clean up tests and folders

src/data/Accumulation.py

@@ -65,7 +65,7 @@ class Accumulation(Errorable, Drawable, DamarisFFT, Signalpath):
         self.common_descriptions=None
         self.time_period=[]
         self.job_id = None  # this does not make sense for an object accumulated from multiple job_ids
-        self.job_ids = []
+        self.job_ids = {}
 
         self.use_error = error
         if self.uses_statistics():
@@ -498,8 +498,8 @@ class Accumulation(Errorable, Drawable, DamarisFFT, Signalpath):
                                                 expectedrows=len(self.job_ids))
                 new_row=jobid_table.row
                 for i,job_id in enumerate(self.job_ids):
+                    new_row["job_date"] = self.job_ids[job_id].isoformat(timespec='milliseconds')
                     new_row["job_id"]=job_id
-                    new_row["job_date"]="Not Implemented"
                     new_row.append()
                 jobid_table.flush()
                 # end save job_ids
@@ -616,7 +616,7 @@ class Accumulation(Errorable, Drawable, DamarisFFT, Signalpath):
                     r = Accumulation(x = numpy.array(self.x, dtype="float32"), y = tmp_y, y_2 = tmp_ysquare, n = self.n, index = self.index, sampl_freq = self.sampling_rate, error = self.use_error)
                 else:
                     r = Accumulation(x = numpy.array(self.x, dtype="float32"), y = tmp_y, n = self.n, index = self.index, sampl_freq = self.sampling_rate, error = self.use_error)
-                r.job_id = self.job_id      # added by Oleg Petrov
+                r.job_id = self.job_id
                 self.lock.release()
                 return r
 
@@ -626,7 +626,7 @@ class Accumulation(Errorable, Drawable, DamarisFFT, Signalpath):
             # todo: this is seems to be bugy!!!! (Achim)
             if not other.contains_data():
                 return
-            # Self empty (copy)
+            # Self empty (copy ADC_Result)
             if not self.contains_data():
                 tmp_y = []
                 tmp_ysquare = []
@@ -645,11 +645,11 @@ class Accumulation(Errorable, Drawable, DamarisFFT, Signalpath):
                 r.time_period=[other.job_date,other.job_date]
                 r.job_id = other.job_id
                 r.common_descriptions=other.description.copy()
-                r.job_ids.append(other.job_id)
+                r.job_ids[other.job_id] = other.get_job_date()
                 self.lock.release()
                 return r
 
-            # Other and self not empty (self + other)
+            # Other and self not empty (self + other ADC_Result)
             else:
                 self.lock.acquire()
                 
@@ -679,7 +679,7 @@ class Accumulation(Errorable, Drawable, DamarisFFT, Signalpath):
                                max(self.time_period[1],other.job_date)]
                 r.job_id = other.job_id
                 r.job_ids = self.job_ids
-                r.job_ids.append(other.job_id)
+                r.job_ids[other.job_id] = other.get_job_date()
 
                 if self.common_descriptions is not None:
                     r.common_descriptions={}
@@ -712,11 +712,11 @@ class Accumulation(Errorable, Drawable, DamarisFFT, Signalpath):
                     tmp_ysquare.append(other.y_square[i])
                 r.time_period=other.time_period[:]
                 r.job_id = other.job_id
+                r.job_ids = other.job_ids
                 if other.common_descriptions is not None:
                     r.common_descriptions=other.common_descriptions.copy()
                 else:
                     r.common_descriptions=None
-
                 self.lock.release()
                 return r
 
@@ -750,7 +750,9 @@ class Accumulation(Errorable, Drawable, DamarisFFT, Signalpath):
 
                 r.time_period=[min(self.time_period[0],other.time_period[0]),
                                max(self.time_period[1],other.time_period[1])]
-                r.job_id = other.job_id      # added by Oleg Petrov
+                r.job_id = other.job_id
+                for i in other.job_ids:
+                    r.job_ids[i] = other.job_ids[i]
                 r.common_descriptions={}
                 if self.common_descriptions is not None and other.common_descriptions is not None:
                     for key in list(self.common_descriptions.keys()):
@@ -817,13 +819,13 @@ class Accumulation(Errorable, Drawable, DamarisFFT, Signalpath):
 
                 self.time_period=[other.job_date,other.job_date]
                 self.job_id = other.job_id      # added by Oleg Petrov
-                self.job_ids.append(other.job_id)
+                self.job_ids[other.job_id] = other.get_job_date()
                 self.common_descriptions=other.description.copy()
 
                 return self
 
 
-            # Other and self not empty (self + other)
+            # Other and self not empty (self + other/ADC_Result)
             else:
                 self.lock.acquire()
 
