src/python/dm/ds_web_service/service/dsWebServiceRouteMapper.py

+#!/usr/bin/env python
+
+#
+# Route mapper for DM DS web service.
+#
+
+import sys
+import os
+
+import cherrypy
+from dm.common.utility.loggingManager import LoggingManager
+from dm.common.utility.configurationManager import ConfigurationManager
+from dm.common.service.loginRouteDescriptor import LoginRouteDescriptor
+from userRouteDescriptor import UserRouteDescriptor
+from experimentRouteDescriptor import ExperimentRouteDescriptor
+from fileRouteDescriptor import FileRouteDescriptor
+from authRouteDescriptor import AuthRouteDescriptor
+
+class DsWebServiceRouteMapper:
+
+    @classmethod
+    def setupRoutes(cls):
+        """ Setup RESTFul routes. """
+        logger = LoggingManager.getInstance().getLogger(cls.__name__)
+        contextRoot = ConfigurationManager.getInstance().getContextRoot()
+        logger.debug('Using context root: %s' % contextRoot)
+
+        # Get routes.
+        routes = LoginRouteDescriptor.getRoutes() 
+        routes += AuthRouteDescriptor.getRoutes()
+        routes += UserRouteDescriptor.getRoutes()
+        routes += ExperimentRouteDescriptor.getRoutes()
+        routes += FileRouteDescriptor.getRoutes()
+
+        # Add routes to dispatcher. 
+        d = cherrypy.dispatch.RoutesDispatcher()
+        for route in routes:
+            logger.debug('Connecting route: %s' % route)
+            d.connect(route['name'], route['path'], action=route['action'], controller=route['controller'], conditions=dict(method=route['method']))
+        return d
+
+

src/python/dm/ds_web_service/service/experimentRouteDescriptor.py

+#!/usr/bin/env python
+
+#
+# Experiment route descriptor.
+#
+
+from dm.common.utility.configurationManager import ConfigurationManager
+from experimentSessionController import ExperimentSessionController
+
+class ExperimentRouteDescriptor:
+
+    @classmethod
+    def getRoutes(cls):
+        contextRoot = ConfigurationManager.getInstance().getContextRoot()
+
+        # Static instances shared between different routes
+        experimentSessionController = ExperimentSessionController()
+
+        # Define routes.
+        routes = [
+
+            # Get experiment types
+            {
+                'name' : 'getExperimentTypes',
+                'path' : '%s/experimentTypes' % contextRoot,
+                'controller' : experimentSessionController,
+                'action' : 'getExperimentTypes',
+                'method' : ['GET']
+            },
+
+            # Get experiments
+            {
+                'name' : 'getExperiments',
+                'path' : '%s/experiments' % contextRoot,
+                'controller' : experimentSessionController,
+                'action' : 'getExperiments',
+                'method' : ['GET']
+            },
+
+            # Get experiment
+            {
+                'name' : 'getExperimentById',
+                'path' : '%s/experiments/:(id)' % contextRoot,
+                'controller' : experimentSessionController,
+                'action' : 'getExperimentById',
+                'method' : ['GET']
+            },
+
+            # Get experiment
+            {
+                'name' : 'getExperimentByName',
+                'path' : '%s/experimentsByName/:(name)' % contextRoot,
+                'controller' : experimentSessionController,
+                'action' : 'getExperimentByName',
+                'method' : ['GET']
+            },
+
+            # Add experiment
+            {
+                'name' : 'addExperiment',
+                'path' : '%s/experiments' % contextRoot,
+                'controller' : experimentSessionController,
+                'action' : 'addExperiment',
+                'method' : ['POST']
+            },
+
+            # Start experiment
+            {
+                'name' : 'startExperiment',
+                'path' : '%s/experiments/start' % contextRoot,
+                'controller' : experimentSessionController,
+                'action' : 'startExperiment',
+                'method' : ['PUT']
+            },
+
+            # Update experiment
+            {
+                'name' : 'updateExperiment',
+                'path' : '%s/experiments/update' % contextRoot,
+                'controller' : experimentSessionController,
+                'action' : 'updateExperiment',
+                'method' : ['PUT']
+            },
+
+            # Stop experiment
+            {
+                'name' : 'stopExperiment',
+                'path' : '%s/experiments/stop' % contextRoot,
+                'controller' : experimentSessionController,
+                'action' : 'stopExperiment',
+                'method' : ['PUT']
+            },
+
+        ]
+       
+        return routes
+
+

