Merge pull request #1546 from Remi-Gau/qmri_top

[ENH] add support for qMRI json in top dir
bids-standard · Feb 27, 2023 · 0cbefce · 0cbefce
2 parents 596bb07 + 7e8e846
commit 0cbefce
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diff --git a/bids-validator/bids_validator/rules/top_level_rules.json b/bids-validator/bids_validator/rules/top_level_rules.json
@@ -17,6 +17,13 @@
         "phase1\\.json",
         "phase2\\.json",
         "fieldmap\\.json",
+        "TB1DAM\\.json",
+        "TB1EPI\\.json",
+        "TB1AFI\\.json",
+        "TB1TFL\\.json",
+        "TB1RFM\\.json",
+        "TB1SRGE\\.json",
+        "RB1COR\\.json",
         "events\\.json",
         "scans\\.json",
         "samples\\.json",
@@ -82,6 +89,55 @@
     }
   },
 
+  "VFA_top": {
+    "regexp": "^[\\/\\\\](?:ses-[a-zA-Z0-9]+_)?(?:acq-[a-zA-Z0-9]+_)?(?:ce-[a-zA-Z0-9]+_)?(?:rec-[a-zA-Z0-9]+_)?(?:run-[0-9]+_)?(?:echo-[0-9]+_)?(?:flip-[0-9]+_)?(?:part-(mag|phase|real|imag)_)?(@@@_mese_megre_suffixes_@@@)\\.json$",
+    "tokens": {
+      "@@@_mese_megre_suffixes_@@@": ["VFA"]
+    }
+  },
+
+  "megre_mese_top": {
+    "regexp": "^[\\/\\\\](?:ses-[a-zA-Z0-9]+_)?(?:acq-[a-zA-Z0-9]+_)?(?:ce-[a-zA-Z0-9]+_)?(?:rec-[a-zA-Z0-9]+_)?(?:run-[0-9]+_)?(?:echo-[0-9]+_)?(?:part-(mag|phase|real|imag)_)?(@@@_mese_megre_suffixes_@@@)\\.json$",
+    "tokens": {
+      "@@@_mese_megre_suffixes_@@@": ["MEGRE", "MESE"]
+    }
+  },
+
+  "irt1_top": {
+    "regexp": "^[\\/\\\\](?:ses-[a-zA-Z0-9]+_)?(?:acq-[a-zA-Z0-9]+_)?(?:ce-[a-zA-Z0-9]+_)?(?:rec-[a-zA-Z0-9]+_)?(?:run-[0-9]+_)?(?:inv-[0-9]+_)?(?:part-(mag|phase|real|imag)_)?(@@@_irt1_suffixes_@@@)\\.json$",
+    "tokens": {
+      "@@@_irt1_suffixes_@@@": ["IRT1"]
+    }
+  },
+
+  "mpm_top": {
+    "regexp": "^[\\/\\\\](?:ses-[a-zA-Z0-9]+_)?(?:acq-[a-zA-Z0-9]+_)?(?:ce-[a-zA-Z0-9]+_)?(?:rec-[a-zA-Z0-9]+_)?(?:run-[0-9]+_)?(?:echo-[0-9]+_)?(?:flip-[0-9]+_)?(?:mt-(on|off)_)(?:part-(mag|phase|real|imag)_)?(@@@_mpm_suffixes_@@@)\\.json$",
+    "tokens": {
+      "@@@_mpm_suffixes_@@@": ["MPM"]
+    }
+  },
+
+  "mts_top": {
+    "regexp": "^[\\/\\\\](?:ses-[a-zA-Z0-9]+_)?(?:acq-[a-zA-Z0-9]+_)?(?:ce-[a-zA-Z0-9]+_)?(?:rec-[a-zA-Z0-9]+_)?(?:run-[0-9]+_)?(?:echo-[0-9]+_)?(?:flip-[0-9]+_mt-(on|off)_)?(?:part-(mag|phase|real|imag)_)?(@@@_mts_suffixes_@@@)\\.json$",
+    "tokens": {
+      "@@@_mts_suffixes_@@@": ["MTS"]
+    }
+  },
+
+  "mtr_top": {
+    "regexp": "^[\\/\\\\](?:ses-[a-zA-Z0-9]+_)?(?:acq-[a-zA-Z0-9]+_)?(?:ce-[a-zA-Z0-9]+_)?(?:rec-[a-zA-Z0-9]+_)?(?:run-[0-9]+_)?(?:mt-(on|off)_)?(?:part-(mag|phase|real|imag)_)?(@@@_mtr_suffixes_@@@)\\.json$",
+    "tokens": {
+      "@@@_mtr_suffixes_@@@": ["MTR"]
+    }
+  },
+
+  "mp2rage_top": {
+    "regexp": "^[\\/\\\\](?:ses-[a-zA-Z0-9]+_)?(?:acq-[a-zA-Z0-9]+_)?(?:ce-[a-zA-Z0-9]+_)?(?:rec-[a-zA-Z0-9]+_)?(?:run-[0-9]+_)?(?:echo-[0-9]+_)?(?:flip-[0-9]+_)?(?:inv-[0-9]+_)?(?:part-(mag|phase|real|imag)_)?(@@@_mp2rage_suffixes_@@@)\\.json$",
+    "tokens": {
+      "@@@_mp2rage_suffixes_@@@": ["MP2RAGE"]
+    }
+  },
+
   "dwi_top": {
     "regexp": "^[\\/\\\\](?:ses-[a-zA-Z0-9]+_)?(?:acq-[a-zA-Z0-9]+_)?(?:rec-[a-zA-Z0-9]+_)?(?:run-[0-9]+_)?(dwi\\.(?:@@@_dwi_top_ext_@@@)|sbref\\.json)$",
     "tokens": {

