started to repopulate MDANSE

MDANSE/Core/ClassRegistry.py

+import abc
+
+class _Meta(type):
+    '''
+    Metaclass that allows to use the __getitem__ method at a class level for the class that has been built.
+     
+    The class that uses this metaclass must define a class attribute named _registry that will be used
+    by the __getitem__ method.
+    '''
+         
+    def __getitem__(self, item):
+        """
+        Returns a given item stored in the class registry
+        """
+         
+        return self._registry[item]
+    
+class ClassRegistry(abc.ABCMeta):
+    '''
+    Metaclass that registers the subclasses of bases classes.
+
+    The internal registry is defined as a nested dictionary whose keys 
+    are the |type| class attribute of the base classes and values another dictionary 
+    whose keys are the |type| class attribute of the subclasses and values are the corresponding 
+    class instances.
+
+    Hence any base or child class that does not define |type| class attribute will not be registered.
+    '''
+    
+    __metaclass__ = _Meta
+
+    __interfaces = []
+
+    _registry = {}
+                
+    def __init__(self, name, bases, namespace):
+        '''
+        Constructor of a class metaclassed by ClassFactory
+        
+        :param name: the name of the class to be built by this metaclass
+        :param bases: the base classes of the class to be built by this metaclass
+        :param namespace: the attributes and methods of the class to be built by this metaclass
+        '''
+        
+        super(ClassRegistry, self).__init__(name, bases, namespace)
+        
+        # Get the typ of the class
+        typ = getattr(self, 'type', None)
+                
+        if typ is None:
+            return
+
+        metaClass = namespace.get("__metaclass__", None)
+                
+        if metaClass is ClassRegistry:
+            ClassRegistry.__interfaces.append(self)
+            ClassRegistry._registry[typ] = {}
+
+        else:
+                                
+            for interface in ClassRegistry.__interfaces:
+                
+                if issubclass(self, interface):
+                    ClassRegistry._registry[interface.type][typ] = self
+                    break
+
+    @classmethod
+    def info(cls, interface):
+        '''
+        Returns informations about the subclasses of a given base class  stored in the registry.
+        
+        :param cls: the ClassRegsitry instance
+        :param interface: the name of base class of whom information about its subclasses is requested
+        '''
+                
+        if not cls._registry.has_key(interface):
+            return "The interface " + interface + " is not registered"
+
+        import inspect
+        import os
+
+        # Dictionnay whose keys are the package names and values and list of (job name, job path) stored in the corresponding package. 
+        packages = {}
+
+        # Loop over the registry items.
+        for k, v in cls._registry[interface].items():
+            
+            # Get the module corresponding to the job class.
+            mod = inspect.getmodule(v)
+
+            # The package hosting the module.
+            modPackage = mod.__package__
+        
+            # The module file.
+            modFilename = mod.__file__
+        
+            # If no package could be found, guess a name using the directory name of the module file.
+            if modPackage is None:
+                modPackage = os.path.split(os.path.dirname(modFilename))[1]
+        
+            # Update the packages dictionary.
+            if packages.has_key(modPackage):
+                packages[modPackage].append([k, v.__name__])
+            else:
+                packages[modPackage] = [[k, v.__name__]]
+    
+        contents = []
+        
+        # Print the contents of the packages dictionary.
+        contents.append("="*130)
+        contents.append("%-50s %-40s %-s" % ("Package", "Name", "Class"))
+        contents.append("="*130)
+        for k, v in sorted(packages.items()):
+            for vv in sorted(v): 
+                contents.append("%-50s %-40s %-s" % (k, vv[0], vv[1]))
+            contents.append('-' * 130)
+        
+        contents = "\n".join(contents)
+    
+        return contents
+

MDANSE/Core/Error.py

+"""
+This class implements the MDANSE error handler.
+
+It inherits from the Exception class. It can be used to filter the exceptions
+raised within the MDANSE framework
+"""
+
+class Error(Exception):
+    
+    def __init__(self, msg=None):
+            
+            self._msg = msg
+            
+    def __str__(self):
+                
+        return repr(self._msg)
+    

MDANSE/Core/Logger.py

+import logging
+import sys
+                    
+class Logger(object):
+
+    levels = {"debug"    : logging.DEBUG,
+              "info"     : logging.INFO,
+              "warning"  : logging.WARNING,
+              "error"    : logging.ERROR,
+              "fatal" : logging.CRITICAL,
+              "critical" : logging.FATAL
+              }
+
+    def __call__(self, message, level="info", loggers=None):
+
+        lvl = Logger.levels.get(level, None)
+
+        # If the logging level is unkwnown, skip that log
+        if lvl is None:
+            return
+    
+        if loggers is None:
+            loggers = logging.Logger.manager.loggerDict.keys()
+        else:
+            loggers = [n for n in loggers if logging.Logger.manager.loggerDict.has_key(n)]
+
+        for n in loggers:
+            logging.getLogger(n).log(lvl, message)
+
+    def start(self, logger=None):
+        
+        from nMOLDYN import _nmoldyn_excepthook
+        
+        sys.excepthook = _nmoldyn_excepthook
+
+        if loggers is None:
+            loggers = logging.Logger.manager.loggerDict.keys()
+        else:
+            loggers = [n for n in loggers if logging.Logger.manager.loggerDict.has_key(n)]
+
+        for n in loggers:
+            logging.getLogger(n).disabled = False
+
+    def stop(self, loggers=None):
+
+        sys.excepthook = _sys_excepthook
+
+        if loggers is None:
+            loggers = logging.Logger.manager.loggerDict.keys()
+        else:
+            loggers = [n for n in loggers if logging.Logger.manager.loggerDict.has_key(n)]
+
+        for n in loggers:
+            logging.getLogger(n).disabled = True
+
+    def set_level(self, level, loggers=None):
+        
+        lvl = Logger.levels.get(level, None)
+        if lvl is None:
+            return
+
+        if loggers is None:
+            loggers = logging.Logger.manager.loggerDict.keys()
+        else:
+            loggers = [n for n in loggers if logging.Logger.manager.loggerDict.has_key(n)]
+
+        for loggerName in loggers:
+            logging.getLogger(loggerName).setLevel(lvl)
+
+    def add_logger(self, name, handler, level="error"):
+
+        if logging.Logger.manager.loggerDict.has_key(name):
+            return
+
+        logging.getLogger(name).addHandler(handler)
+                
+        self.set_level(level, loggers=[name])

MDANSE/Core/Singleton.py

+'''
+MDANSE : Molecular Dynamics Analysis for Neutron Scattering Experiments
+------------------------------------------------------------------------------------------
+Copyright (C)
+2015- Eric C. Pellegrini Institut Laue-Langevin
+BP 156
+6, rue Jules Horowitz
+38042 Grenoble Cedex 9
+France
+pellegrini[at]ill.fr
+
+This library is free software; you can redistribute it and/or
+modify it under the terms of the GNU Lesser General Public
+License as published by the Free Software Foundation; either
+version 2.1 of the License, or (at your option) any later version.
+
+This library is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty of
+MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
+Lesser General Public License for more details.
+
+You should have received a copy of the GNU Lesser General Public
+License along with this library; if not, write to the Free Software
+Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301  USA
+ 
+Created on Mar 23, 2015
+
+@author: pellegrini
+'''
+
+class Singleton(type):
+
+    __instances = {}
+    
+    def __call__(self, *args, **kwargs):
+    
+        if self not in self.__instances:
+            self.__instances[self] = super(Singleton, self).__call__(*args, **kwargs)
+            
+        return self.__instances[self]