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def dedicate ( rh ) : rh . printSysLog ( "Enter changeVM.dedicate" ) parms = [ "-T" , rh . userid , "-v" , rh . parms [ 'vaddr' ] , "-r" , rh . parms [ 'raddr' ] , "-R" , rh . parms [ 'mode' ] ] hideList = [ ] results = invokeSMCLI ( rh , "Image_Device_Dedicate_DM" , parms , hideInLog = hideList ) if results [ 'overall...
Dedicate device .
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def addAEMOD ( rh ) : rh . printSysLog ( "Enter changeVM.addAEMOD" ) invokeScript = "invokeScript.sh" trunkFile = "aemod.doscript" fileClass = "X" tempDir = tempfile . mkdtemp ( ) if os . path . isfile ( rh . parms [ 'aeScript' ] ) : if rh . parms [ 'aeScript' ] . startswith ( "/" ) : s = rh . parms [ 'aeScript' ] tmpA...
Send an Activation Modification Script to the virtual machine .
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def addLOADDEV ( rh ) : rh . printSysLog ( "Enter changeVM.addLOADDEV" ) if ( 'scpData' in rh . parms and 'scpDataType' not in rh . parms ) : msg = msgs . msg [ '0014' ] [ 1 ] % ( modId , "scpData" , "scpDataType" ) rh . printLn ( "ES" , msg ) rh . updateResults ( msgs . msg [ '0014' ] [ 0 ] ) return if ( 'scpDataType'...
Sets the LOADDEV statement in the virtual machine s directory entry .
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def purgeRDR ( rh ) : rh . printSysLog ( "Enter changeVM.purgeRDR" ) results = purgeReader ( rh ) rh . updateResults ( results ) rh . printSysLog ( "Exit changeVM.purgeRDR, rc: " + str ( rh . results [ 'overallRC' ] ) ) return rh . results [ 'overallRC' ]
Purge the reader belonging to the virtual machine .
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def removeDisk ( rh ) : rh . printSysLog ( "Enter changeVM.removeDisk" ) results = { 'overallRC' : 0 , 'rc' : 0 , 'rs' : 0 } loggedOn = False results = isLoggedOn ( rh , rh . userid ) if results [ 'overallRC' ] == 0 : if results [ 'rs' ] == 0 : loggedOn = True results = disableEnableDisk ( rh , rh . userid , rh . parms...
Remove a disk from a virtual machine .
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def send_request ( self , api_name , * api_args , ** api_kwargs ) : return self . conn . request ( api_name , * api_args , ** api_kwargs )
Refer to SDK API documentation .
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def getDiskPoolNames ( rh ) : rh . printSysLog ( "Enter getHost.getDiskPoolNames" ) parms = [ "-q" , "1" , "-e" , "3" , "-T" , "dummy" ] results = invokeSMCLI ( rh , "Image_Volume_Space_Query_DM" , parms ) if results [ 'overallRC' ] == 0 : for line in results [ 'response' ] . splitlines ( ) : poolName = line . partitio...
Obtain the list of disk pools known to the directory manager .
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def getDiskPoolSpace ( rh ) : rh . printSysLog ( "Enter getHost.getDiskPoolSpace" ) results = { 'overallRC' : 0 } if 'poolName' not in rh . parms : poolNames = [ "*" ] else : if isinstance ( rh . parms [ 'poolName' ] , list ) : poolNames = rh . parms [ 'poolName' ] else : poolNames = [ rh . parms [ 'poolName' ] ] if re...
Obtain disk pool space information for all or a specific disk pool .
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def getFcpDevices ( rh ) : rh . printSysLog ( "Enter getHost.getFcpDevices" ) parms = [ "-T" , "dummy" ] results = invokeSMCLI ( rh , "System_WWPN_Query" , parms ) if results [ 'overallRC' ] == 0 : rh . printLn ( "N" , results [ 'response' ] ) else : rh . printLn ( "ES" , results [ 'response' ] ) rh . updateResults ( r...
Lists the FCP device channels that are active free or offline .
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def deleteMachine ( rh ) : rh . printSysLog ( "Enter deleteVM.deleteMachine" ) results = { 'overallRC' : 0 , 'rc' : 0 , 'rs' : 0 } state = 'on' results = isLoggedOn ( rh , rh . userid ) if results [ 'overallRC' ] != 0 : pass elif results [ 'rs' ] == 0 : pass else : state = 'off' results [ 'overallRC' ] = 0 results [ 'r...
Delete a virtual machine from the user directory .
