fix string/path issue in generate and qc

aramis-lab · Jun 3, 2024 · 4efbcac · 4efbcac
1 parent 7a59036
commit 4efbcac
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Showing 2 changed files with 9 additions and 9 deletions.
diff --git a/tests/test_generate.py b/tests/test_generate.py
@@ -46,12 +46,12 @@ def test_generate(cmdopt, tmp_path, test_name):
             "t1-linear",
         ]
     elif test_name == "hypometabolic_example":
-        output_folder = str(tmp_out_dir / test_name)
+        output_folder = tmp_out_dir / test_name
         test_input = [
             "generate",
             "hypometabolic",
             data_caps_pet,
-            output_folder,
+            str(output_folder),
             "--n_subjects",
             "2",
             "--pathology",

diff --git a/tests/test_qc.py b/tests/test_qc.py
@@ -22,29 +22,29 @@ def test_qc(cmdopt, tmp_path, test_name):
     tmp_out_dir.mkdir(parents=True)
 
     if test_name == "t1-linear":
-        out_tsv = str(tmp_out_dir / "QC.tsv")
+        out_tsv = tmp_out_dir / "QC.tsv"
         test_input = [
             "t1-linear",
             str(input_dir / "caps"),
-            out_tsv,
+            str(out_tsv),
             "--no-gpu",
         ]
 
     elif test_name == "t1-volume":
-        out_dir = str(tmp_out_dir / "QC_T1V")
+        out_dir = tmp_out_dir / "QC_T1V"
         test_input = [
             "t1-volume",
             str(input_dir / "caps_T1V"),
-            out_dir,
+            str(out_dir),
             "Ixi549Space",
         ]
 
     elif test_name == "pet-linear":
-        out_tsv = str(tmp_out_dir / "QC_pet.tsv")
+        out_tsv = tmp_out_dir / "QC_pet.tsv"
         test_input = [
             "pet-linear",
             str(input_dir / "caps_pet"),
-            out_tsv,
+            str(out_tsv),
             "18FFDG",
             "cerebellumPons2",
             "--threshold",
@@ -73,7 +73,7 @@ def test_qc(cmdopt, tmp_path, test_name):
         assert out_df.equals(ref_df)
 
     elif test_name == "t1-volume":
-        assert compare_folders(out_dir, str(ref_dir / "QC_T1V"), tmp_out_dir)
+        assert compare_folders(out_dir, ref_dir / "QC_T1V", tmp_out_dir)
 
     elif test_name == "pet-linear":
         out_df = pd.read_csv(out_tsv, sep="\t")