src/python/dm/ds_web_service/service/experimentSessionController.py

+#!/usr/bin/env python
+
+import cherrypy
+
+from dm.common.service.dmSessionController import DmSessionController
+from dm.common.exceptions.invalidRequest import InvalidRequest
+from dm.common.utility.encoder import Encoder
+
+from dm.ds_web_service.service.impl.experimentSessionControllerImpl import ExperimentSessionControllerImpl
+
+
+class ExperimentSessionController(DmSessionController):
+
+    def __init__(self):
+        DmSessionController.__init__(self)
+        self.experimentSessionControllerImpl = ExperimentSessionControllerImpl()
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isLoggedIn())
+    @DmSessionController.execute
+    def getExperimentTypes(self, **kwargs):
+        return self.listToJson(self.experimentSessionControllerImpl.getExperimentTypes())
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def getExperiments(self, **kwargs):
+        return self.listToJson(self.experimentSessionControllerImpl.getExperiments())
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def getExperimentByName(self, name, **kwargs):
+        response = self.experimentSessionControllerImpl.getExperimentByName(name).getFullJsonRep()
+        self.logger.debug('Returning: %s' % response)
+        return response
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def getExperimentById(self, id, **kwargs):
+        response = self.experimentSessionControllerImpl.getExperimentByid(id).getFullJsonRep()
+        self.logger.debug('Returning: %s' % response)
+        return response
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def addExperiment(self, **kwargs):
+        name = kwargs.get('name')
+        if name is None or not len(name):
+            raise InvalidRequest('Missing experiment name.')
+        name = Encoder.decode(name)
+        experimentTypeId = kwargs.get('experimentTypeId')
+        if experimentTypeId is None:
+            raise InvalidRequest('Missing experiment type id.')
+        description = kwargs.get('description')
+        if description is not None:
+            description = Encoder.decode(description)
+        startDate = kwargs.get('startDate')
+        if startDate is not None:
+            startDate = Encoder.decode(startDate)
+        endDate = kwargs.get('endDate')
+        if endDate is not None:
+            endDate = Encoder.decode(endDate)
+        response = self.experimentSessionControllerImpl.addExperiment(name, experimentTypeId, description, startDate, endDate).getFullJsonRep()
+        self.logger.debug('Returning: %s' % response)
+        return response
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def startExperiment(self, **kwargs):
+        name = kwargs.get('name')
+        if name is None or not len(name):
+            raise InvalidRequest('Missing experiment name.')
+        name = Encoder.decode(name)
+        response = self.experimentSessionControllerImpl.startExperiment(name).getFullJsonRep()
+        self.logger.debug('Returning: %s' % response)
+        return response
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def updateExperiment(self, **kwargs):
+        name = kwargs.get('name')
+        if name is None or not len(name):
+            raise InvalidRequest('Missing experiment name.')
+        name = Encoder.decode(name)
+        response = self.experimentSessionControllerImpl.updateExperiment(name).getFullJsonRep()
+        self.logger.debug('Returning: %s' % response)
+        return response
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def stopExperiment(self, **kwargs):
+        name = kwargs.get('name')
+        if name is None or not len(name):
+            raise InvalidRequest('Missing experiment name.')
+        name = Encoder.decode(name)
+        response = self.experimentSessionControllerImpl.stopExperiment(name).getFullJsonRep()
+        self.logger.debug('Returning: %s' % response)
+        return response
+

src/python/dm/ds_web_service/service/fileRouteDescriptor.py

+#!/usr/bin/env python
+
+#
+# File route descriptor.
+#
+
+from dm.common.utility.configurationManager import ConfigurationManager
+from fileSessionController import FileSessionController
+
+class FileRouteDescriptor:
+
+    @classmethod
+    def getRoutes(cls):
+        contextRoot = ConfigurationManager.getInstance().getContextRoot()
+
+        # Static instances shared between different routes
+        fileSessionController = FileSessionController()
+
+        # Define routes.
+        routes = [
+
+            # Process file
+            {
+                'name' : 'processFile',
+                'path' : '%s/files/processFile' % contextRoot,
+                'controller' : fileSessionController,
+                'action' : 'processFile',
+                'method' : ['POST']
+            },
+
+            # Stat file
+            {
+                'name' : 'statFile',
+                'path' : '%s/files/statFile' % contextRoot,
+                'controller' : fileSessionController,
+                'action' : 'statFile',
+                'method' : ['POST']
+            },
+
+        ]
+       
+        return routes
+
+

src/python/dm/ds_web_service/service/fileSessionController.py

+#!/usr/bin/env python
+
+import cherrypy
+import json
+
+from dm.common.service.dmSessionController import DmSessionController
+from dm.common.exceptions.invalidRequest import InvalidRequest
+from dm.common.utility.encoder import Encoder
+
+from dm.ds_web_service.service.impl.fileSessionControllerImpl import FileSessionControllerImpl
+
+
+class FileSessionController(DmSessionController):
+
+    def __init__(self):
+        DmSessionController.__init__(self)
+        self.fileSessionControllerImpl = FileSessionControllerImpl()
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def processFile(self, **kwargs):
+        encodedFileInfo = kwargs.get('fileInfo')
+        if not encodedFileInfo:
+            raise InvalidRequest('Invalid file info provided.')
+        fileInfo = json.loads(Encoder.decode(encodedFileInfo))
+
+        if not fileInfo.has_key('experimentFilePath'):
+            raise InvalidRequest('Experiment file path is missing.')
+        if not fileInfo.has_key('experimentName'):
+            raise InvalidRequest('Experiment name is missing.')
+        response = self.fileSessionControllerImpl.processFile(fileInfo).getFullJsonRep()
+        self.logger.debug('Returning: %s' % response)
+        return response
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def statFile(self, **kwargs):
+        encodedFileInfo = kwargs.get('fileInfo')
+        if not encodedFileInfo:
+            raise InvalidRequest('Invalid file info provided.')
+        fileInfo = json.loads(Encoder.decode(encodedFileInfo))
+
+        if not fileInfo.has_key('experimentFilePath'):
+            raise InvalidRequest('Experiment file path is missing.')
+        if not fileInfo.has_key('experimentName'):
+            raise InvalidRequest('Experiment name is missing.')
+        response = self.fileSessionControllerImpl.statFile(fileInfo).getFullJsonRep()
+        self.logger.debug('Returning: %s' % response)
+        return response

