Caught ValueError: I/O operation on closed file within GMS_logger.__del__....

Caught ValueError: I/O operation on closed file within GMS_logger.__del__. Fixed a static TLS ImportError during runtime of SICOR when scikit-learn>0.22 is imported. Added missing requirements numba and llvmlite to environment_gms_preprocessing.yml.

Signed-off-by: Daniel Scheffler <danschef@gfz-potsdam.de>

HISTORY.rst

@@ -2,6 +2,14 @@
 History
 =======
 
+0.18.5 (2020-09-25)
+-------------------
+
+* Caught ValueError: I/O operation on closed file within GMS_logger.__del__.
+* Fixed a static TLS ImportError during runtime of SICOR when scikit-learn>0.22 is imported.
+* Added missing requirements numba and llvmlite to environment_gms_preprocessing.yml.
+
+
 0.18.4 (2020-09-18)
 -------------------
 

gms_preprocessing/__init__.py

@@ -25,6 +25,7 @@
 # with this program.  If not, see <http://www.gnu.org/licenses/>.
 
 import os
+import sklearn  # noqa # avoids a static TLS ImportError during runtime of SICOR (when importing sklearn there)
 if 'MPLBACKEND' not in os.environ:
     os.environ['MPLBACKEND'] = 'Agg'
 

gms_preprocessing/misc/logging.py

@@ -191,7 +191,11 @@ class GMS_logger(logging.Logger):
             print(inF.read())
 
     def __del__(self):
-        self.close()
+        try:
+            self.close()
+        except ValueError as e:
+            if str(e) == 'I/O operation on closed file':
+                pass
 
     def __enter__(self):
         return self

gms_preprocessing/version.py

@@ -24,5 +24,5 @@
 # You should have received a copy of the GNU Lesser General Public License along
 # with this program.  If not, see <http://www.gnu.org/licenses/>.
 
-__version__ = '0.18.4'
-__versionalias__ = '20200918.01'
+__version__ = '0.18.5'
+__versionalias__ = '20200925.01'

tests/CI_docker/context/environment_gms_preprocessing.yml

@@ -16,7 +16,7 @@ dependencies:
   - ipython
   - matplotlib
   - basemap
-  - scikit-learn=0.19.1  # pinned due to spechomo classifiers created with this version
+  - scikit-learn=0.23.2  # pinned due to spechomo classifiers created with this version
   - shapely
   - pyhdf
   - python-fmask
@@ -34,6 +34,8 @@ dependencies:
   - pyhdf
   - h5py
   - pytables
+  - numba
+  - llvmlite
 
   - pip:
     - dicttoxml