
+            "inputs": [
+                "testset/sub-1191/fodf/sub-1191__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1191/fodf/sub-1191__peaks.nii.gz",
+            "tracking": "testset/sub-1191/masks/sub-1191__tracking.nii.gz",
+            "seeding": "testset/sub-1191/maps/sub-1191__interface.nii.gz",
+            "anat": "testset/sub-1191/anat/sub-1191__T1w.nii.gz"
+        },
+        "sub-1209": {
+            "inputs": [
+                "testset/sub-1209/fodf/sub-1209__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1209/fodf/sub-1209__peaks.nii.gz",
+            "tracking": "testset/sub-1209/masks/sub-1209__tracking.nii.gz",
+            "seeding": "testset/sub-1209/maps/sub-1209__interface.nii.gz",
+            "anat": "testset/sub-1209/anat/sub-1209__T1w.nii.gz"
+        },
+        "sub-1217": {
+            "inputs": [
+                "testset/sub-1217/fodf/sub-1217__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1217/fodf/sub-1217__peaks.nii.gz",
+            "tracking": "testset/sub-1217/masks/sub-1217__tracking.nii.gz",
+            "seeding": "testset/sub-1217/maps/sub-1217__interface.nii.gz",
+            "anat": "testset/sub-1217/anat/sub-1217__T1w.nii.gz"
+        },
+        "sub-1222": {
+            "inputs": [
+                "testset/sub-1222/fodf/sub-1222__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1222/fodf/sub-1222__peaks.nii.gz",
+            "tracking": "testset/sub-1222/masks/sub-1222__tracking.nii.gz",
+            "seeding": "testset/sub-1222/maps/sub-1222__interface.nii.gz",
+            "anat": "testset/sub-1222/anat/sub-1222__T1w.nii.gz"
+        },
+        "sub-1232": {
+            "inputs": [
+                "testset/sub-1232/fodf/sub-1232__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1232/fodf/sub-1232__peaks.nii.gz",
+            "tracking": "testset/sub-1232/masks/sub-1232__tracking.nii.gz",
+            "seeding": "testset/sub-1232/maps/sub-1232__interface.nii.gz",
+            "anat": "testset/sub-1232/anat/sub-1232__T1w.nii.gz"
+        },
+        "sub-1235": {
+            "inputs": [
+                "testset/sub-1235/fodf/sub-1235__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1235/fodf/sub-1235__peaks.nii.gz",
+            "tracking": "testset/sub-1235/masks/sub-1235__tracking.nii.gz",
+            "seeding": "testset/sub-1235/maps/sub-1235__interface.nii.gz",
+            "anat": "testset/sub-1235/anat/sub-1235__T1w.nii.gz"
+        },
+        "sub-1245": {
+            "inputs": [
+                "testset/sub-1245/fodf/sub-1245__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1245/fodf/sub-1245__peaks.nii.gz",
+            "tracking": "testset/sub-1245/masks/sub-1245__tracking.nii.gz",
+            "seeding": "testset/sub-1245/maps/sub-1245__interface.nii.gz",
+            "anat": "testset/sub-1245/anat/sub-1245__T1w.nii.gz"
+        },
+        "sub-1263": {
+            "inputs": [
+                "testset/sub-1263/fodf/sub-1263__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1263/fodf/sub-1263__peaks.nii.gz",
+            "tracking": "testset/sub-1263/masks/sub-1263__tracking.nii.gz",
+            "seeding": "testset/sub-1263/maps/sub-1263__interface.nii.gz",
+            "anat": "testset/sub-1263/anat/sub-1263__T1w.nii.gz"
+        },
+        "sub-1281": {
+            "inputs": [
+                "testset/sub-1281/fodf/sub-1281__fodf.nii.gz"
+            ],
+            "peaks": "testset/sub-1281/fodf/sub-1281__peaks.nii.gz",
+            "tracking": "testset/sub-1281/masks/sub-1281__tracking.nii.gz",
+            "seeding": "testset/sub-1281/maps/sub-1281__interface.nii.gz",
+            "anat": "testset/sub-1281/anat/sub-1281__T1w.nii.gz"
+        }
+    }
+}

From 2df146e96e3c7d373a491eecc8e7973a2b0f224e Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Antoine=20Th=C3=A9berge?= <thea1603@usherbrooke.ca>
Date: Fri, 5 Apr 2024 05:38:32 -0400
Subject: [PATCH 2/3] FIX: actual config files

---
 example_config/tractoinferno_config.json      | 2564 -----------------
 .../tractoinferno_trainset_config.json        | 1191 ++++++++
 .../tractoinferno_validset_config.json        |  351 +++
 3 files changed, 1542 insertions(+), 2564 deletions(-)
 delete mode 100644 example_config/tractoinferno_config.json
 create mode 100644 example_config/tractoinferno_trainset_config.json
 create mode 100644 example_config/tractoinferno_validset_config.json

diff --git a/example_config/tractoinferno_config.json b/example_config/tractoinferno_config.json
deleted file mode 100644
index 9ed7166..0000000
--- a/example_config/tractoinferno_config.json
+++ /dev/null
@@ -1,2564 +0,0 @@
-{
-    "training": {
-        "sub-1001": {
-            "inputs": [
-                "trainset/sub-1001/fodf/sub-1001__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1001/fodf/sub-1001__peaks.nii.gz",
-            "tracking": "trainset/sub-1001/masks/sub-1001__tracking.nii.gz",
-            "seeding": "trainset/sub-1001/maps/sub-1001__interface.nii.gz",
-            "anat": "trainset/sub-1001/anat/sub-1001__T1w.nii.gz"
-        },
-        "sub-1002": {
-            "inputs": [
-                "trainset/sub-1002/fodf/sub-1002__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1002/fodf/sub-1002__peaks.nii.gz",
-            "tracking": "trainset/sub-1002/masks/sub-1002__tracking.nii.gz",
