Fix remaining coordsystem issues (#226)

* other -> Other * coord sys: T1w -> Other * ieeg_epilepsy, ieeg_epilepsy_ecog: MNI152->MNI152NLin6Sym, other->Other * add missing coordsys description fields
bids-standard · Feb 1, 2021 · a565760 · a565760
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diff --git a/eeg_ds000117/sub-01/eeg/sub-01_coordsystem.json b/eeg_ds000117/sub-01/eeg/sub-01_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.072421, -7.0961e-09, 7.7314e-09],
         "NAS": [-5.772e-09, 0.10353, 4.7199e-09],
         "RPA": [0.077791, -3.0159e-10, 7.8728e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-01_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-02/eeg/sub-02_coordsystem.json b/eeg_ds000117/sub-02/eeg/sub-02_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.070999, -2.6537e-08, -6.4401e-09],
         "NAS": [3.9995e-09, 0.10636, -9.817e-09],
         "RPA": [0.077565, 1.5987e-08, -6.6275e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-02_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-03/eeg/sub-03_coordsystem.json b/eeg_ds000117/sub-03/eeg/sub-03_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.069659, 1.451e-09, -2.5793e-09],
         "NAS": [-1.1001e-09, 0.10282, 6.4351e-09],
         "RPA": [0.071687, -5.9466e-09, -6.3361e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-03_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-04/eeg/sub-04_coordsystem.json b/eeg_ds000117/sub-04/eeg/sub-04_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.072223, 1.1847e-08, 7.8273e-09],
         "NAS": [-1.0052e-09, 0.10336, 8.4566e-09],
         "RPA": [0.073092, 1.6933e-08, 8.8433e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-04_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-05/eeg/sub-05_coordsystem.json b/eeg_ds000117/sub-05/eeg/sub-05_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.064886, 9.4591e-09, -1.2274e-09],
         "NAS": [1.5908e-09, 0.097857, -1.8505e-09],
         "RPA": [0.068605, 2.9818e-09, -2.071e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-05_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-06/eeg/sub-06_coordsystem.json b/eeg_ds000117/sub-06/eeg/sub-06_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.06559, 2.3605e-08, 2.773e-09],
         "NAS": [-4.4034e-09, 0.095805, 2.3015e-09],
         "RPA": [0.060385, 1.144e-09, 3.8683e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-06_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-07/eeg/sub-07_coordsystem.json b/eeg_ds000117/sub-07/eeg/sub-07_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.075958, 9.2855e-09, 1.1664e-08],
         "NAS": [-6.9564e-10, 0.10076, 1.0785e-08],
         "RPA": [0.073209, 6.7352e-09, 1.3187e-08]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-07_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-08/eeg/sub-08_coordsystem.json b/eeg_ds000117/sub-08/eeg/sub-08_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.069813, -2.1113e-09, -2.7455e-09],
         "NAS": [2.4006e-09, 0.095171, -8.327e-10],
         "RPA": [0.06551, 4.0331e-09, -5.523e-10]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-08_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-09/eeg/sub-09_coordsystem.json b/eeg_ds000117/sub-09/eeg/sub-09_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.069531, -2.923e-09, -3.6072e-10],
         "NAS": [-4.2431e-09, 0.091441, 3.3939e-09],
         "RPA": [0.069756, 2.1947e-09, -1.8416e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-09_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-10/eeg/sub-10_coordsystem.json b/eeg_ds000117/sub-10/eeg/sub-10_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.066774, -7.9189e-09, -4.9972e-10],
         "NAS": [3.829e-09, 0.099563, -4.0023e-10],
         "RPA": [0.070321, -7.2794e-09, -1.294e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-10_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-11/eeg/sub-11_coordsystem.json b/eeg_ds000117/sub-11/eeg/sub-11_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.070162, 1.3948e-08, -7.516e-09],
         "NAS": [-3.3847e-09, 0.092531, -4.7057e-09],
         "RPA": [0.07507, -5.8792e-09, -7.8174e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-11_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-12/eeg/sub-12_coordsystem.json b/eeg_ds000117/sub-12/eeg/sub-12_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.073547, 4.4318e-09, -8.692e-09],
         "NAS": [-3.2459e-09, 0.10252, -3.7774e-09],
         "RPA": [0.073175, -7.7225e-09, -7.4086e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-12_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-13/eeg/sub-13_coordsystem.json b/eeg_ds000117/sub-13/eeg/sub-13_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.066552, 1.8215e-08, 9.3072e-09],
         "NAS": [4.191e-09, 0.094646, 7.0412e-09],
         "RPA": [0.066073, 1.3642e-08, 6.7989e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-13_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-14/eeg/sub-14_coordsystem.json b/eeg_ds000117/sub-14/eeg/sub-14_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.072041, 1.8748e-08, -7.324e-10],
         "NAS": [-1.7871e-09, 0.093568, -4.061e-09],
         "RPA": [0.070207, 1.5703e-08, -2.6709e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-14_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-15/eeg/sub-15_coordsystem.json b/eeg_ds000117/sub-15/eeg/sub-15_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.066167, 1.7358e-09, -3.8436e-09],
         "NAS": [-4.105e-09, 0.090447, -4.5411e-10],
         "RPA": [0.063597, -6.4352e-09, -4.5665e-09]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-15_T1w.nii.gz"
-}
+}
diff --git a/eeg_ds000117/sub-16/eeg/sub-16_coordsystem.json b/eeg_ds000117/sub-16/eeg/sub-16_coordsystem.json
@@ -1,12 +1,14 @@
 {
-    "EEGCoordinateSystem": "T1w",
+    "EEGCoordinateSystem": "Other",
     "EEGCoordinateUnits": "mm",
+    "EEGCoordinateSystemDescription": "T1w",
     "AnatomicalLandmarkCoordinates": {
         "LPA": [-0.070787, 1.6374e-09, 1.4855e-09],
         "NAS": [8.0608e-09, 0.09253, 2.8132e-09],
         "RPA": [0.070614, 1.3808e-08, -3.5898e-10]
     },
-    "AnatomicalLandmarkCoordinateSystem": "T1w",
+    "AnatomicalLandmarkCoordinateSystem": "Other",
     "AnatomicalLandmarkCoordinateUnits": "mm",
+    "AnatomicalLandmarkCoordinateSystemDescription": "T1w",
     "IntendedFor": "anat/sub-16_T1w.nii.gz"
-}
+}
diff --git a/...ses-postimp_space-MNI152_coordsystem.json → ...imp_space-MNI152NLin6Sym_coordsystem.json b/...ses-postimp_space-MNI152_coordsystem.json → ...imp_space-MNI152NLin6Sym_coordsystem.json
@@ -1,5 +1,5 @@
 {
-    "iEEGCoordinateSystem": "MNI152",
+    "iEEGCoordinateSystem": "MNI152NLin6Sym",
     "iEEGCoordinateUnits": "mm",
 	"iEEGCoordinateSystemDescription": "MNI152 affine normalization with SPM12 function spm_maff8",
     "iEEGCoordinateProcessingDescription": "Deman, P., Bhattacharjee, M., Tadel, F., Job, A. S., Rivière, D., Cointepas, Y., Kahane, P., … David, O. (2018). IntrAnat Electrodes: A Free Database and Visualization Software for Intracranial Electroencephalographic Data Processed for Case and Group Studies. Frontiers in neuroinformatics, 12, 40. doi:10.3389/fninf.2018.00040",