diff --git a/bids-validator/utils/type.js b/bids-validator/utils/type.js
@@ -84,6 +84,13 @@ const rootTop = buildRegExp(top_level_rules.root_top)
 const funcTop = buildRegExp(top_level_rules.func_top)
 const aslTop = buildRegExp(top_level_rules.asl_top)
 const anatTop = buildRegExp(top_level_rules.anat_top)
+const vfaTop = buildRegExp(top_level_rules.VFA_top)
+const megreTop = buildRegExp(top_level_rules.megre_mese_top)
+const irt1Top = buildRegExp(top_level_rules.irt1_top)
+const mpmTop = buildRegExp(top_level_rules.mpm_top)
+const mtsTop = buildRegExp(top_level_rules.mts_top)
+const mtrTop = buildRegExp(top_level_rules.mtr_top)
+const mp2rageTop = buildRegExp(top_level_rules.mp2rage_top)
 const dwiTop = buildRegExp(top_level_rules.dwi_top)
 const eegTop = buildRegExp(top_level_rules.eeg_top)
 const ieegTop = buildRegExp(top_level_rules.ieeg_top)
@@ -141,6 +148,13 @@ export default {
           aslTop.test(path) ||
           dwiTop.test(path) ||
           anatTop.test(path) ||
+          vfaTop.test(path) ||
+          megreTop.test(path) ||
+          irt1Top.test(path) ||
+          mpmTop.test(path) ||
+          mtsTop.test(path) ||
+          mtrTop.test(path) ||
+          mp2rageTop.test(path) ||
           multiDirFieldmap.test(path) ||
           otherTopFiles.test(path) ||
           megTop.test(path) ||
@@ -157,6 +171,13 @@ export default {
           aslTop.test(path) ||
           dwiTop.test(path) ||
           anatTop.test(path) ||
+          vfaTop.test(path) ||
+          megreTop.test(path) ||
+          irt1Top.test(path) ||
+          mpmTop.test(path) ||
+          mtsTop.test(path) ||
+          mtrTop.test(path) ||
+          mp2rageTop.test(path) ||
           multiDirFieldmap.test(path) ||
           otherTopFiles.test(path) ||
           megTop.test(path) ||