making bids mri files

rsagroup · Sep 15, 2023 · 0201560 · 0201560
1 parent 2878cf7
commit 0201560
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Showing 4 changed files with 11 additions and 6 deletions.
diff --git a/demos/demo_fmri.ipynb b/demos/demo_fmri.ipynb
diff --git a/demos/fmri_mur32.py b/demos/fmri_mur32.py
@@ -11,9 +11,7 @@
 - [x] install fmriprep on worker
 - [x] fmriprep 01-06
 - [ ] fmriprep 07-14
-
-
-roi as a bool descriptor?
+- [ ] roi as a bool descriptor?
 
 """
 from os.path import expanduser

diff --git a/src/rsatoolbox/io/bids.py b/src/rsatoolbox/io/bids.py
@@ -9,11 +9,13 @@
 if TYPE_CHECKING:
     from numpy.typing import NDArray
     from pandas import DataFrame
-    import nibabel
 
 
 class BidsFile:
 
+    def __init__(self, fpath: str) -> None:
+        self.fpath = fpath
+
     def get_events(self) -> DataFrame:
         return pandas.DataFrame()
 
@@ -27,8 +29,9 @@ def get_sibling(self, desc: str) -> BidsFile:
 
 class BidsMriFile(BidsFile):
 
-    def __init__(self, nibabel) -> None:
+    def __init__(self, fpath: str, nibabel) -> None:
         self.nibabel = nibabel
+        super().__init__(fpath)
 
     def get_data(self) -> NDArray:
         return numpy.array([])
@@ -65,4 +68,5 @@ def find_mri_derivative_files(self,
             for task in tasks:
                 subset += [f for f in fpaths if f'task-{task}' in f]
             fpaths = subset
-        return fpaths
+        nibabel = import_nibabel()
+        return [BidsMriFile(f, nibabel) for f in fpaths]
diff --git a/src/rsatoolbox/io/fmriprep.py b/src/rsatoolbox/io/fmriprep.py
@@ -65,3 +65,6 @@ def to_descriptors(self) -> Dict:
             Dict: kwargs for DatasetBase
         """
         return dict()
+
+    def __repr__(self) -> str:
+        return f'<{self.__class__.__name__}>'