-            "seeding": "trainset/sub-1002/maps/sub-1002__interface.nii.gz",
-            "anat": "trainset/sub-1002/anat/sub-1002__T1w.nii.gz"
-        },
-        "sub-1003": {
-            "inputs": [
-                "trainset/sub-1003/fodf/sub-1003__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1003/fodf/sub-1003__peaks.nii.gz",
-            "tracking": "trainset/sub-1003/masks/sub-1003__tracking.nii.gz",
-            "seeding": "trainset/sub-1003/maps/sub-1003__interface.nii.gz",
-            "anat": "trainset/sub-1003/anat/sub-1003__T1w.nii.gz"
-        },
-        "sub-1004": {
-            "inputs": [
-                "trainset/sub-1004/fodf/sub-1004__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1004/fodf/sub-1004__peaks.nii.gz",
-            "tracking": "trainset/sub-1004/masks/sub-1004__tracking.nii.gz",
-            "seeding": "trainset/sub-1004/maps/sub-1004__interface.nii.gz",
-            "anat": "trainset/sub-1004/anat/sub-1004__T1w.nii.gz"
-        },
-        "sub-1005": {
-            "inputs": [
-                "trainset/sub-1005/fodf/sub-1005__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1005/fodf/sub-1005__peaks.nii.gz",
-            "tracking": "trainset/sub-1005/masks/sub-1005__tracking.nii.gz",
-            "seeding": "trainset/sub-1005/maps/sub-1005__interface.nii.gz",
-            "anat": "trainset/sub-1005/anat/sub-1005__T1w.nii.gz"
-        },
-        "sub-1007": {
-            "inputs": [
-                "trainset/sub-1007/fodf/sub-1007__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1007/fodf/sub-1007__peaks.nii.gz",
-            "tracking": "trainset/sub-1007/masks/sub-1007__tracking.nii.gz",
-            "seeding": "trainset/sub-1007/maps/sub-1007__interface.nii.gz",
-            "anat": "trainset/sub-1007/anat/sub-1007__T1w.nii.gz"
-        },
-        "sub-1011": {
-            "inputs": [
-                "trainset/sub-1011/fodf/sub-1011__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1011/fodf/sub-1011__peaks.nii.gz",
-            "tracking": "trainset/sub-1011/masks/sub-1011__tracking.nii.gz",
-            "seeding": "trainset/sub-1011/maps/sub-1011__interface.nii.gz",
-            "anat": "trainset/sub-1011/anat/sub-1011__T1w.nii.gz"
-        },
-        "sub-1012": {
-            "inputs": [
-                "trainset/sub-1012/fodf/sub-1012__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1012/fodf/sub-1012__peaks.nii.gz",
-            "tracking": "trainset/sub-1012/masks/sub-1012__tracking.nii.gz",
-            "seeding": "trainset/sub-1012/maps/sub-1012__interface.nii.gz",
-            "anat": "trainset/sub-1012/anat/sub-1012__T1w.nii.gz"
-        },
-        "sub-1013": {
-            "inputs": [
-                "trainset/sub-1013/fodf/sub-1013__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1013/fodf/sub-1013__peaks.nii.gz",
-            "tracking": "trainset/sub-1013/masks/sub-1013__tracking.nii.gz",
-            "seeding": "trainset/sub-1013/maps/sub-1013__interface.nii.gz",
-            "anat": "trainset/sub-1013/anat/sub-1013__T1w.nii.gz"
-        },
-        "sub-1014": {
-            "inputs": [
-                "trainset/sub-1014/fodf/sub-1014__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1014/fodf/sub-1014__peaks.nii.gz",
-            "tracking": "trainset/sub-1014/masks/sub-1014__tracking.nii.gz",
-            "seeding": "trainset/sub-1014/maps/sub-1014__interface.nii.gz",
-            "anat": "trainset/sub-1014/anat/sub-1014__T1w.nii.gz"
-        },
-        "sub-1015": {
-            "inputs": [
-                "trainset/sub-1015/fodf/sub-1015__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1015/fodf/sub-1015__peaks.nii.gz",
-            "tracking": "trainset/sub-1015/masks/sub-1015__tracking.nii.gz",
-            "seeding": "trainset/sub-1015/maps/sub-1015__interface.nii.gz",
-            "anat": "trainset/sub-1015/anat/sub-1015__T1w.nii.gz"
-        },
-        "sub-1016": {
-            "inputs": [
-                "trainset/sub-1016/fodf/sub-1016__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1016/fodf/sub-1016__peaks.nii.gz",
-            "tracking": "trainset/sub-1016/masks/sub-1016__tracking.nii.gz",
-            "seeding": "trainset/sub-1016/maps/sub-1016__interface.nii.gz",
-            "anat": "trainset/sub-1016/anat/sub-1016__T1w.nii.gz"
-        },
-        "sub-1017": {
-            "inputs": [
-                "trainset/sub-1017/fodf/sub-1017__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1017/fodf/sub-1017__peaks.nii.gz",
-            "tracking": "trainset/sub-1017/masks/sub-1017__tracking.nii.gz",
-            "seeding": "trainset/sub-1017/maps/sub-1017__interface.nii.gz",
-            "anat": "trainset/sub-1017/anat/sub-1017__T1w.nii.gz"
-        },
-        "sub-1018": {
-            "inputs": [
-                "trainset/sub-1018/fodf/sub-1018__fodf.nii.gz"
-            ],
-            "peaks": "trainset/sub-1018/fodf/sub-1018__peaks.nii.gz",
-            "tracking": "trainset/sub-1018/masks/sub-1018__tracking.nii.gz",
-            "seeding": "trainset/sub-1018/maps/sub-1018__interface.nii.gz",
-            "anat": "trainset/sub-1018/anat/sub-1018__T1w.nii.gz"
-        },
-        "sub-1020": {
-            "inputs": [
-                "trainset/sub-1020/fodf/sub-1020__fodf.nii.gz"
