junifer 0.0.6.dev213__py3-none-any.whl → 0.0.6.dev219__py3-none-any.whl

junifer/_version.py

@@ -12,5 +12,5 @@ __version__: str
 __version_tuple__: VERSION_TUPLE
 version_tuple: VERSION_TUPLE
 
-__version__ = version = '0.0.6.dev213'
-__version_tuple__ = version_tuple = (0, 0, 6, 'dev213')
+__version__ = version = '0.0.6.dev219'
+__version_tuple__ = version_tuple = (0, 0, 6, 'dev219')

junifer/pipeline/tests/test_workdir_manager.py

@@ -102,3 +102,45 @@ def test_workdir_manager_get_and_delete_tempdir(tmp_path: Path) -> None:
     workdir_mgr._cleanup()
     # Should remove temporary directory
     assert workdir_mgr.root_tempdir is None
+
+def test_workdir_manager_no_cleanup(tmp_path: Path) -> None:
+    """Test WorkDirManager correctly bypasses cleanup.
+
+    Parameters
+    ----------
+    tmp_path : pathlib.Path
+        The path to the test directory.
+
+    """
+    workdir_mgr = WorkDirManager(cleanup=False)
+    workdir_mgr.workdir = tmp_path
+    # Check no root temporary directory
+    assert workdir_mgr.root_tempdir is None
+
+    tempdir = workdir_mgr.get_tempdir()
+    assert tempdir.exists()
+    # Should create a temporary directory
+    assert workdir_mgr.root_tempdir is not None
+
+    workdir_mgr.delete_tempdir(tempdir)
+    workdir_mgr._cleanup()
+
+    # Should remove temporary directory
+    assert workdir_mgr.root_tempdir is None
+    # But the temporary directory should still exist
+    assert tempdir.exists()
+
+    # Now the same but for the element directory
+
+    # Check no element directory
+    assert workdir_mgr.elementdir is None
+
+    tempdir = workdir_mgr.get_element_tempdir()
+    # Should create a temporary directory
+    assert workdir_mgr.elementdir is not None
+
+    workdir_mgr.cleanup_elementdir()
+    # Should remove temporary directory
+    assert workdir_mgr.elementdir is None
+    # But the temporary directory should still exist
+    assert tempdir.exists()

junifer/pipeline/workdir_manager.py

@@ -39,15 +39,20 @@ class WorkDirManager(metaclass=Singleton):
         The path to the element directory.
     root_tempdir : pathlib.Path or None
         The path to the root temporary directory.
+    cleanup : bool, optional
+        If False, the directories are not cleaned up after the object is
+        destroyed. This is useful for debugging purposes (default True).
 
     """
 
-    def __init__(self, workdir: Optional[Union[str, Path]] = None) -> None:
+    def __init__(
+        self, workdir: Optional[Union[str, Path]] = None, cleanup=True
+    ) -> None:
         """Initialize the class."""
         self._workdir = Path(workdir) if isinstance(workdir, str) else workdir
         self._elementdir = None
         self._root_tempdir = None
-
+        self._cleanup_dirs = cleanup
         self._set_default_workdir()
 
     def _set_default_workdir(self) -> None:
@@ -72,6 +77,9 @@ class WorkDirManager(metaclass=Singleton):
 
     def _cleanup(self) -> None:
         """Clean up the element and temporary directories."""
+        if self._cleanup_dirs is False:
+            self._root_tempdir = None
+            return
         # Remove element directory
         self.cleanup_elementdir()
         # Remove root temporary directory
@@ -171,6 +179,8 @@ class WorkDirManager(metaclass=Singleton):
             The temporary directory path to be deleted.
 
         """
+        if self._cleanup_dirs is False:
+            return
         logger.debug(f"Deleting element temporary directory at {tempdir}")
         shutil.rmtree(tempdir, ignore_errors=True)
 
@@ -182,6 +192,9 @@ class WorkDirManager(metaclass=Singleton):
         can lead to required intermediate files not being found.
 