src/python/dm/ds_web_service/service/impl/authSessionControllerImpl.py

+#!/usr/bin/env python
+
+#
+# Implementation for user info controller.
+#
+
+import datetime
+import cherrypy
+from dm.common.constants import dmRole
+from dm.common.objects.authorizationPrincipal import AuthorizationPrincipal 
+from dm.common.objects.dmObjectManager import DmObjectManager
+from dm.common.objects.dmSession import DmSession
+from dm.common.db.api.userDbApi import UserDbApi
+from dm.common.exceptions.objectNotFound import ObjectNotFound
+
+class AuthSessionControllerImpl(DmObjectManager):
+    """ User info controller implementation class. """
+
+    def __init__(self):
+        DmObjectManager.__init__(self)
+        self.userDbApi = UserDbApi()
+
+    def getAuthorizationPrincipal(self, username):
+        user = self.userDbApi.getUserWithPasswordByUsername(username)
+        principal = AuthorizationPrincipal(name=username, token=user.get('password'))
+        principal.setRole(dmRole.DM_USER_ROLE)
+        principal.setUserInfo(user)
+        for userSystemRoleName in user.get('userSystemRoleNameList', []):
+            if userSystemRoleName == dmRole.DM_ADMIN_ROLE:
+                principal.setRole(dmRole.DM_ADMIN_ROLE)
+        return principal
+
+    def addSession(self, sessionId, sessionInfo):
+        sessionCache = cherrypy.session.cache
+        self.logger.debug('Session cache length: %s' % (len(sessionCache)))
+        sessionCache[sessionId] = (sessionInfo, datetime.datetime.now())
+        self.logger.debug('Session cache: %s' % (sessionCache))
+        return DmSession(sessionInfo)
+
+    def checkSession(self, sessionId):
+        sessionCache = cherrypy.session.cache
+        sessionTuple = sessionCache.get(sessionId)
+        if not sessionTuple:
+            raise ObjectNotFound('Session %s not found in cache.' % sessionId)
+        sessionInfo = sessionTuple[0]
+        oldTimestamp = sessionTuple[1]
+        newTimestamp = datetime.datetime.now()
+        self.logger.debug('Updated timestamp from %s to %s for session id %s' % (oldTimestamp, newTimestamp, sessionId))
+        sessionCache[sessionId] = (sessionInfo, newTimestamp)
+        return DmSession(sessionInfo)
+