-            ],
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-            "anat": "testset/sub-1235/anat/sub-1235__T1w.nii.gz"
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-            "seeding": "testset/sub-1245/maps/sub-1245__interface.nii.gz",
-            "anat": "testset/sub-1245/anat/sub-1245__T1w.nii.gz"
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-            ],
-            "peaks": "testset/sub-1263/fodf/sub-1263__peaks.nii.gz",
-            "tracking": "testset/sub-1263/masks/sub-1263__tracking.nii.gz",
-            "seeding": "testset/sub-1263/maps/sub-1263__interface.nii.gz",
-            "anat": "testset/sub-1263/anat/sub-1263__T1w.nii.gz"
-        },
-        "sub-1281": {
-            "inputs": [
-                "testset/sub-1281/fodf/sub-1281__fodf.nii.gz"
-            ],
-            "peaks": "testset/sub-1281/fodf/sub-1281__peaks.nii.gz",
-            "tracking": "testset/sub-1281/masks/sub-1281__tracking.nii.gz",
-            "seeding": "testset/sub-1281/maps/sub-1281__interface.nii.gz",
-            "anat": "testset/sub-1281/anat/sub-1281__T1w.nii.gz"
-        }
-    }
-}
diff --git a/example_config/tractoinferno_trainset_config.json b/example_config/tractoinferno_trainset_config.json
new file mode 100644
index 0000000..602894f
--- /dev/null
+++ b/example_config/tractoinferno_trainset_config.json
@@ -0,0 +1,1191 @@
+{
+
+	"sub-1001":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1001/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1001/anat/sub-1001__T1w.nii.gz"
+	},
+	"sub-1002":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1002/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1002/anat/sub-1002__T1w.nii.gz"
+	},
+	"sub-1003":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1003/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1003/anat/sub-1003__T1w.nii.gz"
+	},
+	"sub-1004":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1004/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1004/anat/sub-1004__T1w.nii.gz"
+	},
+	"sub-1005":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1005/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1005/anat/sub-1005__T1w.nii.gz"
+	},
+	"sub-1007":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1007/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1007/anat/sub-1007__T1w.nii.gz"
+	},
+	"sub-1011":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1011/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1011/anat/sub-1011__T1w.nii.gz"
+	},
+	"sub-1012":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1012/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1012/anat/sub-1012__T1w.nii.gz"
+	},
+	"sub-1013":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1013/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1013/anat/sub-1013__T1w.nii.gz"
+	},
+	"sub-1014":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1014/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1014/anat/sub-1014__T1w.nii.gz"
+	},
+	"sub-1015":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1015/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1015/anat/sub-1015__T1w.nii.gz"
+	},
+	"sub-1016":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1016/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1016/anat/sub-1016__T1w.nii.gz"
+	},
+	"sub-1017":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1017/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1017/anat/sub-1017__T1w.nii.gz"
+	},
+	"sub-1018":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1018/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1018/anat/sub-1018__T1w.nii.gz"
+	},
+	"sub-1020":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1020/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1020/anat/sub-1020__T1w.nii.gz"
+	},
+	"sub-1023":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1023/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1023/anat/sub-1023__T1w.nii.gz"
+	},
+	"sub-1025":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1025/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1025/anat/sub-1025__T1w.nii.gz"
+	},
+	"sub-1026":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1026/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1026/anat/sub-1026__T1w.nii.gz"
+	},
+	"sub-1027":{
+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1027/anat/sub-1027__T1w.nii.gz"
+	},
+	"sub-1029":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1029/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1029/anat/sub-1029__T1w.nii.gz"
+	},
+	"sub-1030":{
+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1030/anat/sub-1030__T1w.nii.gz"
+	},
+	"sub-1032":{
+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1032/anat/sub-1032__T1w.nii.gz"
+	},
+	"sub-1033":{
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1033/anat/sub-1033__T1w.nii.gz"
+	},
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+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1034/anat/sub-1034__T1w.nii.gz"
+	},
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+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1035/anat/sub-1035__T1w.nii.gz"
+	},
+	"sub-1038":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1038/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1038/anat/sub-1038__T1w.nii.gz"