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def activate ( rh ) : rh . printSysLog ( "Enter powerVM.activate, userid: " + rh . userid ) parms = [ "-T" , rh . userid ] smcliResults = invokeSMCLI ( rh , "Image_Activate" , parms ) if smcliResults [ 'overallRC' ] == 0 : pass elif ( smcliResults [ 'overallRC' ] == 8 and smcliResults [ 'rc' ] == 200 and smcliResults [...
Activate a virtual machine .
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def checkIsReachable ( rh ) : rh . printSysLog ( "Enter powerVM.checkIsReachable, userid: " + rh . userid ) strCmd = "echo 'ping'" results = execCmdThruIUCV ( rh , rh . userid , strCmd ) if results [ 'overallRC' ] == 0 : rh . printLn ( "N" , rh . userid + ": reachable" ) reachable = 1 else : rh . printLn ( "N" , rh . u...
Check if a virtual machine is reachable .
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def deactivate ( rh ) : rh . printSysLog ( "Enter powerVM.deactivate, userid: " + rh . userid ) parms = [ "-T" , rh . userid , "-f" , "IMMED" ] results = invokeSMCLI ( rh , "Image_Deactivate" , parms ) if results [ 'overallRC' ] == 0 : pass elif ( results [ 'overallRC' ] == 8 and results [ 'rc' ] == 200 and ( results [...
Deactivate a virtual machine .
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def reset ( rh ) : rh . printSysLog ( "Enter powerVM.reset, userid: " + rh . userid ) parms = [ "-T" , rh . userid ] results = invokeSMCLI ( rh , "Image_Deactivate" , parms ) if results [ 'overallRC' ] != 0 : if results [ 'rc' ] == 200 and results [ 'rs' ] == 12 : results [ 'overallRC' ] = 0 results [ 'rc' ] = 0 result...
Reset a virtual machine .
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def softDeactivate ( rh ) : rh . printSysLog ( "Enter powerVM.softDeactivate, userid: " + rh . userid ) strCmd = "echo 'ping'" iucvResults = execCmdThruIUCV ( rh , rh . userid , strCmd ) if iucvResults [ 'overallRC' ] == 0 : strCmd = "shutdown -h now" iucvResults = execCmdThruIUCV ( rh , rh . userid , strCmd ) if iucvR...
Deactivate a virtual machine by first shutting down Linux and then log it off .
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def wait ( rh ) : rh . printSysLog ( "Enter powerVM.wait, userid: " + rh . userid ) if ( rh . parms [ 'desiredState' ] == 'off' or rh . parms [ 'desiredState' ] == 'on' ) : results = waitForVMState ( rh , rh . userid , rh . parms [ 'desiredState' ] , maxQueries = rh . parms [ 'maxQueries' ] , sleepSecs = rh . parms [ '...
Wait for the virtual machine to go into the specified state .
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def call ( self , func , * api_args , ** api_kwargs ) : if not isinstance ( func , str ) or ( func == '' ) : msg = ( 'Invalid input for API name, should be a' 'string, type: %s specified.' ) % type ( func ) return self . _construct_api_name_error ( msg ) try : cs = socket . socket ( socket . AF_INET , socket . SOCK_STR...
Send API call to SDK server and return results
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def dispatch ( environ , start_response , mapper ) : result = mapper . match ( environ = environ ) if result is None : info = environ . get ( 'PATH_INFO' , '' ) LOG . debug ( 'The route for %s can not be found' , info ) raise webob . exc . HTTPNotFound ( json_formatter = util . json_error_formatter ) handler = result ....
Find a matching route for the current request .
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def handle_not_allowed ( environ , start_response ) : _methods = util . wsgi_path_item ( environ , '_methods' ) headers = { } if _methods : headers [ 'allow' ] = str ( _methods ) raise webob . exc . HTTPMethodNotAllowed ( ( 'The method specified is not allowed for this resource.' ) , headers = headers , json_formatter ...
Return a 405 response when method is not allowed .
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def make_map ( declarations ) : mapper = routes . Mapper ( ) for route , methods in ROUTE_LIST : allowed_methods = [ ] for method , func in methods . items ( ) : mapper . connect ( route , action = func , conditions = dict ( method = [ method ] ) ) allowed_methods . append ( method ) allowed_methods = ', ' . join ( all...
Process route declarations to create a Route Mapper .
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def _offline_fcp_device ( self , fcp , target_wwpn , target_lun , multipath ) : offline_dev = 'chccwdev -d %s' % fcp delete_records = self . _delete_zfcp_config_records ( fcp , target_wwpn , target_lun ) return '\n' . join ( ( offline_dev , delete_records ) )
rhel offline zfcp . sampe to all rhel distro .
