def loadmodel(self,string): # {{{
#Get model path
if not isinstance(string,(str,unicode)):
raise TypeError("argument provided is not a string")
path1=os.path.join(self.repository,self.prefix+string+'.python')
path2=os.path.join(self.repository,string)
#figure out if the model is there, otherwise, we have to use the default path supplied by user.
if whichdb(path1):
md=loadmodel(path1)
return md
elif whichdb(path2):
md=loadmodel(path2)
return md
#If we are here, the model has not been found. Try trunk prefix if provided
if self.trunkprefix:
path2=os.path.join(self.repository,self.trunkprefix+string)
if not os.path.exists(path2):
raise IOError("Could find neither '%s' nor '%s'" % (path,path2))
else:
print "--> Branching '%s' from trunk '%s'" % (self.prefix,self.trunkprefix)
md=loadmodel(path2)
return md
else:
raise IOError("Could not find '%s'" % path1)
def main():
print "Pickle is available."
db = dumbdbm.open("dumbdb", "c")
db["1"] = "1"
db.close()
dbstr = whichdb.whichdb("dumbdb")
if dbstr:
print "Dumbdbm is available."
else:
print "Dumbdbm is not available."
db = dbhash.open("dbhash", "c")
db["1"] = "1"
db.close()
dbstr = whichdb.whichdb("dbhash")
if dbstr == "dbhash":
print "Dbhash is available."
else:
print "Dbhash is not available."
if bsddb is None:
dbstr = ""
else:
db = bsddb.hashopen("bsddb3", "c")
db["1"] = "1"
db.close()
dbstr = whichdb.whichdb("bsddb3")
if dbstr == "dbhash":
print "Bsddb[3] is available."
else:
print "Bsddb[3] is not available."
print
hammie = get_pathname_option("Storage", "persistent_storage_file")
use_dbm = options["Storage", "persistent_use_database"]
if not use_dbm:
print "Your storage %s is a: pickle" % (hammie,)
return
if not os.path.exists(hammie):
print "Your storage file does not exist yet."
return
db_type = whichdb.whichdb(hammie)
if db_type == "dbhash":
# could be dbhash or bsddb3
# only bsddb3 has a __version__ attribute - old bsddb module does not
if hasattr(bsddb, '__version__'):
try:
db = bsddb.hashopen(hammie, "r")
except bsddb.error:
pass
else:
db.close()
print "Your storage", hammie, "is a: bsddb[3]"
return
elif db_type is None:
print "Your storage %s is unreadable." % (hammie,)
print "Your storage %s is a: %s" % (hammie, db_type)
def main():
print "Pickle is available."
db = dumbdbm.open("dumbdb", "c")
db["1"] = "1"
db.close()
dbstr = whichdb.whichdb("dumbdb")
if dbstr:
print "Dumbdbm is available."
else:
print "Dumbdbm is not available."
db = dbhash.open("dbhash", "c")
db["1"] = "1"
db.close()
dbstr = whichdb.whichdb("dbhash")
if dbstr == "dbhash":
print "Dbhash is available."
else:
print "Dbhash is not available."
if bsddb is None:
dbstr = ""
else:
db = bsddb.hashopen("bsddb3", "c")
db["1"] = "1"
db.close()
dbstr = whichdb.whichdb("bsddb3")
if dbstr == "dbhash":
print "Bsddb[3] is available."
else:
print "Bsddb[3] is not available."
print
hammie = get_pathname_option("Storage", "persistent_storage_file")
use_dbm = options["Storage", "persistent_use_database"]
if not use_dbm:
print "Your storage %s is a: pickle" % (hammie,)
return
if not os.path.exists(hammie):
print "Your storage file does not exist yet."
return
db_type = whichdb.whichdb(hammie)
if db_type == "dbhash":
# could be dbhash or bsddb3
# only bsddb3 has a __version__ attribute - old bsddb module does not
if hasattr(bsddb, '__version__'):
try:
db = bsddb.hashopen(hammie, "r")
except bsddb.error:
pass
else:
db.close()
print "Your storage", hammie, "is a: bsddb[3]"
return
elif db_type is None:
print "Your storage %s is unreadable." % (hammie,)
print "Your storage %s is a: %s" % (hammie, db_type)
def _set_vhost_db(self, vhost_db):
""" validate and set the vhost db"""
from whichdb import whichdb
if vhost_db == '':
PropertyManager._setPropValue(self, 'vhost_db', '')
elif whichdb(vhost_db) is None or whichdb(vhost_db) == '':
raise CheezeError, "vhost_db must point to a valid dbm file"
else:
clean_path = self._scrub_path(vhost_db)
PropertyManager._setPropValue(self, 'vhost_db', clean_path)
def test_whichdb_name(self, name=name, mod=mod):