+	},
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+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1039/anat/sub-1039__T1w.nii.gz"
+	},
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+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1040/anat/sub-1040__T1w.nii.gz"
+	},
+	"sub-1041":{
+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1041/anat/sub-1041__T1w.nii.gz"
+	},
+	"sub-1042":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1042/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1042/anat/sub-1042__T1w.nii.gz"
+	},
+	"sub-1043":{
+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1043/anat/sub-1043__T1w.nii.gz"
+	},
+	"sub-1044":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1044/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1044/anat/sub-1044__T1w.nii.gz"
+	},
+	"sub-1045":{
+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1045/anat/sub-1045__T1w.nii.gz"
+	},
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+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1048/anat/sub-1048__T1w.nii.gz"
+	},
+	"sub-1051":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1051/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1051/anat/sub-1051__T1w.nii.gz"
+	},
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+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1052/anat/sub-1052__T1w.nii.gz"
+	},
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+		],
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+		],
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+		],
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+		],
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+		],
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+	},
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+		],
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+	},
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+		],
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+	},
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+	},
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+		],
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+	},
+	"sub-1280":{
+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1280/anat/sub-1280__T1w.nii.gz"
+	},
+	"sub-1282":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1282/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1282/anat/sub-1282__T1w.nii.gz"
+	}
+}
diff --git a/example_config/tractoinferno_validset_config.json b/example_config/tractoinferno_validset_config.json
new file mode 100644
index 0000000..df94259
--- /dev/null
+++ b/example_config/tractoinferno_validset_config.json
@@ -0,0 +1,351 @@
+{
+
+	"sub-1000":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1000/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1000/anat/sub-1000__T1w.nii.gz"
+	},
+	"sub-1008":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1008/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1008/anat/sub-1008__T1w.nii.gz"
+	},
+	"sub-1009":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1009/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1009/anat/sub-1009__T1w.nii.gz"
+	},
+	"sub-1010":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1010/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1010/anat/sub-1010__T1w.nii.gz"
+	},
+	"sub-1021":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1021/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1021/anat/sub-1021__T1w.nii.gz"
+	},
+	"sub-1022":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1022/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1022/anat/sub-1022__T1w.nii.gz"
+	},
+	"sub-1028":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1028/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1028/anat/sub-1028__T1w.nii.gz"
+	},
+	"sub-1031":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1031/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1031/anat/sub-1031__T1w.nii.gz"
+	},
+	"sub-1036":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1036/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1036/anat/sub-1036__T1w.nii.gz"
+	},
+	"sub-1037":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1037/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1037/anat/sub-1037__T1w.nii.gz"
+	},
+	"sub-1053":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1053/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1053/anat/sub-1053__T1w.nii.gz"
+	},
+	"sub-1058":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1058/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1058/anat/sub-1058__T1w.nii.gz"
+	},
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+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1070/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1070/anat/sub-1070__T1w.nii.gz"
+	},
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+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1072/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1072/anat/sub-1072__T1w.nii.gz"
+	},
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+		],
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+	},
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+		"streamlines":[
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+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1090/anat/sub-1090__T1w.nii.gz"
+	},