src/python/dm/ds_web_service/service/impl/experimentManager.py

+#!/usr/bin/env python
+
+import threading
+import time
+import os
+
+from dm.common.utility.loggingManager import LoggingManager
+from dm.common.utility.configurationManager import ConfigurationManager
+from dm.common.utility.singleton import Singleton
+from dm.common.utility.osUtility import OsUtility
+from dm.common.utility.valueUtility import ValueUtility
+from dm.common.utility.objectUtility import ObjectUtility
+from dm.common.utility.threadingUtility import ThreadingUtility
+from dm.common.utility.fileUtility import FileUtility
+from dm.common.db.api.experimentDbApi import ExperimentDbApi
+from dm.common.processing.fileProcessingManager import FileProcessingManager
+from dm.common.exceptions.objectNotFound import ObjectNotFound
+
+class ExperimentManager(Singleton):
+
+    CONFIG_SECTION_NAME = 'ExperimentManager'
+    STORAGE_DIRECTORY_KEY = 'storagedirectory'
+    MANAGE_STORAGE_PERMISSIONS_KEY = 'managestoragepermissions'
+    PLATFORM_UTILITY_KEY = 'platformutility'
+
+    FILE_PERMISSIONS_MODE = 0640
+    DIR_PERMISSIONS_MODE = 0750
+
+    # Singleton.
+    __instanceLock = threading.RLock()
+    __instance = None
+
+    def __init__(self):
+        ExperimentManager.__instanceLock.acquire()
+        try:
+            if ExperimentManager.__instance:
+                return
+            ExperimentManager.__instance = self
+            self.logger = LoggingManager.getInstance().getLogger(self.__class__.__name__)
+
+            self.logger.debug('Initializing')
+            self.lock = threading.RLock()
+            self.experimentDbApi = ExperimentDbApi()
+            self.platformUtility = None
+            self.__configure()
+            self.fileProcessingManager = FileProcessingManager.getInstance()
+            self.logger.debug('Initialization complete')
+        finally:
+            ExperimentManager.__instanceLock.release()
+
+    def __configure(self):
+        cm = ConfigurationManager.getInstance()
+        configItems = cm.getConfigItems(ExperimentManager.CONFIG_SECTION_NAME)
+        self.logger.debug('Got config items: %s' % configItems)
+        self.storageDirectory =cm.getConfigOption(ExperimentManager.CONFIG_SECTION_NAME, ExperimentManager.STORAGE_DIRECTORY_KEY) 
+        self.manageStoragePermissions = ValueUtility.toBoolean(cm.getConfigOption(ExperimentManager.CONFIG_SECTION_NAME, ExperimentManager.MANAGE_STORAGE_PERMISSIONS_KEY))
+        platformUtility = cm.getConfigOption(ExperimentManager.CONFIG_SECTION_NAME, ExperimentManager.PLATFORM_UTILITY_KEY)
+        if platformUtility:
+            (moduleName,className,constructor) = cm.getModuleClassConstructorTuple(platformUtility)
+            self.logger.debug('Creating platform utility class %s' % className)
+            self.platformUtility = ObjectUtility.createObjectInstance(moduleName, className, constructor)
+                                                                            
+        self.logger.debug('Manage storage permissions: %s' % self.manageStoragePermissions)
+
+    def __getExperimentStorageDataDirectory(self, experiment):
+        experimentTypeName = experiment.get('experimentType').get('rootDataPath')
+        experimentName = experiment.get('name')
+        storageDirectory = '%s/%s/%s' % (self.storageDirectory, experimentTypeName, experimentName)
+        storageDirectory = os.path.normpath(storageDirectory)
+        return storageDirectory
+
+    @ThreadingUtility.synchronize
+    def updateExperimentWithStorageDataDirectory(self, experiment):
+        storageDirectory = self.__getExperimentStorageDataDirectory(experiment)
+        if os.path.exists(storageDirectory):
+            experiment['storageDirectory'] = storageDirectory
+            experiment['storageHost'] = ConfigurationManager.getInstance().getHost()
+        return storageDirectory
+
+    def addUserToGroup(self, username, experimentName):
+        experiment = self.experimentDbApi.getExperimentWithUsers(experimentName)
+        storageDirectory = self.__getExperimentStorageDataDirectory(experiment)
+        if os.path.exists(storageDirectory):
+            self.platformUtility.addUserToGroup(username, experimentName)
+
+    def deleteUserFromGroup(self, username, experimentName):
+        experiment = self.experimentDbApi.getExperimentWithUsers(experimentName)
+        storageDirectory = self.__getExperimentStorageDataDirectory(experiment)
+        if os.path.exists(storageDirectory):
+            experimentUsers = experiment.get('experimentUsernameList', [])
+            self.platformUtility.setGroupUsers(experimentName, experimentUsers)
+
+    def createExperimentGroup(self, experiment):
+        experimentName = experiment.get('name')
+        storageDirectory = experiment.get('storageDirectory')
+
+        # Create experiment group
+        self.platformUtility.createGroup(experimentName)
+        self.logger.debug('Setting permissions for %s to %s' % (storageDirectory, self.DIR_PERMISSIONS_MODE))
+        OsUtility.chmodPath(storageDirectory, dirMode=self.DIR_PERMISSIONS_MODE)
+        self.logger.debug('Changing group owner for %s to %s' % (storageDirectory, experimentName))
+        self.platformUtility.changePathGroupOwner(storageDirectory, experimentName)
+
+        # Add users to group
+        experimentUsers = experiment.get('experimentUsernameList', [])
+        self.logger.debug('Found experiment users: %s', experimentUsers)
+        self.platformUtility.setGroupUsers(experimentName, experimentUsers)
+      
+    def updateExperimentGroupUsers(self, experiment):
+        experimentName = experiment.get('name')
+        experimentUsers = experiment.get('experimentUsernameList', [])
+        self.platformUtility.setGroupUsers(experimentName, experimentUsers)
+
+    @ThreadingUtility.synchronize
+    def createExperimentDataDirectory(self, experiment):
+        experimentName = experiment.get('name')
+        storageDirectory = self.__getExperimentStorageDataDirectory(experiment)
+        if os.path.exists(storageDirectory):
+            self.logger.debug('Data directory %s for experiment %s already exists' % (storageDirectory, experimentName))
+        else:
+            self.logger.debug('Creating data directory for experiment %s: %s' % (experimentName, storageDirectory))
+            OsUtility.createDir(storageDirectory)
+        experiment['storageDirectory'] = storageDirectory
+        experiment['storageHost'] = ConfigurationManager.getInstance().getHost()
+        if self.manageStoragePermissions:
+            self.createExperimentGroup(experiment)
+      
+    @ThreadingUtility.synchronize
+    def processExperimentFile(self, experimentFilePath, experiment, fileInfo={}):
+        experimentName = experiment.get('name')
+        self.updateExperimentWithStorageDataDirectory(experiment)
+        storageDirectory = experiment.get('storageDirectory')
+        filePath = os.path.join(storageDirectory, experimentFilePath)
+        fileInfo['filePath'] = filePath
+        fileInfo['experiment'] = experiment
+        if os.path.exists(filePath):
+            self.logger.debug('Processing file path %s (fileInfo: %s)' % (filePath, fileInfo))
+            if self.manageStoragePermissions:
+                self.logger.debug('Modifying permissions for %s' % filePath)
+                OsUtility.chmodPath(filePath, fileMode=self.FILE_PERMISSIONS_MODE)
+                self.logger.debug('Changing group owner for %s to %s' % (filePath, experimentName))
+                self.platformUtility.changePathGroupOwner(filePath, experimentName)
+                self.logger.debug('Processing file %s' % filePath)
+                self.fileProcessingManager.processFile(fileInfo)
+        else:
+            self.logger.debug('File path %s does not exist' % filePath)
+
+    def statExperimentFile(self, experimentFilePath, experiment, fileInfo={}):
+        experimentName = experiment.get('name')
+        self.updateExperimentWithStorageDataDirectory(experiment)
+        storageDirectory = experiment.get('storageDirectory')
+        filePath = os.path.join(storageDirectory, experimentFilePath)
+        fileInfo['filePath'] = filePath
+        if os.path.exists(filePath):
+            self.logger.debug('Getting stat for file path %s' % (filePath))
+            FileUtility.statFile(filePath, fileInfo)
+            FileUtility.getMd5Sum(filePath, fileInfo)
+            self.logger.debug('File Info after stat: %s' % (fileInfo))
+        else:
+            self.logger.debug('File path %s does not exist' % filePath)
+            raise ObjectNotFound('File %s does not exist' % filePath)
+
+    @ThreadingUtility.synchronize
+    def start(self):
+        self.logger.debug('Started experiment manager')
+
+    @ThreadingUtility.synchronize
+    def stop(self):
+        self.logger.debug('Stopped experiment manager')
+
+####################################################################
+# Testing
+
+if __name__ == '__main__':
+    em = ExperimentManager.getInstance()
+    print em
+