# Check whether whichdb correctly guesses module name
# for databases opened with module mod.
# Try with empty files first
f = mod.open(_fname, 'c')
f.close()
self.assertEqual(name, whichdb.whichdb(_fname))
# Now add a key
f = mod.open(_fname, 'w')
f["1"] = "1"
f.close()
self.assertEqual(name, whichdb.whichdb(_fname))
def test_whichdb_name(self, name=name, mod=mod):
# Check whether whichdb correctly guesses module name
# for databases opened with module mod.
# Try with empty files first
f = mod.open(_fname, 'c')
f.close()
self.assertEqual(name, whichdb.whichdb(_fname))
# Now add a key
f = mod.open(_fname, 'w')
f["1"] = "1"
f.close()
self.assertEqual(name, whichdb.whichdb(_fname))
def loadmodel(path):
"""
LOADMODEL - load a model using built-in load module
check that model prototype has not changed. if so, adapt to new model prototype.
Usage:
md=loadmodel(path)
"""
#check existence of database (independent of file extension!)
if whichdb(path):
#do nothing
pass
else:
try:
NCFile = Dataset(path, mode='r')
NCFile.close()
pass
except RuntimeError:
raise IOError("loadmodel error message: file '%s' does not exist" %
path)
# try:
#recover model on file and name it md
struc = loadvars(path)
name = [key for key in struc.iterkeys()]
if len(name) > 1:
raise IOError(
"loadmodel error message: file '%s' contains several variables. Only one model should be present."
% path)
md = struc[name[0]]
return md
def main():
"""Main function"""
# WRITE #######
db = dbm.open('foo_dbm', 'c')
db['one'] = 'un'
db['two'] = 'dos'
db['three'] = 'tres'
db.close()
# WHICH DBM ###
print "whichdb:", whichdb.whichdb('foo_dbm')
print
# READ ########
db = dbm.open('foo_dbm', 'r')
for k in db.keys():
print k, ':', db[k]
db.close()
def main():
"""Main function"""
# WRITE #######
db = gdbm.open('foo_gdbm', 'c')
db['one'] = 'un'
db['two'] = 'dos'
db['three'] = 'tres'
db.close()
# WHICH DBM ###
print "whichdb:", whichdb.whichdb('foo_gdbm')
print
# READ ########
db = gdbm.open('foo_gdbm', 'r')
# Iterate loop: first method (common to any dbm module)
for k in db.keys():
print k, ':', db[k]
# Iterate loop: second method (more efficient)
# The following code prints every key in the database db, without having to create a list in memory that contains them all.
k = db.firstkey()
while k != None:
print k, ':', db[k]
k = db.nextkey(k)
db.close()
def get_comment_db(songbook_path):
# check if this is the All songs songbook, if so don't do anything
if songbook_path == c.ALL_SONGS_PATH:
return dict()
comment_path = posixpath.splitext(songbook_path)[0] + '.comment'
# check if this is an old comment file -- we now use dumbdbm for portability
# upgrade done automatically TODO: this could be removed in the future
if whichdb.whichdb(comment_path) != 'dumbdbm':
# get a copy of the comments
old_shelf = shelve.open(comment_path)
comments = dict(old_shelf)
old_shelf.close()
# remove the old database file
files = glob.glob(comment_path+'*')
for f in files:
os.remove(f)
# write comments into dumbdbm shelf
new_shelf = shelve.Shelf(dumbdbm.open(comment_path))
for k in comments.keys():
new_shelf[k] = comments[k]
new_shelf.close() # close to make sure .comment file saved
# now assured of a dumbdbm shelf
return shelve.Shelf(dumbdbm.open(comment_path))
def open(file, flag = 'r', mode = 0666):
# guess the type of an existing database
from whichdb import whichdb
result=whichdb(file)
if result == "":
# Check if we have a 0-length file
statinfo = os.stat(file)
if statinfo.st_size == 0:
os.remove(file)
result = None
if result is None:
# db doesn't exist
if 'c' in flag or 'n' in flag:
# file doesn't exist and the new
# flag was used so use default type
mod = _defaultmod
else:
raise error, "need 'c' or 'n' flag to open new db"
elif result == "":
# db type cannot be determined
raise error, "db type could not be determined: %s" % file
else:
mod = __import__(result)
return mod.open(file, flag, mode)
def main():
"""Main function"""
# WRITE #######
db = gdbm.open('foo_gdbm', 'c')
db['one'] = 'un'
db['two'] = 'dos'
db['three'] = 'tres'
db.close()
# WHICH DBM ###
print "whichdb:", whichdb.whichdb('foo_gdbm')
print
# READ ########
db = gdbm.open('foo_gdbm', 'r')
# Iterate loop: first method (common to any dbm module)
for k in db.keys():
print k, ':', db[k]
# Iterate loop: second method (more efficient)
# The following code prints every key in the database db, without having to create a list in memory that contains them all.
