fix return-value/deprecated API bugs, accumulation lock leaks, code cleanup

- raise instead of silent None for unsupported operands and empty negation
- validate before acquiring lock in Accumulation operators (no RLock leak)
- Accumulation._copy_provenance helper, ADC_Result._copy_metadata for all result paths
- shared _sandbox_stdout_redirect contextmanager for sandboxed scripts
- TemperatureMonitor dead code removal (gtk helper, traceback, unused properties)
- new unit tests incl. lock-freedom regression test
- gitignore sphinx generated doc/_autosummary/ and doc/damaris/

src/damaris/gui/ResultReader.py

@@ -15,7 +15,7 @@ import base64
 import numpy
 
 try:
-    import xml.etree.cElementTree
+    import xml.etree.ElementTree
     ELEMENT_TREE = True
 except:
     import xml.parsers.expat
@@ -109,7 +109,7 @@ class ResultReader:
         self.result_job_number = None
         # Job Date is set in __read_file()
         self.__filetype = None
-        for elem in xml.etree.cElementTree.ElementTree(file=in_file).iter():
+        for elem in xml.etree.ElementTree.ElementTree(file=in_file).iter():
             if elem.tag == 'result':
                 self.result_job_number = int(elem.get("job"))
                 pass
@@ -542,7 +542,7 @@ class BlockingResultReader(ResultReader):
         block until result is available
         """
         expected_filename=os.path.join(self.spool_dir,self.result_pattern%(self.no))
-        while (not self.quit_flag.isSet()) and (self.stop_no is None or self.stop_no>self.no):
+        while (not self.quit_flag.is_set()) and (self.stop_no is None or self.stop_no>self.no):
             if not os.access(expected_filename,os.R_OK):
                 # stop polling, if required
                 if self.poll_time<0: break
@@ -558,11 +558,11 @@ class BlockingResultReader(ResultReader):
                 self.in_advance+=1
                 in_advance_filename=os.path.join(self.spool_dir,self.result_pattern%(self.in_advance+1))
 
-            if self.quit_flag.isSet(): break
+            if self.quit_flag.is_set(): break
             r=self.get_result_object(expected_filename)
-            if self.quit_flag.isSet(): break
+            if self.quit_flag.is_set(): break
             
-            if self.quit_flag.isSet(): break
+            if self.quit_flag.is_set(): break
             yield r
             
             if self.clear_results: