Add DatasetLinks to resolve BIDS URIs

bclenet · bclenet · commit 29323f849783 · 2025-06-13T15:59:28.000+02:00
diff --git a/provenance_spm/dataset_description.json b/provenance_spm/dataset_description.json
@@ -17,5 +17,8 @@
         {
             "URL": "https://github.com/incf-nidash/nidmresults-examples/"
         }
-    ]
+    ],
+    "DatasetLinks": {
+        "ds000011": "https://openfmri.org/dataset/ds000011/"
+    }
 }
diff --git a/provenance_spm/prov/prov-spm.jsonld b/provenance_spm/prov/prov-spm.jsonld
@@ -13,7 +13,7 @@
         "Id": "bids::prov/#movefile-26803be5",
         "Label": "Move file",
         "Used": [
-          "bids:ds011:sub-01/func/sub-01_task-tonecounting_bold.nii.gz"
+          "bids:ds000011:sub-01/func/sub-01_task-tonecounting_bold.nii.gz"
         ],
         "AssociatedWith": "bids::prov/#spm-fa0baf93",
         "Command": "matlabbatch{1}.cfg_basicio.file_dir.file_ops.file_move.files = {'/work/data/sub-01/func/sub-01_task-tonecounting_bold.nii.gz'};\nmatlabbatch{1}.cfg_basicio.file_dir.file_ops.file_move.action.copyto = {'/work/sub-01/func'};",
@@ -24,7 +24,7 @@
         "Id": "bids::prov/#movefile-bac3f385",
         "Label": "Move file",
         "Used": [
-          "bids:ds011:sub-01/anat/sub-01_T1w.nii.gz"
+          "bids:ds000011:sub-01/anat/sub-01_T1w.nii.gz"
         ],
         "AssociatedWith": "bids::prov/#spm-fa0baf93",
         "Command": "matlabbatch{2}.cfg_basicio.file_dir.file_ops.file_move.files = {'/work/data/sub-01/anat/sub-01_T1w.nii.gz'};\nmatlabbatch{2}.cfg_basicio.file_dir.file_ops.file_move.action.copyto = {'/work/sub-01/anat'};",
@@ -134,15 +134,15 @@
     ],
     "Entities": [
       {
-        "Id": "bids:ds011:sub-01/func/sub-01_task-tonecounting_bold.nii.gz",
+        "Id": "bids:ds000011:sub-01/func/sub-01_task-tonecounting_bold.nii.gz",
         "Label": "sub-01_task-tonecounting_bold.nii.gz",
         "AtLocation": "data/sub-01/func/sub-01_task-tonecounting_bold.nii.gz",
         "Digest": {
           "sha256": "c02dc3b622a92fdcdaacb1dd198cd45b4004f326dd1f1abbc4be15a5e4cbc57d"
         }
       },
       {
-        "Id": "bids:ds011:sub-01/anat/sub-01_T1w.nii.gz",
+        "Id": "bids:ds000011:sub-01/anat/sub-01_T1w.nii.gz",
         "Label": "sub-01_T1w.nii.gz",
         "AtLocation": "data/sub-01/anat/sub-01_T1w.nii.gz",
         "Digest": {
diff --git a/provenance_spm/prov/prov-spm_act.json b/provenance_spm/prov/prov-spm_act.json
@@ -4,21 +4,21 @@
       "Id": "bids::prov/#movefile-26803be5",
       "Label": "Move file",
       "Used": [
-        "bids:ds011:sub-01/func/sub-01_task-tonecounting_bold.nii.gz"
+        "bids:ds000011:sub-01/func/sub-01_task-tonecounting_bold.nii.gz"
       ],
       "AssociatedWith": "bids::prov/#spm-fa0baf93",
-      "Command": "matlabbatch{1}.cfg_basicio.file_dir.file_ops.file_move.files = {'/work/data/sub-01/func/sub-01_task-tonecounting_bold.nii.gz'};\nmatlabbatch{1}.cfg_basicio.file_dir.file_ops.file_move.action.copyto = {'/work/sub-01/func'};",