k = db.firstkey()
while k != None:
print k, ':', db[k]
k = db.nextkey(k)
db.close()
def isDbUpToDate ( databaseFile ):
""" Check if index database is up to date """
upToDate = False
for dbFile in ( databaseFile + os.path.extsep + 'db', databaseFile ):
try:
if not os.path.exists(dbFile):
# Database doesn't exist, try next one
continue;
if not whichdb(dbFile):
# Not in a readable format
logger.debug ( 'Database not in a readable format: %s', dbFile );
break;
# From here, database exists and is readable
db = dbm.open(dbFile)
sourceFile = db["__source_path__"]
if not os.path.exists(sourceFile):
# Source file doesn't exist any more
break;
textFileSum = md5sum(sourceFile)
if textFileSum != db["__source_md5__"]:
logger.debug ( 'Source file checksum differs from the one used to build the database: %s', sourceFile );
db.close()
break;
if not db["__version__"] == Database.version:
logger.debug ( 'Database version "%s" doesn\'t match this version "%s"', db["__version__"], Database.version );
db.close()
break;
db.close()
# Everything is ok with the existing database
upToDate = True
break;
except Exception:
pass
return upToDate
def main():
"""Main function"""
# WRITE #######
db = anydbm.open('foo_anydbm', 'c')
db['one'] = 'un'
db['two'] = 'dos'
db['three'] = 'tres'
db.close()
# WHICH DBM ###
print "whichdb:", whichdb.whichdb('foo_anydbm')
print
# READ ########
db = anydbm.open('foo_anydbm', 'r')
# Iterate loop: first method (common to any dbm module)
for k in db.keys():
print k, ':', db[k]
# Iterate loop: second method (only dbhash and dumbdbm supports db.items())
for k, v in db.items():
print k, ':', v
db.close()
def open(file, flag='r', mode=0666):
"""Open or create database at path given by *file*.
Optional argument *flag* can be 'r' (default) for read-only access, 'w'
for read-write access of an existing database, 'c' for read-write access
to a new or existing database, and 'n' for read-write access to a new
database.
Note: 'r' and 'w' fail if the database doesn't exist; 'c' creates it
only if it doesn't exist; and 'n' always creates a new database.
"""
# guess the type of an existing database
from whichdb import whichdb
result = whichdb(file)
if result is None:
# db doesn't exist
if 'c' in flag or 'n' in flag:
# file doesn't exist and the new
# flag was used so use default type
mod = _defaultmod
else:
raise error, "need 'c' or 'n' flag to open new db"
elif result == "":
# db type cannot be determined
raise error, "db type could not be determined"
else:
mod = __import__(result)
return mod.open(file, flag, mode)
def main():
"""Main function"""
# WRITE #######
db = dbm.open('foo_dbm', 'c')
db['one'] = 'un'
db['two'] = 'dos'
db['three'] = 'tres'
db.close()
# WHICH DBM ###
print "whichdb:", whichdb.whichdb('foo_dbm')
print
# READ ########
db = dbm.open('foo_dbm', 'r')
for k in db.keys():
print k, ':', db[k]
db.close()
def open(file, flag='r', mode=0666):
"""Open or create database at path given by *file*.
Optional argument *flag* can be 'r' (default) for read-only access, 'w'
for read-write access of an existing database, 'c' for read-write access
to a new or existing database, and 'n' for read-write access to a new
database.
Note: 'r' and 'w' fail if the database doesn't exist; 'c' creates it
only if it doesn't exist; and 'n' always creates a new database.
"""
# guess the type of an existing database
from whichdb import whichdb
result=whichdb(file)
if result is None:
# db doesn't exist
if 'c' in flag or 'n' in flag:
# file doesn't exist and the new
# flag was used so use default type
mod = _defaultmod
else:
raise error, "need 'c' or 'n' flag to open new db"
elif result == "":
# db type cannot be determined
raise error, "db type could not be determined"
else:
mod = __import__(result)
return mod.open(file, flag, mode)
def main():
"""Main function"""
# WRITE #######
db = dumbdbm.open('foo_dumbdbm', 'c')
db['one'] = 'un'
db['two'] = 'dos'
db['three'] = 'tres'
db.close()
# WHICH DBM ###
print "whichdb:", whichdb.whichdb('foo_dumbdbm')
print
# READ ########
db = dumbdbm.open('foo_dumbdbm', 'r')
# Iterate loop: first method (common to any dbm module)
for k in db.keys():
print k, ':', db[k]
# Iterate loop: second method (dumbdbm supports db.items())
for k, v in db.items():
print k, ':', v
db.close()
def showStatus (self):
try:
w = whichdb.whichdb(self.path)
except Exception:
w = None
g.es('whichdb is %s at %s'%(w, self.path))
def showStatus(self):
try:
w = whichdb.whichdb(self.path)
except Exception:
w = None
g.es('whichdb is %s at %s' % (w, self.path))
def _find_shelves(shelve_dir):
"""
Return the location of CMIP5 shelve files as a dictionary.