         """
+        if self._cleanup_dirs is False:
+            self._elementdir = None
+            return
         if self._elementdir is not None:
             logger.debug(
                 "Deleting element directory at "
@@ -244,5 +257,7 @@ class WorkDirManager(metaclass=Singleton):
             The temporary directory path to be deleted.
 
         """
+        if self._cleanup_dirs is False:
+            return
         logger.debug(f"Deleting temporary directory at {tempdir}")
         shutil.rmtree(tempdir, ignore_errors=True)

{junifer-0.0.6.dev213.dist-info → junifer-0.0.6.dev219.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: junifer
-Version: 0.0.6.dev213
+Version: 0.0.6.dev219
 Summary: JUelich NeuroImaging FEature extractoR
 Author-email: Fede Raimondo <f.raimondo@fz-juelich.de>, Synchon Mandal <s.mandal@fz-juelich.de>
 Maintainer-email: Fede Raimondo <f.raimondo@fz-juelich.de>, Synchon Mandal <s.mandal@fz-juelich.de>

{junifer-0.0.6.dev213.dist-info → junifer-0.0.6.dev219.dist-info}/RECORD

@@ -1,6 +1,6 @@
 junifer/__init__.py,sha256=2McgH1yNue6Z1V26-uN_mfMjbTcx4CLhym-DMBl5xA4,266
 junifer/__init__.pyi,sha256=uPLuY27S7AY4kFzJX0ncCpzHnWJdztveMJpY3Di-wwQ,482
-junifer/_version.py,sha256=nRJALFK9-lDXqnO0OwqlFkus-jiFoEB-CLCKIbrjuRU,428
+junifer/_version.py,sha256=CjqUG_Y4LDEZ8B4jqZpARBHOYed_438kYzl-7CnGiQU,428
 junifer/conftest.py,sha256=PWYkkRDU8ly2lYwv7VBKMHje4et6HX7Yey3Md_I2KbA,613
 junifer/py.typed,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 junifer/stats.py,sha256=BjQb2lfTGDP9l4UuQYmJFcJJNRfbJDGlNvC06SJaDDE,6237
@@ -268,12 +268,12 @@ junifer/pipeline/pipeline_step_mixin.py,sha256=wakimkG8GC0PWkFHMHIfgzM2yak41xLrz
 junifer/pipeline/py.typed,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 junifer/pipeline/update_meta_mixin.py,sha256=A_gYCPqdPlM0Xpum9TjJowb41O7ntxQg6y4YOgYeyy4,1564
 junifer/pipeline/utils.py,sha256=CAp0P7rZST7bsJ9lSlkvZgIJebHW2cIm8VXTuu1A6tE,10291
-junifer/pipeline/workdir_manager.py,sha256=zLzNZBCqqZeF10eS5nUMdg_EoORJhxGqmAS1fbnPexI,8067
+junifer/pipeline/workdir_manager.py,sha256=T7-sZY_Gj0SM7p9N1ATjUFK2T-6CYIMQeYwHpBz96Gs,8616
 junifer/pipeline/tests/test_marker_collection.py,sha256=edBHfmwMTXG_q0ZagApbAbkFNoegi3hVEQiNcBtZOKc,6959
 junifer/pipeline/tests/test_pipeline_component_registry.py,sha256=ww_akEhtvE1_fsWbX5Yd5w_G2Ki6w_5MInfihwwRYFk,5800
