Move data directory out of src

sensein · Sep 16, 2024 · c928e92 · c928e92
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diff --git a/...86e-b0d4-0001ee7f861d_airwaystenosis.json → ...86e-b0d4-0001ee7f861d_airwaystenosis.json b/...86e-b0d4-0001ee7f861d_airwaystenosis.json → ...86e-b0d4-0001ee7f861d_airwaystenosis.json
diff --git a/...1050-e9dd-486e-b0d4-0001ee7f861d_als.json → ...1050-e9dd-486e-b0d4-0001ee7f861d_als.json b/...1050-e9dd-486e-b0d4-0001ee7f861d_als.json → ...1050-e9dd-486e-b0d4-0001ee7f861d_als.json
diff --git a/...dd-486e-b0d4-0001ee7f861d_alzheimers.json → ...dd-486e-b0d4-0001ee7f861d_alzheimers.json b/...dd-486e-b0d4-0001ee7f861d_alzheimers.json → ...dd-486e-b0d4-0001ee7f861d_alzheimers.json
diff --git a/...d-486e-b0d4-0001ee7f861d_eligibility.json → ...d-486e-b0d4-0001ee7f861d_eligibility.json b/...d-486e-b0d4-0001ee7f861d_eligibility.json → ...d-486e-b0d4-0001ee7f861d_eligibility.json
diff --git a/...dd-486e-b0d4-0001ee7f861d_enrollment.json → ...dd-486e-b0d4-0001ee7f861d_enrollment.json b/...dd-486e-b0d4-0001ee7f861d_enrollment.json → ...dd-486e-b0d4-0001ee7f861d_enrollment.json
diff --git a/...-b0d4-0001ee7f861d_laryngealDystonia.json → ...-b0d4-0001ee7f861d_laryngealDystonia.json b/...-b0d4-0001ee7f861d_laryngealDystonia.json → ...-b0d4-0001ee7f861d_laryngealDystonia.json
diff --git a/...dd-486e-b0d4-0001ee7f861d_parkinsons.json → ...dd-486e-b0d4-0001ee7f861d_parkinsons.json b/...dd-486e-b0d4-0001ee7f861d_parkinsons.json → ...dd-486e-b0d4-0001ee7f861d_parkinsons.json
diff --git a/...d-486e-b0d4-0001ee7f861d_participant.json → ...d-486e-b0d4-0001ee7f861d_participant.json b/...d-486e-b0d4-0001ee7f861d_participant.json → ...d-486e-b0d4-0001ee7f861d_participant.json
diff --git a/...0d4-0001ee7f861d_precancerousLesions.json → ...0d4-0001ee7f861d_precancerousLesions.json b/...0d4-0001ee7f861d_precancerousLesions.json → ...0d4-0001ee7f861d_precancerousLesions.json
diff --git a/...d2-4ad8-a821-a386c419a7e5_alzheimers.json → ...d2-4ad8-a821-a386c419a7e5_alzheimers.json b/...d2-4ad8-a821-a386c419a7e5_alzheimers.json → ...d2-4ad8-a821-a386c419a7e5_alzheimers.json
diff --git a/...2-4ad8-a821-a386c419a7e5_eligibility.json → ...2-4ad8-a821-a386c419a7e5_eligibility.json b/...2-4ad8-a821-a386c419a7e5_eligibility.json → ...2-4ad8-a821-a386c419a7e5_eligibility.json
diff --git a/...d8-a821-a386c419a7e5_laryngealCancer.json → ...d8-a821-a386c419a7e5_laryngealCancer.json b/...d8-a821-a386c419a7e5_laryngealCancer.json → ...d8-a821-a386c419a7e5_laryngealCancer.json
diff --git a/...-a821-a386c419a7e5_laryngealDystonia.json → ...-a821-a386c419a7e5_laryngealDystonia.json b/...-a821-a386c419a7e5_laryngealDystonia.json → ...-a821-a386c419a7e5_laryngealDystonia.json
diff --git a/...d2-4ad8-a821-a386c419a7e5_parkinsons.json → ...d2-4ad8-a821-a386c419a7e5_parkinsons.json b/...d2-4ad8-a821-a386c419a7e5_parkinsons.json → ...d2-4ad8-a821-a386c419a7e5_parkinsons.json
diff --git a/...2-4ad8-a821-a386c419a7e5_participant.json → ...2-4ad8-a821-a386c419a7e5_participant.json b/...2-4ad8-a821-a386c419a7e5_participant.json → ...2-4ad8-a821-a386c419a7e5_participant.json