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def _set_sysfs ( self , fcp , target_wwpn , target_lun ) : device = '0.0.%s' % fcp port_add = "echo '%s' > " % target_wwpn port_add += "/sys/bus/ccw/drivers/zfcp/%s/port_add" % device unit_add = "echo '%s' > " % target_lun unit_add += "/sys/bus/ccw/drivers/zfcp/%(device)s/%(wwpn)s/unit_add\n" % { 'device' : device , 'w...
rhel6 set WWPN and LUN in sysfs
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def _set_zfcp_config_files ( self , fcp , target_wwpn , target_lun ) : device = '0.0.%s' % fcp set_zfcp_conf = 'echo "%(device)s %(wwpn)s %(lun)s" >> /etc/zfcp.conf' % { 'device' : device , 'wwpn' : target_wwpn , 'lun' : target_lun } trigger_uevent = 'echo "add" >> /sys/bus/ccw/devices/%s/uevent\n' % device return '\n'...
rhel6 set WWPN and LUN in configuration files
43,623
def _set_sysfs ( self , fcp , target_wwpn , target_lun ) : device = '0.0.%s' % fcp unit_add = "echo '%s' > " % target_lun unit_add += "/sys/bus/ccw/drivers/zfcp/%(device)s/%(wwpn)s/unit_add\n" % { 'device' : device , 'wwpn' : target_wwpn } return unit_add
rhel7 set WWPN and LUN in sysfs
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def _get_udev_rules ( self , channel_read , channel_write , channel_data ) : sub_str = '%(read)s %%k %(read)s %(write)s %(data)s qeth' % { 'read' : channel_read , 'read' : channel_read , 'write' : channel_write , 'data' : channel_data } rules_str = '# Configure qeth device at' rules_str += ' %(read)s/%(write)s/%(data)s...
construct udev rules info .
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def _delete_vdev_info ( self , vdev ) : vdev = vdev . lower ( ) rules_file_name = '/etc/udev/rules.d/51-qeth-0.0.%s.rules' % vdev cmd = 'rm -f %s\n' % rules_file_name address = '0.0.%s' % str ( vdev ) . zfill ( 4 ) udev_file_name = '/etc/udev/rules.d/70-persistent-net.rules' cmd += "sed -i '/%s/d' %s\n" % ( address , u...
handle udev rules file .
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def _set_zfcp_config_files ( self , fcp , target_wwpn , target_lun ) : device = '0.0.%s' % fcp host_config = '/sbin/zfcp_host_configure %s 1' % device disk_config = '/sbin/zfcp_disk_configure ' + '%(device)s %(wwpn)s %(lun)s 1' % { 'device' : device , 'wwpn' : target_wwpn , 'lun' : target_lun } create_config = 'touch /...
sles set WWPN and LUN in configuration files
43,627
def _offline_fcp_device ( self , fcp , target_wwpn , target_lun , multipath ) : device = '0.0.%s' % fcp disk_config = '/sbin/zfcp_disk_configure ' + '%(device)s %(wwpn)s %(lun)s 0' % { 'device' : device , 'wwpn' : target_wwpn , 'lun' : target_lun } host_config = '/sbin/zfcp_host_configure %s 0' % device return '\n' . j...
sles offline zfcp . sampe to all rhel distro .
43,628
def _delete_vdev_info ( self , vdev ) : vdev = vdev . lower ( ) network_config_file_name = self . _get_network_file ( ) device = self . _get_device_name ( vdev ) cmd = '\n' . join ( ( "num=$(sed -n '/auto %s/=' %s)" % ( device , network_config_file_name ) , "dns=$(awk 'NR==(\"\'$num\'\"+6)&&" "/dns-nameservers/' %s)" %...
handle vdev related info .
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def _set_zfcp_config_files ( self , fcp , target_wwpn , target_lun ) : host_config = '/sbin/chzdev zfcp-host %s -e' % fcp device = '0.0.%s' % fcp target = '%s:%s:%s' % ( device , target_wwpn , target_lun ) disk_config = '/sbin/chzdev zfcp-lun %s -e\n' % target return '\n' . join ( ( host_config , disk_config ) )
ubuntu zfcp configuration
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def _offline_fcp_device ( self , fcp , target_wwpn , target_lun , multipath ) : device = '0.0.%s' % fcp target = '%s:%s:%s' % ( device , target_wwpn , target_lun ) disk_offline = '/sbin/chzdev zfcp-lun %s -d' % target host_offline = '/sbin/chzdev zfcp-host %s -d' % fcp offline_dev = 'chccwdev -d %s' % fcp return '\n' ....
ubuntu offline zfcp .