"""
_check_shelve_version(shelve_dir)
# Locations of shelve files
template = os.path.join(shelve_dir, TEMPLATE_SHELVE)
stdo = os.path.join(shelve_dir, STDO_SHELVE)
stdo_mip = os.path.join(shelve_dir, STDO_MIP_SHELVE)
assert whichdb(template)
assert whichdb(stdo)
assert whichdb(stdo_mip)
return dict(template=template, stdo=stdo, stdo_mip=stdo_mip)
def test_anydbm_create(self):
# Verify that anydbm.open does *not* create a bsddb185 file
tmpdir = tempfile.mkdtemp()
try:
dbfile = os.path.join(tmpdir, "foo.db")
anydbm.open(dbfile, "c").close()
ftype = whichdb.whichdb(dbfile)
self.assertNotEqual(ftype, "bsddb185")
finally:
shutil.rmtree(tmpdir)
def test_anydbm_create(self):
# Verify that anydbm.open does *not* create a bsddb185 file
tmpdir = tempfile.mkdtemp()
try:
dbfile = os.path.join(tmpdir, "foo.db")
anydbm.open(dbfile, "c").close()
ftype = whichdb.whichdb(dbfile)
self.assertNotEqual(ftype, "bsddb185")
finally:
shutil.rmtree(tmpdir)
def validate_arguments(args):
"""
Validates passed arguments,
throws exception is something is wrong
"""
if not path.exists(args.config):
raise ValueError("Can not find application config: %s" % args.config)
if not whichdb(args.session):
raise ValueError("Can not find session storage file (%s), please, run \"install.py\" first" % args.session)
if not path.exists(args.file):
raise ValueError("Can not find file \"%s\" for backup" % args.file)
def open_db( self, fname, flag ):
"""Open the database, return a dictionary like object"""
shelf = None
# Some shelve implementations cannot be reopened
if not os.path.isfile( fname ):
shelf = shelve.open(filename=fname, flag=flag, protocol=2)
shelf.close()
dbtype = whichdb.whichdb( fname )
#log.info( 'database type: %s', dbtype )
shelf = shelve.open(filename=fname, flag=flag, protocol=2)
return shelf
def loadGiTaxBdb(self,inpFile):
import anydbm, whichdb
print whichdb.whichdb('/export/atovtchi/taxa.db')
gi2taxa = anydbm.open('/export/atovtchi/taxa.db', 'c')
inp = file(inpFile,'r')
iRow = 0
buff = {}
for line in inp:
(gi,taxid) = line.split()
buff[gi] = taxid
if iRow % 100000 == 0:
print gi, taxid, iRow
gi2taxa.update(buff)
buff = {}
iRow += 1
inp.close()
taxaCnt = {}
for (gi,taxid) in gi2taxa.iteritems():
taxaCnt[taxid] = taxaCnt.get(taxid,0) + 1
print sorted(((cnt,taxid) for (taxid,cnt) in taxaCnt.iteritems()))
class PoolFile(object):
"""
A simple class to retrieve informations about the content of a POOL file.
It should be abstracted from the underlying technology used to create this
POOL file (Db, ROOT,...).
Right now, we are using the easy and loosy solution: going straight to the
ROOT 'API'.