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+		"streamlines":[
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+		],
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+		"streamlines":[
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+	},
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+	},
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+	},
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+		],
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+		],
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+	},
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+		"streamlines":[
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+	},
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+	},
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+		],
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+	},
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+		"streamlines":[
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+		],
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+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1197/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1197/anat/sub-1197__T1w.nii.gz"
+	},
+	"sub-1201":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1201/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1201/anat/sub-1201__T1w.nii.gz"
+	},
+	"sub-1205":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1205/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1205/anat/sub-1205__T1w.nii.gz"
+	},
+	"sub-1206":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1206/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1206/anat/sub-1206__T1w.nii.gz"
+	},
+	"sub-1212":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1212/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1212/anat/sub-1212__T1w.nii.gz"
+	},
+	"sub-1223":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1223/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1223/anat/sub-1223__T1w.nii.gz"
+	},
+	"sub-1224":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1224/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1224/anat/sub-1224__T1w.nii.gz"
+	},
+	"sub-1228":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1228/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1228/anat/sub-1228__T1w.nii.gz"
+	},
+	"sub-1242":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1242/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1242/anat/sub-1242__T1w.nii.gz"
+	},
+	"sub-1243":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1243/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1243/anat/sub-1243__T1w.nii.gz"
+	},
+	"sub-1247":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1247/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1247/anat/sub-1247__T1w.nii.gz"
+	},
+	"sub-1250":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1250/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1250/anat/sub-1250__T1w.nii.gz"
+	},
+	"sub-1252":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1252/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1252/anat/sub-1252__T1w.nii.gz"
+	},
+	"sub-1254":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1254/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1254/anat/sub-1254__T1w.nii.gz"
+	},
+	"sub-1266":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1266/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1266/anat/sub-1266__T1w.nii.gz"
+	},
+	"sub-1271":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1271/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1271/anat/sub-1271__T1w.nii.gz"
+	},
+	"sub-1273":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1273/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1273/anat/sub-1273__T1w.nii.gz"
+	},
+	"sub-1274":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1274/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1274/anat/sub-1274__T1w.nii.gz"
+	},
+	"sub-1283":{
+		"streamlines":[
+			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1283/streamlines/*"
+		],
+		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1283/anat/sub-1283__T1w.nii.gz"
+	}
+}

From fd91800145df117329b7182449f2f48fa867eb2e Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Antoine=20Th=C3=A9berge?= <thea1603@usherbrooke.ca>
Date: Fri, 5 Apr 2024 05:41:15 -0400
Subject: [PATCH 3/3] FIX: actual config files

---
 .../tractoinferno_trainset_config.json        | 792 +++++++++---------
 .../tractoinferno_validset_config.json        | 232 ++---
 2 files changed, 512 insertions(+), 512 deletions(-)

diff --git a/example_config/tractoinferno_trainset_config.json b/example_config/tractoinferno_trainset_config.json
index 602894f..b63fd0f 100644
--- a/example_config/tractoinferno_trainset_config.json
+++ b/example_config/tractoinferno_trainset_config.json
@@ -2,1190 +2,1190 @@
 
 	"sub-1001":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1001/streamlines/*"
+			"tractoinferno/trainset/sub-1001/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1001/anat/sub-1001__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1001/anat/sub-1001__T1w.nii.gz"
 	},
 	"sub-1002":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1002/streamlines/*"
+			"tractoinferno/trainset/sub-1002/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1002/anat/sub-1002__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1002/anat/sub-1002__T1w.nii.gz"