src/python/dm/ds_web_service/service/impl/experimentSessionControllerImpl.py

+#!/usr/bin/env python
+
+#
+# Implementation for experiment session controller.
+#
+
+import time
+
+from dm.common.objects.experiment import Experiment
+from dm.common.objects.dmObjectManager import DmObjectManager
+from dm.common.exceptions.invalidRequest import InvalidRequest
+from dm.common.db.api.experimentDbApi import ExperimentDbApi
+from dm.ds_web_service.service.impl.experimentManager import ExperimentManager
+
+class ExperimentSessionControllerImpl(DmObjectManager):
+    """ Experiment session controller implementation class. """
+
+    def __init__(self):
+        DmObjectManager.__init__(self)
+        self.experimentDbApi = ExperimentDbApi()
+
+    def getExperimentTypes(self):
+        experimentTypeList = self.experimentDbApi.getExperimentTypes()
+        return experimentTypeList
+
+    def getExperiments(self):
+        experimentList = self.experimentDbApi.getExperiments()
+        return experimentList
+
+    def getExperimentByName(self, name):
+        experiment = self.experimentDbApi.getExperimentWithUsers(name)
+        ExperimentManager.getInstance().updateExperimentWithStorageDataDirectory(experiment)
+        return experiment
+
+    def getExperimentById(self, id):
+        experiment = self.experimentDbApi.getExperimentById(id)
+        ExperimentManager.getInstance().updateExperimentWithStorageDataDirectory(experiment)
+        return experiment
+
+    def addExperiment(self, name, experimentTypeId, description, startDate, endDate):
+        experiment = self.experimentDbApi.addExperiment(name, experimentTypeId, description, startDate, endDate)
+        return experiment
+
+    def startExperiment(self, name):
+        experiment = self.experimentDbApi.getExperimentWithUsers(name)
+        if experiment.get('startDate') is None:
+            experiment2 = self.experimentDbApi.setExperimentStartDateToNow(name)
+            experiment['startDate'] = experiment2['startDate']
+        ExperimentManager.getInstance().createExperimentDataDirectory(experiment)
+        return experiment
+
+    def updateExperiment(self, name):
+        experiment = self.experimentDbApi.getExperimentWithUsers(name)
+        if experiment.get('startDate') is None:
+            raise InvalidRequest('Experiment %s has not been started.' % name)
+        ExperimentManager.getInstance().updateExperimentGroupUsers(experiment)
+        return experiment
+
+    def stopExperiment(self, name):
+        experiment = self.experimentDbApi.getExperimentByName(name)
+        if experiment.get('endDate') is None:
+            experiment = self.experimentDbApi.setExperimentEndDateToNow(name)
+        ExperimentManager.getInstance().updateExperimentWithStorageDataDirectory(experiment)
+        return experiment
+

src/python/dm/ds_web_service/service/impl/fileSessionControllerImpl.py

+#!/usr/bin/env python
+
+#
+# Implementation for file session controller.
+#
+
+import time
+
+from dm.common.objects.dmObjectManager import DmObjectManager
+from dm.common.exceptions.invalidRequest import InvalidRequest
+from dm.common.objects.fileMetadata import FileMetadata
+from dm.common.db.api.experimentDbApi import ExperimentDbApi
+from dm.ds_web_service.service.impl.experimentManager import ExperimentManager
+
+class FileSessionControllerImpl(DmObjectManager):
+    """ File session controller implementation class. """
+
+    def __init__(self):
+        DmObjectManager.__init__(self)
+        self.experimentDbApi = ExperimentDbApi()
+
+    def processFile(self, fileInfo):
+        experimentFilePath = fileInfo.get('experimentFilePath')
+        experimentName = fileInfo.get('experimentName')
+        experiment = self.experimentDbApi.getExperimentByName(experimentName)
+        ExperimentManager.getInstance().processExperimentFile(experimentFilePath, experiment, fileInfo)
+        return FileMetadata(fileInfo)
+
+    def statFile(self, fileInfo):
+        experimentFilePath = fileInfo.get('experimentFilePath')
+        experimentName = fileInfo.get('experimentName')
+        experiment = self.experimentDbApi.getExperimentByName(experimentName)
+        ExperimentManager.getInstance().statExperimentFile(experimentFilePath, experiment, fileInfo)
+        return FileMetadata(fileInfo)