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def parse_dist ( self , os_version ) : supported = { 'rhel' : [ 'rhel' , 'redhat' , 'red hat' ] , 'sles' : [ 'suse' , 'sles' ] , 'ubuntu' : [ 'ubuntu' ] } os_version = os_version . lower ( ) for distro , patterns in supported . items ( ) : for i in patterns : if os_version . startswith ( i ) : remain = os_version . spl...
Separate os and version from os_version .
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def getStatus ( rh ) : rh . printSysLog ( "Enter migrateVM.getStatus" ) parms = [ "-T" , rh . userid ] if 'all' in rh . parms : parms . extend ( [ "-k" , "status_target=ALL" ] ) elif 'incoming' in rh . parms : parms . extend ( [ "-k" , "status_target=INCOMING" ] ) elif 'outgoing' in rh . parms : parms . extend ( [ "-k"...
Get status of a VMRelocate request .
43,633
def parseCmdline ( self , requestData ) : self . printSysLog ( "Enter ReqHandle.parseCmdline" ) if isinstance ( requestData , list ) : self . requestString = ' ' . join ( requestData ) self . request = requestData elif isinstance ( requestData , string_types ) : self . requestString = requestData self . request = shlex...
Parse the request command string .
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def printLn ( self , respType , respString ) : if 'E' in respType : respString = '(Error) ' + respString if 'W' in respType : respString = '(Warning) ' + respString if 'S' in respType : self . printSysLog ( respString ) self . results [ 'response' ] = ( self . results [ 'response' ] + respString . splitlines ( ) ) retu...
Add one or lines of output to the response list .
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def printSysLog ( self , logString ) : if zvmsdklog . LOGGER . getloglevel ( ) <= logging . DEBUG : if self . daemon == '' : self . logger . debug ( self . requestId + ": " + logString ) else : self . daemon . logger . debug ( self . requestId + ": " + logString ) if self . captureLogs is True : self . results [ 'logEn...
Log one or more lines . Optionally add them to logEntries list .
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def filters ( self ) : params = { } for _filter in self . _filters : params . update ( _filter ) return params
Returns a merged dictionary of filters .
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def json_error_formatter ( body , status , title , environ ) : body = webob . exc . strip_tags ( body ) status_code = int ( status . split ( None , 1 ) [ 0 ] ) error_dict = { 'status' : status_code , 'title' : title , 'detail' : body } return { 'errors' : [ error_dict ] }
A json_formatter for webob exceptions .
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def call_func ( self , req , * args , ** kwargs ) : try : return super ( SdkWsgify , self ) . call_func ( req , * args , ** kwargs ) except webob . exc . HTTPException as exc : msg = ( 'encounter %(error)s error' ) % { 'error' : exc } LOG . debug ( msg ) exc . json_formatter = json_error_formatter code = exc . status_i...
Add json_error_formatter to any webob HTTPExceptions .
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def _load_GeoTransform ( self ) : def load_lon ( ) : return arange ( ds . RasterXSize ) * b [ 1 ] + b [ 0 ] def load_lat ( ) : return arange ( ds . RasterYSize ) * b [ 5 ] + b [ 3 ] ds = self . ds b = self . ds . GetGeoTransform ( ) if with_dask : lat = Array ( { ( 'lat' , 0 ) : ( load_lat , ) } , 'lat' , ( self . ds ....
Calculate latitude and longitude variable calculated from the gdal . Open . GetGeoTransform method
43,640
def psyplot_fname ( env_key = 'PSYPLOTRC' , fname = 'psyplotrc.yml' , if_exists = True ) : cwd = getcwd ( ) full_fname = os . path . join ( cwd , fname ) if os . path . exists ( full_fname ) : return full_fname if env_key in os . environ : path = os . environ [ env_key ] if os . path . exists ( path ) : if os . path . ...
Get the location of the config file .
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def validate_path_exists ( s ) : if s is None : return None if os . path . exists ( s ) : return s else : raise ValueError ( '"%s" should be a path but it does not exist' % s )
If s is a path return s else False
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def validate_dict ( d ) : try : return dict ( d ) except TypeError : d = validate_path_exists ( d ) try : with open ( d ) as f : return dict ( yaml . load ( f ) ) except Exception : raise ValueError ( "Could not convert {} to dictionary!" . format ( d ) )
Validate a dictionary
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def validate_str ( s ) : if not isinstance ( s , six . string_types ) : raise ValueError ( "Did not found string!" ) return six . text_type ( s )
Validate a string
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def validate_stringlist ( s ) : if isinstance ( s , six . string_types ) : return [ six . text_type ( v . strip ( ) ) for v in s . split ( ',' ) if v . strip ( ) ] else : try : return list ( map ( validate_str , s ) ) except TypeError as e : raise ValueError ( e . message )
Validate a list of strings
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def add_base_str ( self , base_str , pattern = '.+' , pattern_base = None , append = True ) : base_str = safe_list ( base_str ) pattern_base = safe_list ( pattern_base or [ ] ) for i , s in enumerate ( base_str ) : if '%(key)s' not in s : base_str [ i ] += '%(key)s' if pattern_base : for i , s in enumerate ( pattern_ba...