diff --git a/...3eda-66eb-4731-b5fa-e59f2cbaf801_als.json → ...3eda-66eb-4731-b5fa-e59f2cbaf801_als.json b/...3eda-66eb-4731-b5fa-e59f2cbaf801_als.json → ...3eda-66eb-4731-b5fa-e59f2cbaf801_als.json
diff --git a/...eb-4731-b5fa-e59f2cbaf801_alzheimers.json → ...eb-4731-b5fa-e59f2cbaf801_alzheimers.json b/...eb-4731-b5fa-e59f2cbaf801_alzheimers.json → ...eb-4731-b5fa-e59f2cbaf801_alzheimers.json
diff --git a/...b-4731-b5fa-e59f2cbaf801_eligibility.json → ...b-4731-b5fa-e59f2cbaf801_eligibility.json b/...b-4731-b5fa-e59f2cbaf801_eligibility.json → ...b-4731-b5fa-e59f2cbaf801_eligibility.json
diff --git a/...eb-4731-b5fa-e59f2cbaf801_enrollment.json → ...eb-4731-b5fa-e59f2cbaf801_enrollment.json b/...eb-4731-b5fa-e59f2cbaf801_enrollment.json → ...eb-4731-b5fa-e59f2cbaf801_enrollment.json
diff --git a/...31-b5fa-e59f2cbaf801_laryngealCancer.json → ...31-b5fa-e59f2cbaf801_laryngealCancer.json b/...31-b5fa-e59f2cbaf801_laryngealCancer.json → ...31-b5fa-e59f2cbaf801_laryngealCancer.json
diff --git a/...-b5fa-e59f2cbaf801_laryngealDystonia.json → ...-b5fa-e59f2cbaf801_laryngealDystonia.json b/...-b5fa-e59f2cbaf801_laryngealDystonia.json → ...-b5fa-e59f2cbaf801_laryngealDystonia.json
diff --git a/...eb-4731-b5fa-e59f2cbaf801_parkinsons.json → ...eb-4731-b5fa-e59f2cbaf801_parkinsons.json b/...eb-4731-b5fa-e59f2cbaf801_parkinsons.json → ...eb-4731-b5fa-e59f2cbaf801_parkinsons.json
diff --git a/...b-4731-b5fa-e59f2cbaf801_participant.json → ...b-4731-b5fa-e59f2cbaf801_participant.json b/...b-4731-b5fa-e59f2cbaf801_participant.json → ...b-4731-b5fa-e59f2cbaf801_participant.json
diff --git a/...5fa-e59f2cbaf801_precancerousLesions.json → ...5fa-e59f2cbaf801_precancerousLesions.json b/...5fa-e59f2cbaf801_precancerousLesions.json → ...5fa-e59f2cbaf801_precancerousLesions.json
diff --git a/...4734-87cc-c2d664c4a430_sessionschema.json → ...4734-87cc-c2d664c4a430_sessionschema.json b/...4734-87cc-c2d664c4a430_sessionschema.json → ...4734-87cc-c2d664c4a430_sessionschema.json
diff --git a/...662a-59e0-4b69-9161-a2fd4636890b_als.json → ...662a-59e0-4b69-9161-a2fd4636890b_als.json b/...662a-59e0-4b69-9161-a2fd4636890b_als.json → ...662a-59e0-4b69-9161-a2fd4636890b_als.json
diff --git a/...e0-4b69-9161-a2fd4636890b_alzheimers.json → ...e0-4b69-9161-a2fd4636890b_alzheimers.json b/...e0-4b69-9161-a2fd4636890b_alzheimers.json → ...e0-4b69-9161-a2fd4636890b_alzheimers.json
diff --git a/...-4b69-9161-a2fd4636890b_benignLesion.json → ...-4b69-9161-a2fd4636890b_benignLesion.json b/...-4b69-9161-a2fd4636890b_benignLesion.json → ...-4b69-9161-a2fd4636890b_benignLesion.json
diff --git a/...0-4b69-9161-a2fd4636890b_eligibility.json → ...0-4b69-9161-a2fd4636890b_eligibility.json b/...0-4b69-9161-a2fd4636890b_eligibility.json → ...0-4b69-9161-a2fd4636890b_eligibility.json
diff --git a/...e0-4b69-9161-a2fd4636890b_enrollment.json → ...e0-4b69-9161-a2fd4636890b_enrollment.json b/...e0-4b69-9161-a2fd4636890b_enrollment.json → ...e0-4b69-9161-a2fd4636890b_enrollment.json