"""
def __init__(self, fileName, verbose=True):
object.__init__(self)
self._fileInfos = None
self.keys = None
self.dataHeader = PoolRecord("DataHeader", 0, 0, 0,
nEntries = 0,
dirType = "T")
self.data = []
self.verbose = verbose
# get the "final" file name (handles all kind of protocols)
try:
import PyUtils.AthFile as af
protocol, fileName = af.server.fname(fileName)
except Exception,err:
print "## warning: problem opening PoolFileCatalog:\n%s"%err
import traceback
traceback.print_exc(err)
pass
self.poolFile = None
dbFileName = whichdb.whichdb( fileName )
if not dbFileName in ( None, '' ):
if self.verbose==True:
print "## opening file [%s]..." % str(fileName)
db = shelve.open( fileName, 'r' )
if self.verbose==True:
print "## opening file [OK]"
report = db['report']
self._fileInfos = report['fileInfos']
self.dataHeader = report['dataHeader']
self.data = report['data']
else:
import PyUtils.Helpers as _H
projects = 'AtlasCore' if PoolOpts.FAST_MODE else None
with _H.restricted_ldenviron (projects=projects):
if self.verbose==True:
print "## opening file [%s]..." % str(fileName)
self.__openPoolFile( fileName )
if self.verbose==True:
print "## opening file [OK]"
self.__processFile()
return
def init_cache(self):
if self.new_style_cache:
subliminal.region.configure('subzero.cache.file', expiration_time=datetime.timedelta(days=180),
arguments={'appname': "sz_cache",
'app_cache_dir': self.data_path},
replace_existing_backend=True)
Log.Info("Using new style file based cache!")
return
names = ['dbhash', 'gdbm', 'dbm']
dbfn = None
self.dbm_supported = False
# try importing dbm modules
if Core.runtime.os != "Windows":
impawrt = None
try:
impawrt = getattr(sys.modules['__main__'], "__builtins__").get("__import__")
except:
pass
if impawrt:
for name in names:
try:
impawrt(name)
except:
continue
if not self.dbm_supported:
self.dbm_supported = name
break
if self.dbm_supported:
# anydbm checks; try guessing the format and importing the correct module
dbfn = os.path.join(config.data_items_path, 'subzero.dbm')
db_which = whichdb(dbfn)
if db_which is not None and db_which != "":
try:
impawrt(db_which)
except ImportError:
self.dbm_supported = False
if self.dbm_supported:
try:
subliminal.region.configure('dogpile.cache.dbm', expiration_time=datetime.timedelta(days=30),
arguments={'filename': dbfn,
'lock_factory': MutexLock},
replace_existing_backend=True)
Log.Info("Using file based cache!")
return
except:
self.dbm_supported = False
Log.Warn("Not using file based cache!")
subliminal.region.configure('dogpile.cache.memory', replace_existing_backend=True)
def execute(self, opt_values, pos_args):
dep_file = opt_values['dep_file']
db_type = whichdb(dep_file)
print("DBM type is '%s'" % db_type)
if db_type in ('dbm', 'dbm.ndbm'): # pragma: no cover
raise InvalidCommand('ndbm does not support iteration of elements')
data = dbm.open(dep_file)
for key, value_str in dbm_iter(data):
value_dict = json.loads(value_str.decode('utf-8'))
value_fmt = pprint.pformat(value_dict, indent=4, width=100)
print("{key} -> {value}".format(key=key, value=value_fmt))
def open(db_name, mode):
if os.path.exists(db_name):
# let the file tell us what db to use
dbm_type = whichdb.whichdb(db_name)
else:
# fresh file - open with what the user specified
dbm_type = options["globals", "dbm_type"].lower()
f = open_funcs.get(dbm_type)
if f is None:
raise error("Unknown dbm type: %s" % dbm_type)
return f(db_name, mode)
def main():
if len(sys.argv) != 2:
sys.stderr.write("usage: {} DBM_FILE\n".format(sys.argv[0]))
exit(1)
filename = sys.argv[1]
which = whichdb(filename)
# if which returns none and the file does not exist, print usage line
if which == None and not os.path.exists(sys.argv[1]):
sys.stderr.write('No such file {}\n\n'.format(sys.argv[1]))
sys.stderr.write("usage: {} DBM_FILE\n".format(sys.argv[0]))
exit(1)
# covers case where an ndbm is checked with its extension & identified incorrectly
elif 'bsd' in which:
correct_file = filename.split(".db")[0]
correct_which = whichdb(correct_file)
if correct_which in ('dbm', 'dbm.ndbm'):
filename = correct_file
which = correct_which
elif which == '':
sys.stderr.write("{} is an unrecognized database type\n".format(
sys.argv[1]))
sys.stderr.write("Try the file again by removing the extension\n")
exit(1)
try:
out = sys.stdout.buffer
except AttributeError:
out = sys.stdout
out.write(
filename.encode('UTF-8') + b' is a ' + which.encode('UTF-8') +
b' db\n')
db = dbm.open(filename, 'r')
for key in db.keys():
out.write(key + b":" + db[key] + b"\n")
def info(ctx, data):
'''
Display summary information about the DB
'''
print('DB Type:', whichdb(ctx.parent.params['db']))
print('Version:', data.get('_dbversion'))
print('Name :', data.get('name'))
print('Key :', data.get('_key'))
print("Count :", len(data))
print()
print('Location(s):')
pprint.pprint(data.get('_serial_libraries'))
def info(ctx, data):
'''
Display summary information about the DB
'''
print('DB Type:', whichdb(ctx.parent.params['db']))
print('Version:', data.get('_dbversion'))
print('Name :', data.get('name'))
print('Key :', data.get('_key'))
print("Count :", len(data))
print()
print('Location(s):')
pprint.pprint(data.get('_serial_libraries'))
def open(file, flag = 'r', mode = 438):
from whichdb import whichdb
result = whichdb(file)
if result is None:
if 'c' in flag or 'n' in flag:
mod = _defaultmod
else:
raise error, "need 'c' or 'n' flag to open new db"
elif result == '':
raise error, 'db type could not be determined'
else:
mod = __import__(result)
return mod.open(file, flag, mode)
def open_db(filename):
"""given a filename string, returns UndoDB or OldUndoDB
if the file doesn't exist, this uses UndoDB by default
otherwise, detect OldUndoDB if xdelta is installed"""
if (BIN.can_execute(BIN["xdelta"])):
db = whichdb.whichdb(filename)
if ((db is not None) and (db != '')):
return OldUndoDB(filename)
else:
return UndoDB(filename)
else:
return UndoDB(filename)
def open_db(filename):
"""given a filename string, returns UndoDB or OldUndoDB
if the file doesn't exist, this uses UndoDB by default
otherwise, detect OldUndoDB if xdelta is installed"""
if (BIN.can_execute(BIN["xdelta"])):
db = whichdb.whichdb(filename)
if ((db is not None) and (db != '')):
return OldUndoDB(filename)
else:
return UndoDB(filename)
else:
return UndoDB(filename)
def open(db_name, mode):
if os.path.exists(db_name) and \
options.default("globals", "dbm_type") != \
options["globals", "dbm_type"]:
dbm_type = whichdb.whichdb(db_name)
if sys.platform == "win32" and sys.version_info < (2,3) and \
dbm_type == "dbhash":
dbm_type = "db3hash"
else:
dbm_type = options["globals", "dbm_type"].lower()
f = open_funcs.get(dbm_type)
if f is None:
raise error("Unknown dbm type: %s" % dbm_type)
return f(db_name, mode)
def dbm_cache_type(dbmfile):
global dbm_types
if dbm_types.has_key(dbmfile):
return dbm_types[dbmfile]
module = whichdb.whichdb(dbmfile)
if module:
dbm_type = __import__(module)
dbm_types[dbmfile] = dbm_type
return dbm_type
else:
# this is a new file
return anydbm
def perform_maintenance(self):
import whichdb
try:
print("performing maintenance on %d database chunks" % len(self._data))
for db in self._data:
path = db[_PATHKEY]
db_type = whichdb.whichdb(path)
print("checking %s, type: %s" % (path, db_type))
try:
db.reorganize()
except gdbm.error:
print("error: failed to reorganize db chunk")
continue
finally:
self.close()
def open(db_name, mode):
if os.path.exists(db_name):
# let the file tell us what db to use
dbm_type = whichdb.whichdb(db_name)
# if we are using Windows and Python < 2.3, then we need to use
# db3hash, not dbhash.
if sys.platform == "win32" and sys.version_info < (2,3) and \
dbm_type == "dbhash":
dbm_type = "db3hash"
else:
# fresh file - open with what the user specified
dbm_type = options["globals", "dbm_type"].lower()
f = open_funcs.get(dbm_type)
if f is None:
raise error("Unknown dbm type: %s" % dbm_type)
return f(db_name, mode)
def __init__(self, *name):
filename = get_settings_path(*name)
# Dirty. Try to avoid locking of gdbm files
result = whichdb.whichdb(filename)
if result is None:
result = anydbm._defaultmod.__name__
elif result == "":
raise Exception("db type of %s could not be determined" % filename)
if result == "gdbm":
flags = "cu"
else:
flags = "c"
self.db = anydbm.open(filename, flags)
def cache_db_type(self, path):
''' determine which DB wrote the class file, and cache it as an
attribute of __class__ (to allow for subclassed DBs to be
different sorts)
'''
db_type = ''
if os.path.exists(path):
db_type = whichdb.whichdb(path)
if not db_type:
raise hyperdb.DatabaseError, \
_("Couldn't identify database type")
elif os.path.exists(path + '.db'):