Add further base string to this instance
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def iterkeys ( self ) : patterns = self . patterns replace = self . replace seen = set ( ) for key in six . iterkeys ( self . base ) : for pattern in patterns : m = pattern . match ( key ) if m : ret = m . group ( 'key' ) if replace else m . group ( ) if ret not in seen : seen . add ( ret ) yield ret break for key in D...
Unsorted iterator over keys
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def validate ( self ) : depr = self . _all_deprecated return dict ( ( key , val [ 1 ] ) for key , val in six . iteritems ( self . defaultParams ) if key not in depr )
Dictionary with validation methods as values
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def descriptions ( self ) : return { key : val [ 2 ] for key , val in six . iteritems ( self . defaultParams ) if len ( val ) >= 3 }
The description of each keyword in the rcParams dictionary
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def connect ( self , key , func ) : key = self . _get_depreceated ( key ) [ 0 ] if key is not None : self . _connections [ key ] . append ( func )
Connect a function to the given formatoption
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def disconnect ( self , key = None , func = None ) : if key is None : for key , connections in self . _connections . items ( ) : for conn in connections [ : ] : if func is None or conn is func : connections . remove ( conn ) else : connections = self . _connections [ key ] for conn in connections [ : ] : if func is Non...
Disconnect the connections to the an rcParams key
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def keys ( self ) : k = list ( dict . keys ( self ) ) k . sort ( ) return k
Return sorted list of keys .
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def load_from_file ( self , fname = None ) : fname = fname or psyplot_fname ( ) if fname and os . path . exists ( fname ) : with open ( fname ) as f : d = yaml . load ( f ) self . update ( d ) if ( d . get ( 'project.plotters.user' ) and 'project.plotters' in self ) : self [ 'project.plotters' ] . update ( d [ 'project...
Update rcParams from user - defined settings
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def dump ( self , fname = None , overwrite = True , include_keys = None , exclude_keys = [ 'project.plotters' ] , include_descriptions = True , ** kwargs ) : if fname is not None and not overwrite and os . path . exists ( fname ) : raise IOError ( '%s already exists! Set overwrite=True to overwrite it!' % ( fname ) ) i...
Dump this instance to a yaml file
43,654
def _load_plugin_entrypoints ( self ) : from pkg_resources import iter_entry_points def load_plugin ( ep ) : if plugins_env == [ 'no' ] : return False elif ep . module_name in exclude_plugins : return False elif include_plugins and ep . module_name not in include_plugins : return False return True self . _plugins = sel...
Load the modules for the psyplot plugins
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def deploy ( project_name ) : request_log = requestlog . RequestLog header_addon = HeaderControl fault_wrapper = FaultWrapper application = handler . SdkHandler ( ) for middleware in ( header_addon , fault_wrapper , request_log , ) : if middleware : application = middleware ( application ) return application
Assemble the middleware pipeline
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def guest_reboot ( self , userid ) : LOG . info ( "Begin to reboot vm %s" , userid ) self . _smtclient . guest_reboot ( userid ) LOG . info ( "Complete reboot vm %s" , userid )
Reboot a guest vm .
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def execute_cmd ( self , userid , cmdStr ) : LOG . debug ( "executing cmd: %s" , cmdStr ) return self . _smtclient . execute_cmd ( userid , cmdStr )
Execute commands on the guest vm .
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def set_hostname ( self , userid , hostname , os_version ) : tmp_path = self . _pathutils . get_guest_temp_path ( userid ) if not os . path . exists ( tmp_path ) : os . makedirs ( tmp_path ) tmp_file = tmp_path + '/hostname.sh' lnxdist = self . _dist_manager . get_linux_dist ( os_version ) ( ) lines = lnxdist . generat...
Punch a script that used to set the hostname of the guest .
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def cvtToBlocks ( rh , diskSize ) : rh . printSysLog ( "Enter generalUtils.cvtToBlocks" ) blocks = 0 results = { 'overallRC' : 0 , 'rc' : 0 , 'rs' : 0 , 'errno' : 0 } blocks = diskSize . strip ( ) . upper ( ) lastChar = blocks [ - 1 ] if lastChar == 'G' or lastChar == 'M' : byteSize = blocks [ : - 1 ] if byteSize == ''...
