[FIX] 3.12 compatibility changes

bin/dm_link.py

@@ -149,7 +149,7 @@ def main():
         return
 
     try:
-        lookup = pd.read_csv(lookup_path, sep="\s+", dtype=str)  # noqa: W605
+        lookup = pd.read_csv(lookup_path, sep=r"\s+", dtype=str)  # noqa: W605
     except IOError:
         logger.error("Lookup file {} not found".format(lookup_path))
         return

bin/dm_mripicture.py

@@ -109,6 +109,7 @@ def main():
                 vmin=100,
                 vmax=1100,
                 threshold="auto",
+                colorbar=False,
             )
             t1_pic.savefig(outpath, dpi=1000)
             logger.debug(

bin/dm_parse_ea.py

@@ -217,7 +217,8 @@ def get_ratings(log):
 def combine_dfs(blocks, ratings):
     # combines the block rows with the ratings rows and sorts them
 
-    combo = blocks.append(ratings).sort_values("onset").reset_index(drop=True)
+    combo = blocks._append(ratings).sort_values("onset").reset_index(drop=True)
+
     mask = pd.notnull(combo["trial_type"])
     combo["space_b4_prev"] = combo["onset"].diff(periods=1)
     combo["first_button_press"] = combo["duration"].shift() > 0
@@ -240,7 +241,7 @@ def combine_dfs(blocks, ratings):
         "participant_value": last_block.participant_value,
     }
 
-    combo2 = combo2.append(end_row, ignore_index=True).reset_index(drop=True)
+    combo2 = combo2._append(end_row, ignore_index=True).reset_index(drop=True)
 
     mask = pd.notnull(combo2["trial_type"])
 
@@ -264,7 +265,7 @@ def combine_dfs(blocks, ratings):
             "duration": 0,
             "participant_value": 5,
         }
-        combo2 = combo2.append(new_row, ignore_index=True)
+        combo2 = combo2._append(new_row, ignore_index=True)
 
     combo2 = combo2.sort_values(by=["onset", "event_type"],
                                 na_position="first").reset_index(drop=True)
@@ -470,7 +471,7 @@ def parse_task(ident,
     combo["block_score"] = np.nan
     combo["n_button_press"] = np.nan
 
-    combo = (combo.append(two_s_chunks).sort_values("onset").reset_index(
+    combo = (combo._append(two_s_chunks).sort_values("onset").reset_index(
         drop=True))
 
     test = combo.loc[pd.notnull(combo["stim_file"])]

bin/dm_parse_faces.py

@@ -74,7 +74,7 @@ def find_all_data(eprime, tag):
 
 def findnum(ln):
     try:
-        txtnum = re.findall('(\d+)\r\n', ln)  # noqa: W605
+        txtnum = re.findall(r'(\d+)\r\n', ln)
         return float(txtnum[0])
     except ValueError:
         return txtnum[0]

datman/utils.py

@@ -509,7 +509,7 @@ def _parse_blacklist(blacklist, scan=None, subject=None):
 
     # This will mangle any commas in comments, but is the most reliable way
     # to split the lines
-    regex = ",|\s"  # noqa: W605
+    regex = r",|\s"
     for line in blacklist:
         fields = re.split(regex, line.strip())
         try:

pyproject.toml

@@ -34,10 +34,11 @@ classifiers = [
 dependencies = [
     "docopt == 0.6.2",
     "dcm2bids==3.1.1",
-    "nibabel == 5.2.1",
-    "nilearn == 0.10.3",
-    "numpy == 1.24.4",
-    "pandas == 2.0.3",
+    "matplotlib==3.10.8",
+    "nibabel == 5.3.3",
+    "nilearn == 0.12.1",
+    "numpy == 2.4.1",
+    "pandas == 3.0.0",
     "pybids == 0.16.4",
     "pydicom == 2.4.4",
     "pysftp == 0.2.9",