# if the path ends in '.db', it's a dbm database, whether
# anydbm says it's dbhash or not!
db_type = 'dbm'
self.__class__._db_type = db_type
def cache_db_type(self, path):
''' determine which DB wrote the class file, and cache it as an
attribute of __class__ (to allow for subclassed DBs to be
different sorts)
'''
db_type = ''
if os.path.exists(path):
db_type = whichdb.whichdb(path)
if not db_type:
raise hyperdb.DatabaseError, \
_("Couldn't identify database type")
elif os.path.exists(path+'.db'):
# if the path ends in '.db', it's a dbm database, whether
# anydbm says it's dbhash or not!
db_type = 'dbm'
self.__class__._db_type = db_type
def open(file, flag = 'r', mode = 0666):
# guess the type of an existing database
from whichdb import whichdb
result=whichdb(file)
if result is None:
# db doesn't exist
if 'c' in flag or 'n' in flag:
# file doesn't exist and the new
# flag was used so use default type
mod = _defaultmod
else:
raise error, "need 'c' or 'n' flag to open new db"
elif result == "":
# db type cannot be determined
raise error, "db type could not be determined"
else:
mod = __import__(result)
return mod.open(file, flag, mode)
def open(file, flag = 'r', mode = 0666):
# guess the type of an existing database
from whichdb import whichdb
result=whichdb(file)
if result is None:
# db doesn't exist
if 'c' in flag or 'n' in flag:
# file doesn't exist and the new
# flag was used so use default type
mod = _defaultmod
else:
raise error, "need 'c' or 'n' flag to open new db"
elif result == "":
# db type cannot be determined
raise error, "db type could not be determined"
else:
mod = __import__(result)
return mod.open(file, flag, mode)
def open(db_name, mode):
if os.path.exists(db_name) and \
options.default("globals", "dbm_type") != \
options["globals", "dbm_type"]:
# let the file tell us what db to use
dbm_type = whichdb.whichdb(db_name)
# if we are using Windows and Python < 2.3, then we need to use
# db3hash, not dbhash.
if (sys.platform == "win32" and sys.version_info < (2, 3)
and dbm_type == "dbhash"):
dbm_type = "db3hash"
else:
# fresh file or overridden - open with what the user specified
dbm_type = options["globals", "dbm_type"].lower()
f = open_funcs.get(dbm_type)
if f is None:
raise error("Unknown dbm type: %s" % dbm_type)
return f(db_name, mode)
def initialize_database(writeable=False):
# Get the db file name where qcd info is/will_be stored
file = mapDbFileNameForHost(qcdCmdParser.getOption("file").value)
if not writeable and not isfile(file):
print >> sys.stderr, "Database is empty! Try adding something!"
sys.exit(1)
# changing the global dbType variable, it will contain the infomration
# retrieved from whichdb, which basically says which db implementation was
# used to create the db file.
global dbType
dbType = whichdb(file)
# Open the db
if writeable:
return anydbm.open(file, 'c')
else:
return anydbm.open(file, 'r')
def initialize_database (writeable = False):
# Get the db file name where qcd info is/will_be stored
file = mapDbFileNameForHost( qcdCmdParser.getOption("file").value )
if not writeable and not isfile(file):
print >> sys.stderr, "Database is empty! Try adding something!"
sys.exit (1)
# changing the global dbType variable, it will contain the infomration
# retrieved from whichdb, which basically says which db implementation was
# used to create the db file.
global dbType
dbType = whichdb(file)
# Open the db
if writeable:
return anydbm.open (file, 'c')
else:
return anydbm.open (file, 'r')
def __init__(self, fileName, verbose=True):
object.__init__(self)
self._fileInfos = None
self.keys = None
self.dataHeader = PoolRecord("DataHeader", 0, 0, 0,
nEntries = 0,
dirType = "T")
self.data = []
self.verbose = verbose
# get the "final" file name (handles all kind of protocols)
try:
import PyUtils.AthFile as af
protocol, fileName = af.server.fname(fileName)
except Exception as err:
print("## warning: problem opening PoolFileCatalog:\n%s"%err)
import traceback
traceback.print_exc(err)
pass
self.poolFile = None
dbFileName = whichdb( fileName )
if dbFileName not in ( None, '' ):
if self.verbose is True:
print("## opening file [%s]..." % str(fileName))
db = shelve.open( fileName, 'r' )
if self.verbose is True:
print("## opening file [OK]")
report = db['report']
self._fileInfos = report['fileInfos']
self.dataHeader = report['dataHeader']
self.data = report['data']
else:
if self.verbose is True:
print("## opening file [%s]..." % str(fileName))
self.__openPoolFile( fileName )
if self.verbose is True:
print("## opening file [OK]")
self.__processFile()
return
def open(self):
self.storagelock.acquire()
try:
if self.opened():
raise TypeError("Storage already opened")
if not os.path.isdir(self.path):