Convert a disk storage value to a number of blocks .
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def cvtToMag ( rh , size ) : rh . printSysLog ( "Enter generalUtils.cvtToMag" ) mSize = '' size = size / ( 1024 * 1024 ) if size > ( 1024 * 5 ) : size = size / 1024 mSize = "%.1fG" % size else : mSize = "%.1fM" % size rh . printSysLog ( "Exit generalUtils.cvtToMag, magSize: " + mSize ) return mSize
Convert a size value to a number with a magnitude appended .
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def getSizeFromPage ( rh , page ) : rh . printSysLog ( "Enter generalUtils.getSizeFromPage" ) bSize = float ( page ) * 4096 mSize = cvtToMag ( rh , bSize ) rh . printSysLog ( "Exit generalUtils.getSizeFromPage, magSize: " + mSize ) return mSize
Convert a size value from page to a number with a magnitude appended .
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def validate ( self ) : if not self . api_token or not self . api_token_secret : raise ImproperlyConfigured ( "'api_token' and 'api_token_secret' are required for authentication." ) if self . response_type not in [ "json" , "pson" , "xml" , "debug" , None ] : raise ImproperlyConfigured ( "'%s' is an invalid response_ty...
Perform validation check on properties .
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def R ( X , destination , a1 , a2 , b ) : a = ( X [ a1 ] + X [ a2 ] ) & 0xffffffff X [ destination ] ^= ( ( a << b ) | ( a >> ( 32 - b ) ) )
A single Salsa20 row operation
43,664
def fileChunkIter ( file_object , file_chunk_size = 65536 ) : while True : chunk = file_object . read ( file_chunk_size ) if chunk : yield chunk else : break
Return an iterator to a file - like object that yields fixed size chunks
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def read_objfile ( fname ) : verts = defaultdict ( list ) obj_props = [ ] with open ( fname ) as f : lines = f . read ( ) . splitlines ( ) for line in lines : if line : split_line = line . strip ( ) . split ( ' ' , 1 ) if len ( split_line ) < 2 : continue prefix , value = split_line [ 0 ] , split_line [ 1 ] if prefix =...
Takes . obj filename and returns dict of object properties for each object in file .
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def disableEnableDisk ( rh , userid , vaddr , option ) : rh . printSysLog ( "Enter vmUtils.disableEnableDisk, userid: " + userid + " addr: " + vaddr + " option: " + option ) results = { 'overallRC' : 0 , 'rc' : 0 , 'rs' : 0 , 'response' : '' } for secs in [ 0.1 , 0.4 , 1 , 1.5 , 3 , 7 , 15 , 32 , 30 , 30 , 60 , 60 , 60...
Disable or enable a disk .
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def getPerfInfo ( rh , useridlist ) : rh . printSysLog ( "Enter vmUtils.getPerfInfo, userid: " + useridlist ) parms = [ "-T" , rh . userid , "-c" , "1" ] results = invokeSMCLI ( rh , "Image_Performance_Query" , parms ) if results [ 'overallRC' ] != 0 : rh . printLn ( "ES" , results [ 'response' ] ) rh . printSysLog ( "...
Get the performance information for a userid
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def isLoggedOn ( rh , userid ) : rh . printSysLog ( "Enter vmUtils.isLoggedOn, userid: " + userid ) results = { 'overallRC' : 0 , 'rc' : 0 , 'rs' : 0 , } cmd = [ "sudo" , "/sbin/vmcp" , "query" , "user" , userid ] strCmd = ' ' . join ( cmd ) rh . printSysLog ( "Invoking: " + strCmd ) try : subprocess . check_output ( c...
Determine whether a virtual machine is logged on .
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def waitForOSState ( rh , userid , desiredState , maxQueries = 90 , sleepSecs = 5 ) : rh . printSysLog ( "Enter vmUtils.waitForOSState, userid: " + userid + " state: " + desiredState + " maxWait: " + str ( maxQueries ) + " sleepSecs: " + str ( sleepSecs ) ) results = { } strCmd = "echo 'ping'" stateFnd = False for i in...
Wait for the virtual OS to go into the indicated state .
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def waitForVMState ( rh , userid , desiredState , maxQueries = 90 , sleepSecs = 5 ) : rh . printSysLog ( "Enter vmUtils.waitForVMState, userid: " + userid + " state: " + desiredState + " maxWait: " + str ( maxQueries ) + " sleepSecs: " + str ( sleepSecs ) ) results = { } cmd = [ "sudo" , "/sbin/vmcp" , "query" , "user"...
Wait for the virtual machine to go into the indicated state .