src/python/dm/ds_web_service/service/impl/mongoDbFileCatalogPlugin.py

+#!/usr/bin/env python
+
+import os
+import time
+from dm.common.utility.loggingManager import LoggingManager
+from dm.common.utility.timeUtility import TimeUtility
+from dm.common.processing.plugins.fileProcessor import FileProcessor
+from dm.common.mongodb.api.fileMongoDbApi import FileMongoDbApi
+
+class MongoDbFileCatalogPlugin(FileProcessor):
+
+    def __init__(self):
+        FileProcessor.__init__(self)
+        self.fileMongoDbApi = FileMongoDbApi()
+        self.logger = LoggingManager.getInstance().getLogger(self.__class__.__name__)
+
+    def processFile(self, fileInfo):
+        experimentFilePath = fileInfo.get('experimentFilePath')
+        experiment = fileInfo.get('experiment')
+        experimentName = experiment.get('name')
+        self.logger.debug('Processing file %s for experiment %s' % (fileInfo, experimentName))
+
+        experimentStorageDirectory = experiment.get('storageDirectory')
+        storageHost = experiment.get('storageHost')
+        storageFilePath = os.path.join(experimentStorageDirectory, experimentFilePath)
+        fileProcessingTime = time.time()
+        fileProcessingTimeStamp = TimeUtility.formatLocalTimeStamp(fileProcessingTime)
+
+        # Prepare catalogging entry
+        fileInfo2 = {}
+        for key in ['md5Sum', 'fileSize', 'fileCreationTime', 'fileCreationTimeStamp']:
+            if fileInfo.has_key(key):
+                fileInfo2[key] = fileInfo.get(key, '')
+        fileInfo2['fileName'] = os.path.basename(experimentFilePath)
+        fileInfo2['experimentStorageDirectory'] = experimentStorageDirectory
+        fileInfo2['storageHost'] = storageHost
+        fileInfo2['storageFilePath'] = storageFilePath
+        fileInfo2['experimentFilePath'] = experimentFilePath
+        fileInfo2['experimentName'] = experimentName
+        fileInfo2['fileProcessingTime'] = fileProcessingTime
+        fileInfo2['fileProcessingTimeStamp'] = fileProcessingTimeStamp
+        fileInfo2.update(fileInfo.get('daqInfo', {}))
+        self.fileMongoDbApi.updateOrAddExperimentFile(fileInfo2)
+
+
+#######################################################################
+# Testing.
+if __name__ == '__main__':
+    pass

src/python/dm/ds_web_service/service/impl/scriptProcessingPlugin.py

+#!/usr/bin/env python
+
+import os
+import time
+from dm.common.utility.loggingManager import LoggingManager
+from dm.common.utility.timeUtility import TimeUtility
+from dm.common.processing.plugins.fileProcessor import FileProcessor
+from dm.common.mongodb.api.fileMongoDbApi import FileMongoDbApi
+from dm.common.utility.dmSubprocess import DmSubprocess
+
+class ScriptProcessingPlugin(FileProcessor):
+
+    PROCESSING_SCRIPT_KEY = 'processingScript'
+
+    def __init__(self):
+        FileProcessor.__init__(self)
+        self.fileMongoDbApi = FileMongoDbApi()
+        self.logger = LoggingManager.getInstance().getLogger(self.__class__.__name__)
+
+    def processFile(self, fileInfo):
+        experiment = fileInfo.get('experiment')
+        experimentName = experiment.get('name')
+        experimentFilePath = fileInfo.get('experimentFilePath')
+        daqInfo = fileInfo.get('daqInfo', {})
+        processingScript = daqInfo.get(self.PROCESSING_SCRIPT_KEY)
+        if not processingScript:
+            self.logger.debug('Ignoring file %s for experiment %s' % (experimentFilePath, experimentName))
+            return
+  
+        self.logger.debug('Processing file %s for experiment %s' % (experimentFilePath, experimentName))
+
+        experimentStorageDirectory = experiment.get('storageDirectory')
+        storageFilePath = os.path.join(experimentStorageDirectory, experimentFilePath)
+
+        # Process file
+        try:
+            p = DmSubprocess('%s %s' % (processingScript, storageFilePath))
+            p.run()
+            stdOut = p.getStdOut()
+        except Exception, ex:
+            self.logger.error('Cannot process file %s for experiment %s: %s' % (experimentFilePath, experimentName, ex))
+            return
+
+        # Prepare catalogging entry
+        fileInfo2 = {}
+        fileInfo2['fileName'] = os.path.basename(experimentFilePath)
+        fileInfo2['experimentName'] = experimentName
+        fileInfo2['processingScriptOutput'] = '%s' % stdOut.strip()
+        self.fileMongoDbApi.updateOrAddExperimentFile(fileInfo2)
+
+
+#######################################################################
+# Testing.
+if __name__ == '__main__':
+    pass

src/python/dm/ds_web_service/service/impl/sddsParameterProcessingPlugin.py

+#!/usr/bin/env python
+
+import os
+import time
+from dm.common.utility.loggingManager import LoggingManager
+from dm.common.utility.timeUtility import TimeUtility
+from dm.common.processing.plugins.fileProcessor import FileProcessor
+from dm.common.mongodb.api.fileMongoDbApi import FileMongoDbApi
+
+class SddsParameterProcessingPlugin(FileProcessor):
+
+    PROCESS_SDDS_PARAMETERS_KEY = 'processSddsParameters'
+
+    def __init__(self):
+        FileProcessor.__init__(self)
+        self.fileMongoDbApi = FileMongoDbApi()
+        self.logger = LoggingManager.getInstance().getLogger(self.__class__.__name__)
+
+
+    def processFile(self, fileInfo):
+        experimentFilePath = fileInfo.get('experimentFilePath')
+        experiment = fileInfo.get('experiment')
+        experimentName = experiment.get('name')
+        daqInfo = fileInfo.get('daqInfo', {})
+        processSddsParameters = daqInfo.get(self.PROCESS_SDDS_PARAMETERS_KEY)
+        if not processSddsParameters:
+            self.logger.debug('Ignoring file %s for experiment %s' % (experimentFilePath, experimentName))
+            return
+
+        self.logger.debug('Processing file %s for experiment %s' % (fileInfo, experimentName))
+
+        experimentStorageDirectory = experiment.get('storageDirectory')
+        storageFilePath = os.path.join(experimentStorageDirectory, experimentFilePath)
+
+        # Load file
+        try:
+            import sddsdata
+            from sdds import SDDS
+            s = SDDS(0)
+            self.logger.error('Loading file %s for experiment %s' % (experimentFilePath, experimentName))
+            s.load(storageFilePath)
+        except Exception, ex:
+            self.logger.error('Cannot process file %s for experiment %s: %s' % (experimentFilePath, experimentName, ex))
+            return
+
+        # Prepare catalogging entry
+        fileInfo2 = {}
+        fileInfo2['fileName'] = os.path.basename(experimentFilePath)
+        fileInfo2['experimentName'] = experimentName
+        for i in range(0,len(s.parameterName)):
+            parameterName = s.parameterName[i]
+            parameterData = s.parameterData[i][0]
+            fileInfo2[parameterName] = parameterData
+        self.fileMongoDbApi.updateOrAddExperimentFile(fileInfo2)
+
+        self.logger.error('SDDS terminate file %s for experiment %s' % (experimentFilePath, experimentName))
+        sddsdata.Terminate(0)
+
+
+#######################################################################
+# Testing.
+if __name__ == '__main__':
+    pass