# No need to compact newly created DB.
os.makedirs(self.path)
dbexisted = whichdb(self.filepath)
self.database = anydbm.open(self.filepath, "c")
self.dbmtype = None
self._opened.set()
self._closed.clear()
# Only compact on open if whichdb() indicated dataabase
# existing DB was opened; if new DB was created, there's
# no need to compact.
if dbexisted and self.COMPACT and self.COMPACT_ON_OPEN:
self.compact()
finally:
self.storagelock.release()
def has_dbhash():
" returns 1 if has a dbhash database "
dbflag = 0
filename = '_mytmpdata63636'
db = shelve.open(filename)
# put in some test data (incl. a class object)
k = 'key1'
db[k] = [1, 0, 2, 0, 3, 0]
ac = AC()
k = 'key2'
db[k] = ac
db.close()
dbtype = whichdb.whichdb(filename)
if dbtype == 'dbhash':
dbflag = 1
os.system("\\rm %s*" % filename)
return dbflag
def depfile(request):
if hasattr(request, 'param'):
dep_class = request.param
else:
dep_class = Dependency
# copied from tempdir plugin
name = request._pyfuncitem.name
name = py.std.re.sub("[\W]", "_", name)
my_tmpdir = request.config._tmpdirhandler.mktemp(name, numbered=True)
dep_file = dep_class(os.path.join(my_tmpdir.strpath, "testdb"))
dep_file.whichdb = whichdb(dep_file.name)
dep_file.name_ext = db_ext.get(dep_file.whichdb, [''])
def remove_depfile():
if not dep_file._closed:
dep_file.close()
remove_db(dep_file.name)
request.addfinalizer(remove_depfile)
return dep_file
def open_shelf(path):
'''
Opens a python shelf file, used to store various types of metadata
'''
# As of Exaile 4, new DBs will only be created as Berkeley DB Hash databases
# using either bsddb3 (external) or bsddb (stdlib but sometimes removed).
# Existing DBs created with other backends will be migrated to Berkeley DB.
# We do this because BDB is generally considered more performant,
# and because gdbm currently doesn't work at all in MSYS2.
# Some DBM modules don't use the path we give them, but rather they have
# multiple filenames. If the specified path doesn't exist, double check
# to see if whichdb returns a result before trying to open it with bsddb
force_migrate = False
if not os.path.exists(path):
from whichdb import whichdb
if whichdb(path) is not None:
force_migrate = True
if not force_migrate:
try:
db = bsddb.hashopen(path, 'c')
return shelve.BsdDbShelf(db, protocol=PICKLE_PROTOCOL)
except bsddb.db.DBInvalidArgError:
logger.warning("%s was created with an old backend, migrating it",
path)
except Exception:
raise
# special case: zero-length file
if not force_migrate and os.path.getsize(path) == 0:
os.unlink(path)
else:
from xl.migrations.database.to_bsddb import migrate
migrate(path)
db = bsddb.hashopen(path, 'c')
return shelve.BsdDbShelf(db, protocol=PICKLE_PROTOCOL)
def main():
"""Main function"""
# WRITE #######
db = dbhash.open('foo_dbhash', 'c')
db['one'] = 'un'
db['two'] = 'dos'
db['three'] = 'tres'
db.close()
# WHICH DBM ###
print "whichdb:", whichdb.whichdb('foo_dbhash')
print
# READ ########
db = dbhash.open('foo_dbhash', 'r')
# Iterate loop: first method (common to any dbm module)
for k in db.keys():
print k, ':', db[k]
# Iterate loop: second method (dbhash supports db.items())
for k, v in db.items():
print k, ':', v
# Iterate loop: third method (the most efficient)
# The following code prints every key in the database db, without having to create a list in memory that contains them all.
print db.first()
for i in xrange(1, len(db)):
print db.next()
db.close()
def __init__(self, fileName):
object.__init__(self)
self._fileInfos = None
self.keys = None
self.dataHeader = None
# trigger stuff
self.trigConf = None
self.l1_global = None
self.l1_items = []
self.l2_global = None
self.l2_chains = []
self.ef_global = None
self.ef_chains = []
self.poolFile = None
dbFileName = whichdb.whichdb(fileName)
if dbFileName not in (None, ''):
print("## opening file [%s]..." % str(fileName))
db = shelve.open(fileName, 'r')
print("## opening file [OK]")
report = db['report']
self._fileInfos = report['fileInfos']
self.l1_items = report['l1_data']
self.l2_chains = report['l2_data']
self.ef_chains = report['ef_data']
self.l1_global = report['l1_global']
self.l2_global = report['l2_global']
self.ef_global = report['ef_global']
else:
print("## opening file [%s]..." % str(fileName))
self.__openPoolFile(fileName)
print("## opening file [OK]")
self.__processFile()
return