diff --git a/...1_ses-postimp_space-MNI152_electrodes.tsv → ...stimp_space-MNI152NLin6Sym_electrodes.tsv b/...1_ses-postimp_space-MNI152_electrodes.tsv → ...stimp_space-MNI152NLin6Sym_electrodes.tsv
diff --git a/...-postimp_space-MNI152Lin_coordsystem.json → ...imp_space-MNI152NLin6Sym_coordsystem.json b/...-postimp_space-MNI152Lin_coordsystem.json → ...imp_space-MNI152NLin6Sym_coordsystem.json
@@ -1,8 +1,8 @@
 {
- "iEEGCoordinateSystem": "MNI152Lin",
+ "iEEGCoordinateSystem": "MNI152NLin6Sym",
  "iEEGCoordinateUnits": "mm",
  "iEEGCoordinateSystemDescription": "SEEG contact coordinates in MNI152 normalized space",
  "iEEGCoordinateProcessingDescription": "SEEG contacts manually placed with Brainstorm on the post-implanation T1 MRI, which was normalized with SPM12 function spm_maff8",
  "iEEGCoordinateProcessingReference": "Hermes et al., 2010 JNeuroMeth",
  "IntendedFor": "sub-ecog01/ses-postimp/anat/sub-ecog01_ses-postimp_T1w.nii.gz"
-}
+}
diff --git a/...es-postimp_space-MNI152Lin_electrodes.tsv → ...stimp_space-MNI152NLin6Sym_electrodes.tsv b/...es-postimp_space-MNI152Lin_electrodes.tsv → ...stimp_space-MNI152NLin6Sym_electrodes.tsv
diff --git a/..._ses-postimp_space-other_coordsystem.json → ..._ses-postimp_space-Other_coordsystem.json b/..._ses-postimp_space-other_coordsystem.json → ..._ses-postimp_space-Other_coordsystem.json
@@ -1,5 +1,5 @@
 {
- "iEEGCoordinateSystem": "other",
+ "iEEGCoordinateSystem": "Other",
  "iEEGCoordinateUnits": "mm",
  "iEEGCoordinateSystemDescription": "Subject head coordinates, as defined by the sform transformation in the associated nii file",
  "iEEGCoordinateProcessingDescription": "SEEG contacts manually placed with Brainstorm on the post-implanation T1 MRI",

diff --git a/...01_ses-postimp_space-other_electrodes.tsv → ...01_ses-postimp_space-Other_electrodes.tsv b/...01_ses-postimp_space-other_electrodes.tsv → ...01_ses-postimp_space-Other_electrodes.tsv
diff --git a/...visual_multimodal/sub-som682/ses-somecog01/ieeg/sub-som682_ses-somecog01_coordsystem.json b/...visual_multimodal/sub-som682/ses-somecog01/ieeg/sub-som682_ses-somecog01_coordsystem.json
@@ -1,8 +1,8 @@
 {
-    "iEEGCoordinateSystem": "other",
+    "iEEGCoordinateSystem": "Other",
     "iEEGCoordinateUnits": "mm",
     "iEEGCoordinateSystemDescription": "native T1w - acpc",
     "IntendedFor": "sub-som682/ses-som3t01/anat/sub-som682_ses-som3t01_T1w.nii.gz",
     "iEEGCoordinateProcessingDescription": "none",
     "iEEGCoordinateProcessingReference": "n/a"
-}
+}