diff --git a/...-9161-a2fd4636890b_laryngealDystonia.json → ...-9161-a2fd4636890b_laryngealDystonia.json b/...-9161-a2fd4636890b_laryngealDystonia.json → ...-9161-a2fd4636890b_laryngealDystonia.json
diff --git a/...e0-4b69-9161-a2fd4636890b_parkinsons.json → ...e0-4b69-9161-a2fd4636890b_parkinsons.json b/...e0-4b69-9161-a2fd4636890b_parkinsons.json → ...e0-4b69-9161-a2fd4636890b_parkinsons.json
diff --git a/...0-4b69-9161-a2fd4636890b_participant.json → ...0-4b69-9161-a2fd4636890b_participant.json b/...0-4b69-9161-a2fd4636890b_participant.json → ...0-4b69-9161-a2fd4636890b_participant.json
diff --git a/...161-a2fd4636890b_precancerousLesions.json → ...161-a2fd4636890b_precancerousLesions.json b/...161-a2fd4636890b_precancerousLesions.json → ...161-a2fd4636890b_precancerousLesions.json
diff --git a/...74b-b30d-a7b025765847_airwaystenosis.json → ...74b-b30d-a7b025765847_airwaystenosis.json b/...74b-b30d-a7b025765847_airwaystenosis.json → ...74b-b30d-a7b025765847_airwaystenosis.json
diff --git a/...-b30d-a7b025765847_laryngealDystonia.json → ...-b30d-a7b025765847_laryngealDystonia.json b/...-b30d-a7b025765847_laryngealDystonia.json → ...-b30d-a7b025765847_laryngealDystonia.json
diff --git a/...2a-474b-b30d-a7b025765847_parkinsons.json → ...2a-474b-b30d-a7b025765847_parkinsons.json b/...2a-474b-b30d-a7b025765847_parkinsons.json → ...2a-474b-b30d-a7b025765847_parkinsons.json
diff --git a/...a-474b-b30d-a7b025765847_participant.json → ...a-474b-b30d-a7b025765847_participant.json b/...a-474b-b30d-a7b025765847_participant.json → ...a-474b-b30d-a7b025765847_participant.json
diff --git a/...7-482f-bddd-39466e63c4f4_eligibility.json → ...7-482f-bddd-39466e63c4f4_eligibility.json b/...7-482f-bddd-39466e63c4f4_eligibility.json → ...7-482f-bddd-39466e63c4f4_eligibility.json
diff --git a/...67-482f-bddd-39466e63c4f4_enrollment.json → ...67-482f-bddd-39466e63c4f4_enrollment.json b/...67-482f-bddd-39466e63c4f4_enrollment.json → ...67-482f-bddd-39466e63c4f4_enrollment.json
diff --git a/...2f-bddd-39466e63c4f4_laryngealCancer.json → ...2f-bddd-39466e63c4f4_laryngealCancer.json b/...2f-bddd-39466e63c4f4_laryngealCancer.json → ...2f-bddd-39466e63c4f4_laryngealCancer.json
diff --git a/...67-482f-bddd-39466e63c4f4_parkinsons.json → ...67-482f-bddd-39466e63c4f4_parkinsons.json b/...67-482f-bddd-39466e63c4f4_parkinsons.json → ...67-482f-bddd-39466e63c4f4_parkinsons.json
diff --git a/...7-482f-bddd-39466e63c4f4_participant.json → ...7-482f-bddd-39466e63c4f4_participant.json b/...7-482f-bddd-39466e63c4f4_participant.json → ...7-482f-bddd-39466e63c4f4_participant.json
diff --git a/...70-4533-b03c-43cef12d132e_alzheimers.json → ...70-4533-b03c-43cef12d132e_alzheimers.json b/...70-4533-b03c-43cef12d132e_alzheimers.json → ...70-4533-b03c-43cef12d132e_alzheimers.json
diff --git a/...0-4533-b03c-43cef12d132e_participant.json → ...0-4533-b03c-43cef12d132e_participant.json b/...0-4533-b03c-43cef12d132e_participant.json → ...0-4533-b03c-43cef12d132e_participant.json
diff --git a/...7dc-a5a6-3885a96ae445_airwaystenosis.json → ...7dc-a5a6-3885a96ae445_airwaystenosis.json b/...7dc-a5a6-3885a96ae445_airwaystenosis.json → ...7dc-a5a6-3885a96ae445_airwaystenosis.json