+      "Command": "matlabbatch{1}.cfg_basicio.file_dir.file_ops.file_move.files = {'data/sub-01/func/sub-01_task-tonecounting_bold.nii.gz'};\nmatlabbatch{1}.cfg_basicio.file_dir.file_ops.file_move.action.copyto = {'sub-01/func'};",
       "StartedAtTime": "2025-05-28T14:48:00",
       "EndedAtTime": "2025-05-28T14:48:01"
     },
     {
       "Id": "bids::prov/#movefile-bac3f385",
       "Label": "Move file",
       "Used": [
-        "bids:ds011:sub-01/anat/sub-01_T1w.nii.gz"
+        "bids:ds000011:sub-01/anat/sub-01_T1w.nii.gz"
       ],
       "AssociatedWith": "bids::prov/#spm-fa0baf93",
-      "Command": "matlabbatch{2}.cfg_basicio.file_dir.file_ops.file_move.files = {'/work/data/sub-01/anat/sub-01_T1w.nii.gz'};\nmatlabbatch{2}.cfg_basicio.file_dir.file_ops.file_move.action.copyto = {'/work/sub-01/anat'};",
+      "Command": "matlabbatch{2}.cfg_basicio.file_dir.file_ops.file_move.files = {'data/sub-01/anat/sub-01_T1w.nii.gz'};\nmatlabbatch{2}.cfg_basicio.file_dir.file_ops.file_move.action.copyto = {'sub-01/anat'};",
       "StartedAtTime": "2025-05-28T14:48:00",
       "EndedAtTime": "2025-05-28T14:48:01"
     },
diff --git a/provenance_spm/prov/prov-spm_ent.json b/provenance_spm/prov/prov-spm_ent.json
@@ -1,15 +1,15 @@
 {
   "Entities": [
     {
-      "Id": "bids:ds011:sub-01/func/sub-01_task-tonecounting_bold.nii.gz",
+      "Id": "bids:ds000011:sub-01/func/sub-01_task-tonecounting_bold.nii.gz",
       "Label": "sub-01_task-tonecounting_bold.nii.gz",
       "AtLocation": "data/sub-01/func/sub-01_task-tonecounting_bold.nii.gz",
       "Digest": {
         "sha256": "c02dc3b622a92fdcdaacb1dd198cd45b4004f326dd1f1abbc4be15a5e4cbc57d"
       }
     },
     {
-      "Id": "bids:ds011:sub-01/anat/sub-01_T1w.nii.gz",
+      "Id": "bids:ds000011:sub-01/anat/sub-01_T1w.nii.gz",
       "Label": "sub-01_T1w.nii.gz",
       "AtLocation": "data/sub-01/anat/sub-01_T1w.nii.gz",
       "Digest": {

Original file line number	Diff line number	Diff line change
`@@ -17,5 +17,8 @@`
`17`	`17`	`{`
`18`	`18`	`"URL": "https://github.com/incf-nidash/nidmresults-examples/"`
`19`	`19`	`}`
`20`		`- ]`
	`20`	`+ ],`
	`21`	`+ "DatasetLinks": {`
	`22`	`+ "ds000011": "https://openfmri.org/dataset/ds000011/"`
	`23`	`+ }`
`21`	`24`	`}`
Original file line number	Diff line number	Diff line change
`@@ -1,15 +1,15 @@`
`1`	`1`	`{`
`2`	`2`	`"Entities": [`
`3`	`3`	`{`
`4`		`- "Id": "bids:ds011:sub-01/func/sub-01_task-tonecounting_bold.nii.gz",`
	`4`	`+ "Id": "bids:ds000011:sub-01/func/sub-01_task-tonecounting_bold.nii.gz",`
`5`	`5`	`"Label": "sub-01_task-tonecounting_bold.nii.gz",`
`6`	`6`	`"AtLocation": "data/sub-01/func/sub-01_task-tonecounting_bold.nii.gz",`
`7`	`7`	`"Digest": {`
`8`	`8`	`"sha256": "c02dc3b622a92fdcdaacb1dd198cd45b4004f326dd1f1abbc4be15a5e4cbc57d"`
`9`	`9`	`}`
`10`	`10`	`},`
`11`	`11`	`{`
`12`		`- "Id": "bids:ds011:sub-01/anat/sub-01_T1w.nii.gz",`
	`12`	`+ "Id": "bids:ds000011:sub-01/anat/sub-01_T1w.nii.gz",`
`13`	`13`	`"Label": "sub-01_T1w.nii.gz",`
`14`	`14`	`"AtLocation": "data/sub-01/anat/sub-01_T1w.nii.gz",`
`15`	`15`	`"Digest": {`