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def stream ( input , encoding = None , errors = 'strict' ) : input = ( i for i in input if i ) if encoding : input = iterencode ( input , encoding , errors = errors ) return input
Safely iterate a template generator ignoring None values and optionally stream encoding . Used internally by cinje . flatten this allows for easy use of a template generator as a WSGI body .
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def prepare ( self ) : self . scope = 0 self . mapping = deque ( [ 0 ] ) self . _handler = [ i ( ) for i in sorted ( self . handlers , key = lambda handler : handler . priority ) ]
Prepare the ordered list of transformers and reset context state to initial .
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def classify ( self , line ) : for handler in self . _handler : if handler . match ( self , line ) : return handler
Identify the correct handler for a given line of input .
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def red ( numbers ) : line = 0 deltas = [ ] for value in numbers : deltas . append ( value - line ) line = value return b64encode ( compress ( b'' . join ( chr ( i ) . encode ( 'latin1' ) for i in deltas ) ) ) . decode ( 'latin1' )
Encode the deltas to reduce entropy .
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def match ( self , context , line ) : return line . kind == 'code' and line . partitioned [ 0 ] in self . _both
Match code lines prefixed with a variety of keywords .
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def get_direct_fields_from_model ( model_class ) : direct_fields = [ ] all_fields_names = _get_all_field_names ( model_class ) for field_name in all_fields_names : field , model , direct , m2m = _get_field_by_name ( model_class , field_name ) if direct and not m2m and not _get_remote_field ( field ) : direct_fields += ...
Direct not m2m not FK
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def get_fields ( model_class , field_name = '' , path = '' ) : fields = get_direct_fields_from_model ( model_class ) app_label = model_class . _meta . app_label if field_name != '' : field , model , direct , m2m = _get_field_by_name ( model_class , field_name ) path += field_name path += '__' if direct : try : new_mode...
Get fields and meta data from a model
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def get_related_fields ( model_class , field_name , path = "" ) : if field_name : field , model , direct , m2m = _get_field_by_name ( model_class , field_name ) if direct : try : new_model = _get_remote_field ( field ) . parent_model ( ) except AttributeError : new_model = _get_remote_field ( field ) . model else : if ...
Get fields for a given model
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def flush_template ( context , declaration = None , reconstruct = True ) : if declaration is None : declaration = Line ( 0 , '' ) if { 'text' , 'dirty' } . issubset ( context . flag ) : yield declaration . clone ( line = 'yield "".join(_buffer)' ) context . flag . remove ( 'text' ) context . flag . remove ( 'dirty' ) i...
Emit the code needed to flush the buffer . Will only emit the yield and clear if the buffer is known to be dirty .
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def _can_change_or_view ( model , user ) : model_name = model . _meta . model_name app_label = model . _meta . app_label can_change = user . has_perm ( app_label + '.change_' + model_name ) can_view = user . has_perm ( app_label + '.view_' + model_name ) return can_change or can_view
Return True iff user has either change or view permission for model .
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def report_to_list ( queryset , display_fields , user ) : model_class = queryset . model objects = queryset message = "" if not _can_change_or_view ( model_class , user ) : return [ ] , 'Permission Denied' new_display_fields = [ ] for display_field in display_fields : field_list = display_field . split ( '__' ) field =...
Create list from a report with all data filtering .
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def list_to_workbook ( data , title = 'report' , header = None , widths = None ) : wb = Workbook ( ) title = re . sub ( r'\W+' , '' , title ) [ : 30 ] if isinstance ( data , dict ) : i = 0 for sheet_name , sheet_data in data . items ( ) : if i > 0 : wb . create_sheet ( ) ws = wb . worksheets [ i ] build_sheet ( sheet_d...
Create just a openpxl workbook from a list of data
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def build_xlsx_response ( wb , title = "report" ) : title = generate_filename ( title , '.xlsx' ) myfile = BytesIO ( ) myfile . write ( save_virtual_workbook ( wb ) ) response = HttpResponse ( myfile . getvalue ( ) , content_type = 'application/vnd.openxmlformats-officedocument.spreadsheetml.sheet' ) response [ 'Conten...
Take a workbook and return a xlsx file response
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def list_to_csv_response ( data , title = 'report' , header = None , widths = None ) : response = HttpResponse ( content_type = "text/csv; charset=UTF-8" ) cw = csv . writer ( response ) for row in chain ( [ header ] if header else [ ] , data ) : cw . writerow ( [ force_text ( s ) . encode ( response . charset ) for s ...
Make 2D list into a csv response for download data .