diff --git a/...9fa9-2dc0-47dc-a5a6-3885a96ae445_als.json → ...9fa9-2dc0-47dc-a5a6-3885a96ae445_als.json b/...9fa9-2dc0-47dc-a5a6-3885a96ae445_als.json → ...9fa9-2dc0-47dc-a5a6-3885a96ae445_als.json
diff --git a/...c0-47dc-a5a6-3885a96ae445_parkinsons.json → ...c0-47dc-a5a6-3885a96ae445_parkinsons.json b/...c0-47dc-a5a6-3885a96ae445_parkinsons.json → ...c0-47dc-a5a6-3885a96ae445_parkinsons.json
diff --git a/...0-47dc-a5a6-3885a96ae445_participant.json → ...0-47dc-a5a6-3885a96ae445_participant.json b/...0-47dc-a5a6-3885a96ae445_participant.json → ...0-47dc-a5a6-3885a96ae445_participant.json
diff --git a/...46-45ce-86c2-87c9a717dc02_alzheimers.json → ...46-45ce-86c2-87c9a717dc02_alzheimers.json b/...46-45ce-86c2-87c9a717dc02_alzheimers.json → ...46-45ce-86c2-87c9a717dc02_alzheimers.json
diff --git a/...-86c2-87c9a717dc02_laryngealDystonia.json → ...-86c2-87c9a717dc02_laryngealDystonia.json b/...-86c2-87c9a717dc02_laryngealDystonia.json → ...-86c2-87c9a717dc02_laryngealDystonia.json
diff --git a/...6-45ce-86c2-87c9a717dc02_participant.json → ...6-45ce-86c2-87c9a717dc02_participant.json b/...6-45ce-86c2-87c9a717dc02_participant.json → ...6-45ce-86c2-87c9a717dc02_participant.json
diff --git a/...6c2-87c9a717dc02_precancerousLesions.json → ...6c2-87c9a717dc02_precancerousLesions.json b/...6c2-87c9a717dc02_precancerousLesions.json → ...6c2-87c9a717dc02_precancerousLesions.json
diff --git a/...745-8c41-b28c5ea23805_airwaystenosis.json → ...745-8c41-b28c5ea23805_airwaystenosis.json b/...745-8c41-b28c5ea23805_airwaystenosis.json → ...745-8c41-b28c5ea23805_airwaystenosis.json
diff --git a/...f1ca-5009-4745-8c41-b28c5ea23805_als.json → ...f1ca-5009-4745-8c41-b28c5ea23805_als.json b/...f1ca-5009-4745-8c41-b28c5ea23805_als.json → ...f1ca-5009-4745-8c41-b28c5ea23805_als.json
diff --git a/...45-8c41-b28c5ea23805_laryngealCancer.json → ...45-8c41-b28c5ea23805_laryngealCancer.json b/...45-8c41-b28c5ea23805_laryngealCancer.json → ...45-8c41-b28c5ea23805_laryngealCancer.json
diff --git a/...-8c41-b28c5ea23805_laryngealDystonia.json → ...-8c41-b28c5ea23805_laryngealDystonia.json b/...-8c41-b28c5ea23805_laryngealDystonia.json → ...-8c41-b28c5ea23805_laryngealDystonia.json
diff --git a/...09-4745-8c41-b28c5ea23805_parkinsons.json → ...09-4745-8c41-b28c5ea23805_parkinsons.json b/...09-4745-8c41-b28c5ea23805_parkinsons.json → ...09-4745-8c41-b28c5ea23805_parkinsons.json
diff --git a/...9-4745-8c41-b28c5ea23805_participant.json → ...9-4745-8c41-b28c5ea23805_participant.json b/...9-4745-8c41-b28c5ea23805_participant.json → ...9-4745-8c41-b28c5ea23805_participant.json
diff --git a/...bee-8a7e-dc84e6327b7e_airwaystenosis.json → ...bee-8a7e-dc84e6327b7e_airwaystenosis.json b/...bee-8a7e-dc84e6327b7e_airwaystenosis.json → ...bee-8a7e-dc84e6327b7e_airwaystenosis.json
diff --git a/...2f15-f121-4bee-8a7e-dc84e6327b7e_als.json → ...2f15-f121-4bee-8a7e-dc84e6327b7e_als.json b/...2f15-f121-4bee-8a7e-dc84e6327b7e_als.json → ...2f15-f121-4bee-8a7e-dc84e6327b7e_als.json