 junifer/pipeline/tests/test_pipeline_step_mixin.py,sha256=_ykZzyNzREXy-r_yv1gY_jquLZzVBl8qwYrVORCKY_k,7807
 junifer/pipeline/tests/test_update_meta_mixin.py,sha256=UeWwpUi-Q5WVd36Fgfn_utXplSVXMSjLcdO2mR2xLTk,1355
-junifer/pipeline/tests/test_workdir_manager.py,sha256=E1WY4C-GDsx2c49sePqr1WR_Y3nZ1kiRn4Veu506uTs,2801
+junifer/pipeline/tests/test_workdir_manager.py,sha256=N7_5cTnmv0eSQCT9UWOmFFVT-BIrNWq8GFmaqa-BtRI,4050
 junifer/preprocess/__init__.py,sha256=91D43p254il88g-7sSN64M7HsCvwytYoiTS_GLEr37Y,342
 junifer/preprocess/__init__.pyi,sha256=EApXtuEZohQZnIeP6k882Y2H5IRiGmhJbVGdN7VCWFc,254
 junifer/preprocess/base.py,sha256=v6azVA3RwDe3HriYlcaISOX1A6gYgFUKNzQeIDLx92Q,6681
@@ -336,10 +336,10 @@ junifer/utils/singleton.py,sha256=3mEZT4GJ7lMkH8H7ZPgy0DBe6CNTqg9CRVJFDAy3h60,12
 junifer/utils/tests/test_fs.py,sha256=WQS7cKlKEZ742CIuiOYYpueeAhY9PqlastfDVpVVtvE,923
 junifer/utils/tests/test_helpers.py,sha256=k5qqfxK8dFyuewTJyR1Qn6-nFaYNuVr0ysc18bfPjyU,929
 junifer/utils/tests/test_logging.py,sha256=duO4ou365hxwa_kwihFtKPLaL6LC5XHiyhOijrrngbA,8009
-junifer-0.0.6.dev213.dist-info/AUTHORS.rst,sha256=rmULKpchpSol4ExWFdm-qu4fkpSZPYqIESVJBZtGb6E,163
-junifer-0.0.6.dev213.dist-info/LICENSE.md,sha256=MqCnOBu8uXsEOzRZWh9EBVfVz-kE9NkXcLCrtGXo2yU,34354
-junifer-0.0.6.dev213.dist-info/METADATA,sha256=jKOB-sd7U5Q6Fxxg2-hBKsX5R7LsBRbAT_1lg9jwiXM,8448
-junifer-0.0.6.dev213.dist-info/WHEEL,sha256=P9jw-gEje8ByB7_hXoICnHtVCrEwMQh-630tKvQWehc,91
-junifer-0.0.6.dev213.dist-info/entry_points.txt,sha256=6O8ru0BP-SP7YMUZiizFNoaZ2HvJpadO2G7nKk4PwjI,48
-junifer-0.0.6.dev213.dist-info/top_level.txt,sha256=4bAq1R2QFQ4b3hohjys2JBvxrl0GKk5LNFzYvz9VGcA,8
-junifer-0.0.6.dev213.dist-info/RECORD,,
+junifer-0.0.6.dev219.dist-info/AUTHORS.rst,sha256=rmULKpchpSol4ExWFdm-qu4fkpSZPYqIESVJBZtGb6E,163
+junifer-0.0.6.dev219.dist-info/LICENSE.md,sha256=MqCnOBu8uXsEOzRZWh9EBVfVz-kE9NkXcLCrtGXo2yU,34354
+junifer-0.0.6.dev219.dist-info/METADATA,sha256=NmVabUMfIEWcEJ8nOtLA7HTzwuZYBhoIZPA1Z44ycdw,8448
+junifer-0.0.6.dev219.dist-info/WHEEL,sha256=P9jw-gEje8ByB7_hXoICnHtVCrEwMQh-630tKvQWehc,91
+junifer-0.0.6.dev219.dist-info/entry_points.txt,sha256=6O8ru0BP-SP7YMUZiizFNoaZ2HvJpadO2G7nKk4PwjI,48
+junifer-0.0.6.dev219.dist-info/top_level.txt,sha256=4bAq1R2QFQ4b3hohjys2JBvxrl0GKk5LNFzYvz9VGcA,8
+junifer-0.0.6.dev219.dist-info/RECORD,,