 	},
 	"sub-1003":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1003/streamlines/*"
+			"tractoinferno/trainset/sub-1003/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1003/anat/sub-1003__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1003/anat/sub-1003__T1w.nii.gz"
 	},
 	"sub-1004":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1004/streamlines/*"
+			"tractoinferno/trainset/sub-1004/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1004/anat/sub-1004__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1004/anat/sub-1004__T1w.nii.gz"
 	},
 	"sub-1005":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1005/streamlines/*"
+			"tractoinferno/trainset/sub-1005/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1005/anat/sub-1005__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1005/anat/sub-1005__T1w.nii.gz"
 	},
 	"sub-1007":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1007/streamlines/*"
+			"tractoinferno/trainset/sub-1007/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1007/anat/sub-1007__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1007/anat/sub-1007__T1w.nii.gz"
 	},
 	"sub-1011":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1011/streamlines/*"
+			"tractoinferno/trainset/sub-1011/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1011/anat/sub-1011__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1011/anat/sub-1011__T1w.nii.gz"
 	},
 	"sub-1012":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1012/streamlines/*"
+			"tractoinferno/trainset/sub-1012/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1012/anat/sub-1012__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1012/anat/sub-1012__T1w.nii.gz"
 	},
 	"sub-1013":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1013/streamlines/*"
+			"tractoinferno/trainset/sub-1013/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1013/anat/sub-1013__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1013/anat/sub-1013__T1w.nii.gz"
 	},
 	"sub-1014":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1014/streamlines/*"
+			"tractoinferno/trainset/sub-1014/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1014/anat/sub-1014__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1014/anat/sub-1014__T1w.nii.gz"
 	},
 	"sub-1015":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1015/streamlines/*"
+			"tractoinferno/trainset/sub-1015/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1015/anat/sub-1015__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1015/anat/sub-1015__T1w.nii.gz"
 	},
 	"sub-1016":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1016/streamlines/*"
+			"tractoinferno/trainset/sub-1016/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1016/anat/sub-1016__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1016/anat/sub-1016__T1w.nii.gz"
 	},
 	"sub-1017":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1017/streamlines/*"
+			"tractoinferno/trainset/sub-1017/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1017/anat/sub-1017__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1017/anat/sub-1017__T1w.nii.gz"
 	},
 	"sub-1018":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1018/streamlines/*"
+			"tractoinferno/trainset/sub-1018/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1018/anat/sub-1018__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1018/anat/sub-1018__T1w.nii.gz"
 	},
 	"sub-1020":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1020/streamlines/*"
+			"tractoinferno/trainset/sub-1020/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1020/anat/sub-1020__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1020/anat/sub-1020__T1w.nii.gz"
 	},
 	"sub-1023":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1023/streamlines/*"
+			"tractoinferno/trainset/sub-1023/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1023/anat/sub-1023__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1023/anat/sub-1023__T1w.nii.gz"
 	},
 	"sub-1025":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1025/streamlines/*"
+			"tractoinferno/trainset/sub-1025/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1025/anat/sub-1025__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1025/anat/sub-1025__T1w.nii.gz"
 	},
 	"sub-1026":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1026/streamlines/*"
+			"tractoinferno/trainset/sub-1026/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1026/anat/sub-1026__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1026/anat/sub-1026__T1w.nii.gz"
 	},
 	"sub-1027":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1027/streamlines/*"
+			"tractoinferno/trainset/sub-1027/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1027/anat/sub-1027__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1027/anat/sub-1027__T1w.nii.gz"
 	},
 	"sub-1029":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1029/streamlines/*"
+			"tractoinferno/trainset/sub-1029/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1029/anat/sub-1029__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1029/anat/sub-1029__T1w.nii.gz"
 	},
 	"sub-1030":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1030/streamlines/*"