src/python/dm/ds_web_service/service/impl/sgeJobSubmissionPlugin.py

+#!/usr/bin/env python
+
+import os
+import time
+from dm.common.utility.loggingManager import LoggingManager
+from dm.common.utility.timeUtility import TimeUtility
+from dm.common.processing.plugins.fileProcessor import FileProcessor
+from dm.common.utility.dmSubprocess import DmSubprocess
+
+class SgeJobSubmissionPlugin(FileProcessor):
+
+    SGE_JOB_SCRIPT_KEY = 'sgeJobScript'
+
+    def __init__(self, sgeRoot):
+        FileProcessor.__init__(self)
+        self.sgeRoot = sgeRoot
+        self.logger = LoggingManager.getInstance().getLogger(self.__class__.__name__)
+
+    def processFile(self, fileInfo):
+        experiment = fileInfo.get('experiment')
+        experimentName = experiment.get('name')
+        experimentFilePath = fileInfo.get('experimentFilePath')
+        daqInfo = fileInfo.get('daqInfo', {})
+        sgeJobScript = daqInfo.get(self.SGE_JOB_SCRIPT_KEY)
+        if not sgeJobScript:
+            self.logger.debug('Ignoring file %s for experiment %s' % (experimentFilePath, experimentName))
+            return
+  
+        self.logger.debug('Processing file %s for experiment %s' % (experimentFilePath, experimentName))
+
+        experimentStorageDirectory = experiment.get('storageDirectory')
+        storageFilePath = os.path.join(experimentStorageDirectory, experimentFilePath)
+
+        # Process file
+        try:
+            p = DmSubprocess('. %s/default/common/settings.sh ; qsub -v DM_EXPERIMENT_NAME=%s %s %s' % (self.sgeRoot, experimentName, sgeJobScript, storageFilePath))
+            p.run()
+        except Exception, ex:
+            self.logger.error('Cannot process file %s for experiment %s: %s' % (experimentFilePath, experimentName, ex))
+            return
+
+#######################################################################
+# Testing.
+if __name__ == '__main__':
+    pass

src/python/dm/ds_web_service/service/impl/userInfoSessionControllerImpl.py

+#!/usr/bin/env python
+
+#
+# Implementation for user info controller.
+#
+
+from dm.common.objects.dmObject import DmObject
+from dm.common.objects.dmObjectManager import DmObjectManager
+from dm.common.db.api.userDbApi import UserDbApi
+from dm.ds_web_service.service.impl.experimentManager import ExperimentManager
+
+class UserInfoSessionControllerImpl(DmObjectManager):
+    """ User info controller implementation class. """
+
+    def __init__(self):
+        DmObjectManager.__init__(self)
+        self.userDbApi = UserDbApi()
+
+    def getUsers(self):
+        return self.userDbApi.getUsers()
+
+    def getUserById(self, id):
+        return self.userDbApi.getUserById(id)
+
+    def getUserByUsername(self, username):
+        return self.userDbApi.getUserByUsername(username)
+
+    def addUserExperimentRole(self, username, experimentName, roleName):
+        userInfo = self.userDbApi.addUserExperimentRole(username, experimentName, roleName)
+        ExperimentManager.getInstance().addUserToGroup(username, experimentName)
+        return userInfo
+
+    def deleteUserExperimentRole(self, username, experimentName, roleName):
+        userInfo = self.userDbApi.deleteUserExperimentRole(username, experimentName, roleName)
+        ExperimentManager.getInstance().deleteUserFromGroup(username, experimentName)
+        return userInfo
+