diff --git a/...21-4bee-8a7e-dc84e6327b7e_alzheimers.json → ...21-4bee-8a7e-dc84e6327b7e_alzheimers.json b/...21-4bee-8a7e-dc84e6327b7e_alzheimers.json → ...21-4bee-8a7e-dc84e6327b7e_alzheimers.json
diff --git a/...1-4bee-8a7e-dc84e6327b7e_eligibility.json → ...1-4bee-8a7e-dc84e6327b7e_eligibility.json b/...1-4bee-8a7e-dc84e6327b7e_eligibility.json → ...1-4bee-8a7e-dc84e6327b7e_eligibility.json
diff --git a/...-8a7e-dc84e6327b7e_laryngealDystonia.json → ...-8a7e-dc84e6327b7e_laryngealDystonia.json b/...-8a7e-dc84e6327b7e_laryngealDystonia.json → ...-8a7e-dc84e6327b7e_laryngealDystonia.json
diff --git a/...21-4bee-8a7e-dc84e6327b7e_parkinsons.json → ...21-4bee-8a7e-dc84e6327b7e_parkinsons.json b/...21-4bee-8a7e-dc84e6327b7e_parkinsons.json → ...21-4bee-8a7e-dc84e6327b7e_parkinsons.json
diff --git a/...1-4bee-8a7e-dc84e6327b7e_participant.json → ...1-4bee-8a7e-dc84e6327b7e_participant.json b/...1-4bee-8a7e-dc84e6327b7e_participant.json → ...1-4bee-8a7e-dc84e6327b7e_participant.json
diff --git a/src/b2aiprep/data/redcap_column_names.txt → data/redcap_column_names.txt b/src/b2aiprep/data/redcap_column_names.txt → data/redcap_column_names.txt
diff --git a/...a/sdv_redcap_synthetic_data_1000_rows.csv → data/sdv_redcap_synthetic_data_1000_rows.csv b/...a/sdv_redcap_synthetic_data_1000_rows.csv → data/sdv_redcap_synthetic_data_1000_rows.csv
diff --git a/src/b2aiprep/data/test_audio.wav → data/test_audio.wav b/src/b2aiprep/data/test_audio.wav → data/test_audio.wav
diff --git a/src/b2aiprep/data/test_audio2.wav → data/test_audio2.wav b/src/b2aiprep/data/test_audio2.wav → data/test_audio2.wav
diff --git a/src/b2aiprep/data/test_audio_16k_single.wav → data/test_audio_16k_single.wav b/src/b2aiprep/data/test_audio_16k_single.wav → data/test_audio_16k_single.wav
diff --git a/src/b2aiprep/data/vc_source.wav → data/vc_source.wav b/src/b2aiprep/data/vc_source.wav → data/vc_source.wav
diff --git a/src/b2aiprep/data/vc_target.wav → data/vc_target.wav b/src/b2aiprep/data/vc_target.wav → data/vc_target.wav
diff --git a/tests/test_bids_like_data.py b/tests/test_bids_like_data.py
@@ -168,8 +168,8 @@ def test_get_instrument_for_name():
 
 
 def test_redcap_to_bids():
-    # Path to the actual CSV file
-    csv_file_path = Path("src/b2aiprep/data/sdv_redcap_synthetic_data_1000_rows.csv")
+    project_root = Path(__file__).parent.parent
+    csv_file_path = project_root / "data/sdv_redcap_synthetic_data_1000_rows.csv"
 
     # Check if the file exists before proceeding
     if not csv_file_path.exists():

diff --git a/tests/test_cli.py b/tests/test_cli.py
@@ -2,6 +2,7 @@
 import shutil
 import subprocess
 import tempfile
+from pathlib import Path
 
 import pytest
 
@@ -10,7 +11,8 @@
 def setup_temp_files():
     """Fixture to set up temporary directories and files for testing."""
     # Paths to required data files
-    redcap_csv_source = "src/b2aiprep/data/sdv_redcap_synthetic_data_1000_rows.csv"
+    project_root = Path(__file__).parent.parent
+    redcap_csv_source = project_root / "data/sdv_redcap_synthetic_data_1000_rows.csv"
 
     with (
         tempfile.TemporaryDirectory() as audio_dir,