Merge pull request #1173 from effigies/mnt/pandas-3

fix: Accommodate deprecations in the upcoming Pandas 3 release

Author: effigies

src/bids/layout/tests/test_models.py

@@ -10,6 +10,7 @@
 from sqlalchemy import create_engine
 from sqlalchemy.orm import sessionmaker
 import numpy as np
+import pandas as pd
 
 from bids.layout.models import (BIDSFile, Entity, Tag, Base, Config,
                                 FileAssociation, BIDSImageFile, LayoutInfo)
@@ -210,12 +211,12 @@ def test_bidsdatafile_enforces_dtype(layout_synthetic):
     bf = layout_synthetic.get(suffix='participants', extension='tsv')[0]
     df = bf.get_df(enforce_dtypes=False)
     assert df.shape[0] == 5
-    assert df.loc[:, 'subject_id'].dtype == int
-    assert df.loc[:, 'subject_id'][0] == 1
+    assert pd.api.types.is_integer_dtype(df['subject_id'])
+    assert df.loc[0, 'subject_id'] == 1
     df = bf.get_df(enforce_dtypes=True)
-    assert df.loc[:, 'subject_id'].dtype == 'O'
-    assert df.loc[:, 'subject_id'][0] == '001'
-    assert df.loc[:, 'subject_id'][1] == '2'
+    assert pd.api.types.is_string_dtype(df['subject_id'])
+    assert df.loc[0, 'subject_id'] == '001'
+    assert df.loc[1, 'subject_id'] == '2'
 
 
 def test_bidsimagefile_get_image():

src/bids/variables/variables.py

@@ -413,7 +413,7 @@ def to_dense(self, sampling_rate=None):
         duration = math.ceil(  # Round up to nearest second
             round(bin_sr * self.get_duration(), 3)  # Cut off at millisecond precision
         )
-        ts = np.zeros(duration, dtype=self.values.dtype)
+        ts = pd.Series(0, index=np.arange(duration), dtype=self.values.dtype)
 
         onsets = np.round(self.onset * bin_sr).astype(int)
         durations = np.round(self.duration * bin_sr).astype(int)
@@ -446,7 +446,6 @@ def to_dense(self, sampling_rate=None):
             source=self.source,
             sampling_rate=sampling_rate)
 
-
         return dense_var
 
     def _extract_entities(self):