src/python/dm/ds_web_service/service/userInfoSessionController.py

+#!/usr/bin/env python
+
+import cherrypy
+from dm.common.service.dmSessionController import DmSessionController
+from dm.ds_web_service.service.impl.userInfoSessionControllerImpl import UserInfoSessionControllerImpl
+
+class UserInfoSessionController(DmSessionController):
+
+    def __init__(self):
+        DmSessionController.__init__(self)
+        self.userInfoSessionControllerImpl = UserInfoSessionControllerImpl()
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def getUsers(self, **kwargs):
+        return self.listToJson(self.userInfoSessionControllerImpl.getUsers())
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def getUserById(self, id, **kwargs):
+        if not id:
+            raise InvalidRequest('Invalid id provided.')
+        response = self.userInfoSessionControllerImpl.getUserById(id).getFullJsonRep()
+        self.logger.debug('Returning user info for %s: %s' % (id,response))
+        return response
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def getUserByUsername(self, username, **kwargs):
+        if not len(username):
+            raise InvalidRequest('Invalid username provided.')
+        response = self.userInfoSessionControllerImpl.getUserByUsername(username).getFullJsonRep()
+        self.logger.debug('Returning user info for %s: %s' % (username,response))
+        return response
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def addUserExperimentRole(self, username, experimentName, roleName, **kwargs):
+        if not username:
+            raise InvalidRequest('Invalid username provided.')
+        if not experimentName:
+            raise InvalidRequest('Invalid experiment name provided.')
+        if not roleName:
+            raise InvalidRequest('Invalid role name provided.')
+        response = self.userInfoSessionControllerImpl.addUserExperimentRole(username, experimentName, roleName).getFullJsonRep()
+        return response
+
+    @cherrypy.expose
+    @DmSessionController.require(DmSessionController.isAdministrator())
+    @DmSessionController.execute
+    def deleteUserExperimentRole(self, username, experimentName, roleName, **kwargs):
+        if not username:
+            raise InvalidRequest('Invalid username provided.')
+        if not experimentName:
+            raise InvalidRequest('Invalid experiment name provided.')
+        if not roleName:
+            raise InvalidRequest('Invalid role name provided.')
+        response = self.userInfoSessionControllerImpl.deleteUserExperimentRole(username, experimentName, roleName).getFullJsonRep()
+        return response
+

src/python/dm/ds_web_service/service/userRouteDescriptor.py

+#!/usr/bin/env python
+
+#
+# User route descriptor.
+#
+
+from dm.common.utility.configurationManager import ConfigurationManager
+from userInfoSessionController import UserInfoSessionController
+
+class UserRouteDescriptor:
+
+    @classmethod
+    def getRoutes(cls):
+        contextRoot = ConfigurationManager.getInstance().getContextRoot()
+
+        # Static instances shared between different routes
+        userInfoSessionController = UserInfoSessionController()
+
+        # Define routes.
+        routes = [
+
+            # Get user info list
+            {
+                'name' : 'getUsers',
+                'path' : '%s/users' % contextRoot,
+                'controller' : userInfoSessionController,
+                'action' : 'getUsers', 
+                'method' : ['GET']
+            },
+
+            # Get user by id
+            {
+                'name' : 'getUserById',
+                'path' : '%s/users/:(id)' % contextRoot,
+                'controller' : userInfoSessionController,
+                'action' : 'getUserById', 
+                'method' : ['GET']
+            },
+
+            # Get user by username
+            {
+                'name' : 'getUserByUsername',
+                'path' : '%s/usersByUsername/:(username)' % contextRoot,
+                'controller' : userInfoSessionController,
+                'action' : 'getUserByUsername', 
+                'method' : ['GET']
+            },
+
+            # Add user experiment role
+            {
+                'name' : 'addUserExperimentRole',
+                'path' : '%s/usersByExperiment/:(username)/:(experimentName)/:(roleName)' % contextRoot,
+                'controller' : userInfoSessionController,
+                'action' : 'addUserExperimentRole',
+                'method' : ['POST']
+            },
+
+            # Delete user experiment role
+            {
+                'name' : 'deleteUserExperimentRole',
+                'path' : '%s/usersByExperiment/:(username)/:(experimentName)/:(roleName)' % contextRoot,
+                'controller' : userInfoSessionController,
+                'action' : 'deleteUserExperimentRole',
+                'method' : ['DELETE']
+            },
+        ]
+       
+        return routes
+
+

tools/AccountSynchronizer/accountSynchronizer/.classpath

+<?xml version="1.0" encoding="UTF-8"?>
+<classpath>
+	<classpathentry kind="src" path="src"/>
+	<classpathentry kind="src" path="resources"/>
+	<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/>
+	<classpathentry kind="lib" path="/home/phoebus/BFROSIK/trunk/tools/AccountSynchronizer/lib/ojdbc7.jar"/>
+	<classpathentry kind="lib" path="/home/phoebus/BFROSIK/trunk/tools/AccountSynchronizer/lib/postgresql-9.4-1201.jdbc4.jar"/>
+	<classpathentry kind="lib" path="/home/phoebus/BFROSIK/trunk/tools/AccountSynchronizer/lib/unboundid-ldapsdk-me.jar"/>
+	<classpathentry kind="output" path="bin"/>
+</classpath>

tools/AccountSynchronizer/accountSynchronizer/.project

+<?xml version="1.0" encoding="UTF-8"?>
+<projectDescription>
+	<name>accountSynchronizer</name>
+	<comment></comment>
+	<projects>
+	</projects>
+	<buildSpec>
+		<buildCommand>
+			<name>org.eclipse.jdt.core.javabuilder</name>
+			<arguments>
+			</arguments>
+		</buildCommand>
+	</buildSpec>
+	<natures>
+		<nature>org.eclipse.jdt.core.javanature</nature>
+	</natures>
+</projectDescription>

tools/AccountSynchronizer/accountSynchronizer/manifest.txt

+Main-Class: gov.anl.aps.dm.sync.Synchronizer
+Class-Path: . ../../lib/postgresql-9.4-1201.jdbc4.jar ../../lib/ojdbc7.jar
+