+			"tractoinferno/trainset/sub-1030/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1030/anat/sub-1030__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1030/anat/sub-1030__T1w.nii.gz"
 	},
 	"sub-1032":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1032/streamlines/*"
+			"tractoinferno/trainset/sub-1032/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1032/anat/sub-1032__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1032/anat/sub-1032__T1w.nii.gz"
 	},
 	"sub-1033":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1033/streamlines/*"
+			"tractoinferno/trainset/sub-1033/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1033/anat/sub-1033__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1033/anat/sub-1033__T1w.nii.gz"
 	},
 	"sub-1034":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1034/streamlines/*"
+			"tractoinferno/trainset/sub-1034/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1034/anat/sub-1034__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1034/anat/sub-1034__T1w.nii.gz"
 	},
 	"sub-1035":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1035/streamlines/*"
+			"tractoinferno/trainset/sub-1035/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1035/anat/sub-1035__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1035/anat/sub-1035__T1w.nii.gz"
 	},
 	"sub-1038":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1038/streamlines/*"
+			"tractoinferno/trainset/sub-1038/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1038/anat/sub-1038__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1038/anat/sub-1038__T1w.nii.gz"
 	},
 	"sub-1039":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1039/streamlines/*"
+			"tractoinferno/trainset/sub-1039/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1039/anat/sub-1039__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1039/anat/sub-1039__T1w.nii.gz"
 	},
 	"sub-1040":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1040/streamlines/*"
+			"tractoinferno/trainset/sub-1040/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1040/anat/sub-1040__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1040/anat/sub-1040__T1w.nii.gz"
 	},
 	"sub-1041":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1041/streamlines/*"
+			"tractoinferno/trainset/sub-1041/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1041/anat/sub-1041__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1041/anat/sub-1041__T1w.nii.gz"
 	},
 	"sub-1042":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1042/streamlines/*"
+			"tractoinferno/trainset/sub-1042/streamlines/*"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1231/anat/sub-1231__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1234/anat/sub-1234__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1234/anat/sub-1234__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1236/anat/sub-1236__T1w.nii.gz"
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 		"streamlines":[
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1237/anat/sub-1237__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1237/anat/sub-1237__T1w.nii.gz"
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 		"streamlines":[
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 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1238/anat/sub-1238__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1238/anat/sub-1238__T1w.nii.gz"
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 		"streamlines":[
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1239/anat/sub-1239__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1239/anat/sub-1239__T1w.nii.gz"
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 		"streamlines":[
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1240/anat/sub-1240__T1w.nii.gz"
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 		"streamlines":[
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1253/anat/sub-1253__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1253/anat/sub-1253__T1w.nii.gz"
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 		"streamlines":[
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+		"reference":"tractoinferno/trainset/sub-1255/anat/sub-1255__T1w.nii.gz"
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 		"streamlines":[
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1256/anat/sub-1256__T1w.nii.gz"
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 		"streamlines":[
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1257/anat/sub-1257__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1257/anat/sub-1257__T1w.nii.gz"
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 		"streamlines":[
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1258/anat/sub-1258__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1258/anat/sub-1258__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1259/anat/sub-1259__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1259/anat/sub-1259__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1260/anat/sub-1260__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1260/anat/sub-1260__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1261/anat/sub-1261__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1261/anat/sub-1261__T1w.nii.gz"
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 		"streamlines":[