@@ -847,15 +849,14 @@ class Accumulation(Errorable, Drawable, DamarisFFT, Signalpath):
                                   max(self.time_period[1],other.job_date)]
 
                 self.job_id = other.job_id
-                self.job_ids.append(other.job_id)
+
+                self.job_ids[other.job_id] = other.get_job_date()
                 if self.common_descriptions is not None:
                     for key in list(self.common_descriptions.keys()):
                         if not (key in other.description and self.common_descriptions[key]==other.description[key]):
                             del self.common_descriptions[key]
-
                 self.set_title(self.__title_pattern % self.n)
                 self.lock.release()
-
                 return self
 
         # Accumulation

src/gui/DamarisGUI.py

@@ -905,9 +905,12 @@ class DamarisGUI:
         last_end = logtextbuffer.get_mark( "lastdumped" )
         if last_end is None:
             last_end = logtextbuffer.create_mark( "lastdumped", logtextbuffer.get_start_iter( ), left_gravity=True )
-        logtext_start = logtextbuffer.get_iter_at_mark( last_end )
+        #logtext_start = logtextbuffer.get_iter_at_mark( last_end )
         logtext_end = logtextbuffer.get_end_iter( )
         logtextbuffer.move_mark( last_end, logtext_end )
+        # Create new iterators after the mark move
+        logtext_start = logtextbuffer.get_iter_at_mark( last_end )
+        logtext_end = logtextbuffer.get_end_iter( )
         # recode from unicode
         logtext = logtextbuffer.get_text( logtext_start, logtext_end, True )
         # avoid circular references (seems to be necessary with gtk-2.12)

src/gui/ResultReader.py

@@ -56,11 +56,14 @@ class ResultReader:
             yield self.get_result_object(expected_filename)
             # purge result file
             if self.clear_results:
-                if os.path.isfile(expected_filename): os.remove(expected_filename)
+                if os.path.isfile(expected_filename):
+                    os.remove(expected_filename)
             if self.clear_jobs:
-                if os.path.isfile(expected_filename[:-7]): os.remove(expected_filename[:-7])
+                # job_name.result -> job_name
+                if os.path.isfile(expected_filename[:-7]):
+                    os.remove(expected_filename[:-7])
             self.no+=1
-            expected_filename=os.path.join(self.spool_dir,self.result_pattern%(self.no))
+            expected_filename=os.path.join(self.spool_dir, self.result_pattern % self.no)
         return
 
     def get_result_object(self, in_filename):
@@ -80,8 +83,10 @@ class ResultReader:
                 time.sleep(0.05)
                 retries+=1
 
-        # get date of last modification 
-        self.result_job_date = datetime.fromtimestamp(os.stat(in_filename)[8])
+        # get date of last modification
+        stat_result = os.stat(in_filename)
+        mtime = stat_result.st_mtime
+        self.result_job_date = datetime.fromtimestamp(mtime)
         if ELEMENT_TREE:
             self.__parseFile = self.__parseFile_cETree
         else:
@@ -155,7 +160,7 @@ class ResultReader:
                     self.result.set_nChannels(int(elem.get("channels")))
 
                     self.result.set_description_dictionary(self.result_description.copy())
-                    title = "ADC-Result: job-id=%d"%int(self.result_job_number)
+                    title = "ADC_Result: job-id=%d"%int(self.result_job_number)
                     if len(self.result_description) > 0:
                         for k,v in self.result_description.items():
                             title += ", %s=%s"%(k,v)
@@ -166,22 +171,19 @@ class ResultReader:
                 else:
                     if float(elem.get("rate")) != self.result.get_sampling_rate():
                         print("sample rate different in ADC_Result, found %f, former value %f"%\
-                                  (float(in_attribute["rate"]),self.result.get_sampling_rate()))
+                                  (float(elem.get("rate")),self.result.get_sampling_rate()))
                 new_samples = int(elem.get("samples"))
                 self.adc_result_sample_counter += new_samples
-                
+
+                # extract adcdata (here base64 encoded)
                 self.adc_result_trailing_chars = "".join(elem.text.splitlines())
                 tmp_string = base64.standard_b64decode(self.adc_result_trailing_chars)
-                self.adc_result_trailing_chars =  None
-                tmp = numpy.fromstring(tmp_string,dtype='int16')
-                tmp_string = None
+
+                tmp = numpy.fromstring(tmp_string, dtype='int16')
                 self.adc_result_parts.append(tmp)
-                tmp = None
                 # we do not need this adcdata anymore, delete it
                 elem.clear()
 
-       
-
             elif elem.tag == 'error':
                 self.__filetype = ResultReader.ERROR_TYPE