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def gather ( input ) : try : line = input . next ( ) except StopIteration : return lead = True buffer = [ ] while line . kind == 'text' : value = line . line . rstrip ( ) . rstrip ( '\\' ) + ( '' if line . continued else '\n' ) if lead and line . stripped : yield Line ( line . number , value ) lead = False elif not lea...
Collect contiguous lines of text preserving line numbers .
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def process ( self , context , lines ) : handler = None for line in lines : for chunk in chunk_ ( line ) : if 'strip' in context . flag : chunk . line = chunk . stripped if not chunk . line : continue if not handler or handler [ 0 ] != chunk . kind : if handler : try : result = next ( handler [ 1 ] ) except StopIterati...
Chop up individual lines into static and dynamic parts . Applies light optimizations such as empty chunk removal and calls out to other methods to process different chunk types . The processor protocol here requires the method to accept values by yielding resulting lines while accepting sent chunks . Deferral of multip...
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def process_text ( self , kind , context ) : result = None while True : chunk = yield None if chunk is None : if result : yield result . clone ( line = repr ( result . line ) ) return if not result : result = chunk continue result . line += chunk . line
Combine multiple lines of bare text and emit as a Python string literal .
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def process_generic ( self , kind , context ) : result = None while True : chunk = yield result if chunk is None : return result = chunk . clone ( line = '_' + kind + '(' + chunk . line + ')' )
Transform otherwise unhandled kinds of chunks by calling an underscore prefixed function by that name .
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def process_format ( self , kind , context ) : result = None while True : chunk = yield result if chunk is None : return split = - 1 line = chunk . line try : ast . parse ( line ) except SyntaxError as e : split = line . rfind ( ' ' , 0 , e . offset ) result = chunk . clone ( line = '_bless(' + line [ : split ] . rstri...
Handle transforming format string + arguments into Python code .
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def copy ( self , * args , ** kwargs ) : self . make_body_seekable ( ) env = self . environ . copy ( ) new_req = self . __class__ ( env , * args , ** kwargs ) new_req . copy_body ( ) new_req . identity = self . identity return new_req
Copy the request and environment object .
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def add_source ( self , source ) : geocode_service = self . _get_service_by_name ( source [ 0 ] ) self . _sources . append ( geocode_service ( ** source [ 1 ] ) )
Add a geocoding service to this instance .
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def remove_source ( self , source ) : geocode_service = self . _get_service_by_name ( source [ 0 ] ) self . _sources . remove ( geocode_service ( ** source [ 1 ] ) )
Remove a geocoding service from this instance .
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def set_sources ( self , sources ) : if len ( sources ) == 0 : raise Exception ( 'Must declare at least one source for a geocoder' ) self . _sources = [ ] for source in sources : self . add_source ( source )
Creates GeocodeServiceConfigs from each str source
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def _apply_param_actions ( self , params , schema_params ) : for key , val in schema_params . items ( ) : if key not in params : continue if isinstance ( val , dict ) : self . _apply_param_actions ( params [ key ] , schema_params [ key ] ) elif isinstance ( val , ResourceId ) : resource_id = val params [ key ] = str ( ...
Traverse a schema and perform the updates it describes to params .
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def snpeff ( self ) : tstart = datetime . now ( ) se = snpeff . Snpeff ( self . vcf_file ) std = se . run ( ) tend = datetime . now ( ) execution_time = tend - tstart
Annotation with snpEff
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def cli ( ctx , settings , app ) : if app is None and settings is None : print ( 'Either --app or --settings must be supplied' ) ctx . ensure_object ( dict ) ctx . obj [ 'app' ] = app ctx . obj [ 'settings' ] = settings
Manage Morp application services
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def _settings_checker ( self , required_settings = None , accept_none = True ) : if required_settings is not None : for keyname in required_settings : if keyname not in self . _settings : return keyname if accept_none is False and self . _settings [ keyname ] is None : return keyname return True
Take a list of required _settings dictionary keys and make sure they are set . This can be added to a custom constructor in a subclass and tested to see if it returns True .
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def _get_response ( self , endpoint , query , is_post = False ) : timeout_secs = self . _settings . get ( 'timeout' , 10 ) headers = self . _settings . get ( 'request_headers' , { } ) try : if is_post : response = requests . post ( endpoint , data = query , headers = headers , timeout = timeout_secs ) else : response =...
Returns response or False in event of failure
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def _get_json_obj ( self , endpoint , query , is_post = False ) : response = self . _get_response ( endpoint , query , is_post = is_post ) content = response . text try : return loads ( content ) except ValueError : raise Exception ( 'Could not decode content to JSON:\n%s' % self . __class__ . __name__ , content )
Return False if connection could not be made . Otherwise return a response object from JSON .