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1262/anat/sub-1262__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1264/anat/sub-1264__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1264/anat/sub-1264__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1265/anat/sub-1265__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1267/anat/sub-1267__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1268/anat/sub-1268__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1269/anat/sub-1269__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1270/anat/sub-1270__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1272/anat/sub-1272__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1272/anat/sub-1272__T1w.nii.gz"
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 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1275/streamlines/*"
+			"tractoinferno/trainset/sub-1275/streamlines/*"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1275/anat/sub-1275__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1275/anat/sub-1275__T1w.nii.gz"
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 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1276/streamlines/*"
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 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1276/anat/sub-1276__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1276/anat/sub-1276__T1w.nii.gz"
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 	"sub-1277":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1277/streamlines/*"
+			"tractoinferno/trainset/sub-1277/streamlines/*"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1277/anat/sub-1277__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1277/anat/sub-1277__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1278/anat/sub-1278__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1278/anat/sub-1278__T1w.nii.gz"
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-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1279/anat/sub-1279__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1279/anat/sub-1279__T1w.nii.gz"
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 		"streamlines":[
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 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1280/anat/sub-1280__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1280/anat/sub-1280__T1w.nii.gz"
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 		"streamlines":[
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+			"tractoinferno/trainset/sub-1282/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/trainset/sub-1282/anat/sub-1282__T1w.nii.gz"
+		"reference":"tractoinferno/trainset/sub-1282/anat/sub-1282__T1w.nii.gz"
 	}
 }
diff --git a/example_config/tractoinferno_validset_config.json b/example_config/tractoinferno_validset_config.json
index df94259..feae8ef 100644
--- a/example_config/tractoinferno_validset_config.json
+++ b/example_config/tractoinferno_validset_config.json
@@ -2,350 +2,350 @@
 
 	"sub-1000":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1000/streamlines/*"
+			"tractoinferno/validset/sub-1000/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1000/anat/sub-1000__T1w.nii.gz"
+		"reference":"tractoinferno/validset/sub-1000/anat/sub-1000__T1w.nii.gz"
 	},
 	"sub-1008":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1008/streamlines/*"
+			"tractoinferno/validset/sub-1008/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1008/anat/sub-1008__T1w.nii.gz"
+		"reference":"tractoinferno/validset/sub-1008/anat/sub-1008__T1w.nii.gz"
 	},
 	"sub-1009":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1009/streamlines/*"
+			"tractoinferno/validset/sub-1009/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1009/anat/sub-1009__T1w.nii.gz"
+		"reference":"tractoinferno/validset/sub-1009/anat/sub-1009__T1w.nii.gz"
 	},
 	"sub-1010":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1010/streamlines/*"
+			"tractoinferno/validset/sub-1010/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1010/anat/sub-1010__T1w.nii.gz"
+		"reference":"tractoinferno/validset/sub-1010/anat/sub-1010__T1w.nii.gz"
 	},
 	"sub-1021":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1021/streamlines/*"
+			"tractoinferno/validset/sub-1021/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1021/anat/sub-1021__T1w.nii.gz"
+		"reference":"tractoinferno/validset/sub-1021/anat/sub-1021__T1w.nii.gz"
 	},
 	"sub-1022":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1022/streamlines/*"
+			"tractoinferno/validset/sub-1022/streamlines/*"
 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1022/anat/sub-1022__T1w.nii.gz"
+		"reference":"tractoinferno/validset/sub-1022/anat/sub-1022__T1w.nii.gz"
 	},
 	"sub-1028":{
 		"streamlines":[
-			"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1028/streamlines/*"
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 		],
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 		],
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 		],
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 		],
-		"reference":"~/braindata/processedData/atheb/tractoracle/datasets/tractoinferno/validset/sub-1283/anat/sub-1283__T1w.nii.gz"
+		"reference":"tractoinferno/validset/sub-1283/anat/sub-1283__T1w.nii.gz"
 	}
 }