def ssh_start(self, user=None, port=8801):
if user is None:
user = os.getenv('USER')
logging.info("")
hostname = self.get_member_annotation("host")
self.ssh_session = NeXPyroSession(user, hostname, port)
self.ssh_session.run()
def run():
global user, hostname, localPort, sessionTime
run_parser()
session = NeXPyroSession(user, hostname, localPort)
b = session.run()
if not b:
crash("session could not be established!")
if sessionTime != 0:
sleepSafe(sessionTime)
session.terminate()
def run():
global user, hostname, localPort, sessionTime
run_parser()
session = NeXPyroSession(user, hostname, localPort)
b = session.run()
if not b:
crash("session could not be established!")
if sessionTime != 0:
sleepSafe(sessionTime)
session.terminate()
def ssh_start(self, user=None, port=8801):
if user is None:
user = os.getenv('USER')
logging.info("")
hostname = self.get_member_annotation("host")
self.ssh_session = NeXPyroSession(user, hostname, port)
self.ssh_session.run()
class GlobusCatalog(object):
"""Class to interrogate Globus Catalogs
"""
def __init__(self, token_file=None):
if token_file is None:
token_file = os.path.join(os.path.expanduser('~'), '.nexpy',
'globusonline', 'gotoken.txt')
self.wrap = CatalogWrapper(token='file', token_file=token_file)
self.catalog = None
self.catalog_id = None
self.dataset = None
self.dataset_id = None
self.member = None
self.member_id = None
self.ssh_session = None
def get_catalogs(self):
_, catalogs = self.wrap.catalogClient.get_catalogs()
return sorted(catalogs)
def get_catalog(self, catalog_name):
self.catalog = catalog_name
self.catalog_id = None
for catalog in self.get_catalogs():
if catalog['config']['name'] == catalog_name:
self.catalog_id = catalog['id']
return self.catalog_id
def get_datasets(self, catalog_name):
self.get_catalog(catalog_name)
if self.catalog_id:
_, datasets = self.wrap.catalogClient.get_datasets(self.catalog_id)
return sorted(datasets)
else:
return []
def get_dataset(self, dataset_name):
self.dataset = dataset_name
self.dataset_id = None
for dataset in self.get_datasets(self.catalog):
if dataset['name'] == dataset_name:
self.dataset_id = dataset['id']
return self.dataset_id
def get_members(self, dataset_name):
self.get_dataset(dataset_name)
if self.catalog_id and self.dataset_id:
_, members = self.wrap.catalogClient.get_members(
self.catalog_id, self.dataset_id)
return sorted(members)
else:
return []
def get_member(self, member_name):
self.member = member_name
self.member_id = None
for member in self.get_members(self.dataset):
if member['data_uri'] == member_name:
self.member_id = member['id']
return self.member_id
def get_annotations_present(self):
# Retrieve a list of annotations present on the given member
request_string = \
"/catalog/id=%s/dataset/id=%s/member/id=%s/annotation/annotations_present" % \
(self.catalog_id, self.dataset_id, self.member_id)
_, result = self.wrap.catalogClient._request('GET', request_string)
if len(result) == 0:
print "No annotations!"
return None
annotations_present = result[0]['annotations_present']
return annotations_present
def get_member_annotation(self, tag):
annotations = self.get_annotations_present()
assert annotations != None
_, results = self.wrap.catalogClient.get_member_annotations(
self.catalog_id, self.dataset_id, self.member_id, annotations)
record = results[0]
return record[tag][0]
def load(self, user=None, port=8801):
if user is None:
user = os.getenv('USER')
uri = "PYRO:%s@localhost:%i" % (user, port)
logging.info("Pyro URI: " + uri)
remote_path = self.get_member_annotation("path")
logging.info("Pyro file name: " + remote_path)
hostname = self.get_member_annotation("host")
if self.ssh_session is None:
self.ssh_start(user, port)
import time
time.sleep(1)
return nxloadremote(remote_path, uri, hostname=hostname)
def ssh_start(self, user=None, port=8801):
if user is None:
user = os.getenv('USER')
logging.info("")
hostname = self.get_member_annotation("host")
self.ssh_session = NeXPyroSession(user, hostname, port)
self.ssh_session.run()
def ssh_stop(self):
logging.info("")
assert (self.ssh_session != None)
self.ssh_session.terminate()
self.ssh_session = None
def finalize(self):
if self.ssh_session != None:
self.ssh_session.terminate()
def __str__(self):
result = "GlobusCatalog"
if self.catalog != None:
result += ":" + self.catalog
if self.dataset != None:
if self.member == None:
result += "[%s]" % (self.dataset)
else:
result += "[%s:%s]" % (self.dataset, self.member)
return result
class GlobusCatalog(object):
"""Class to interrogate Globus Catalogs
"""
def __init__(self, token_file=None):
if token_file is None:
token_file = os.path.join(os.path.expanduser('~'),'.nexpy',
'globusonline', 'gotoken.txt')
self.wrap = CatalogWrapper(token='file', token_file=token_file)
self.catalog = None
self.catalog_id = None
self.dataset = None
self.dataset_id = None
self.member = None
self.member_id = None
self.ssh_session = None
def get_catalogs(self):
_, catalogs = self.wrap.catalogClient.get_catalogs()
return sorted(catalogs)
def get_catalog(self, catalog_name):
self.catalog = catalog_name
self.catalog_id = None
for catalog in self.get_catalogs():
if catalog['config']['name'] == catalog_name:
self.catalog_id = catalog['id']
return self.catalog_id
def get_datasets(self, catalog_name):
self.get_catalog(catalog_name)
if self.catalog_id:
_, datasets = self.wrap.catalogClient.get_datasets(self.catalog_id)
return sorted(datasets)
else:
return []
def get_dataset(self, dataset_name):
self.dataset = dataset_name
self.dataset_id = None
for dataset in self.get_datasets(self.catalog):
if dataset['name'] == dataset_name:
self.dataset_id = dataset['id']
return self.dataset_id
def get_members(self, dataset_name):
self.get_dataset(dataset_name)
if self.catalog_id and self.dataset_id:
_, members = self.wrap.catalogClient.get_members(self.catalog_id,
self.dataset_id)
return sorted(members)
else:
return []
def get_member(self, member_name):
self.member = member_name
self.member_id = None
for member in self.get_members(self.dataset):
if member['data_uri'] == member_name:
self.member_id = member['id']
return self.member_id
def get_annotations_present(self):
# Retrieve a list of annotations present on the given member
request_string = \
"/catalog/id=%s/dataset/id=%s/member/id=%s/annotation/annotations_present" % \
(self.catalog_id, self.dataset_id, self.member_id)
_, result = self.wrap.catalogClient._request('GET', request_string)
if len(result) == 0:
print "No annotations!"
return None
annotations_present = result[0]['annotations_present']
return annotations_present
def get_member_annotation(self, tag):
annotations = self.get_annotations_present()
assert annotations != None
_, results = self.wrap.catalogClient.get_member_annotations(
self.catalog_id, self.dataset_id, self.member_id, annotations)
record = results[0]
return record[tag][0]
def load(self, user=None, port=8801):
if user is None:
user = os.getenv('USER')
uri = "PYRO:%s@localhost:%i" % (user, port)
logging.info("Pyro URI: " + uri)
remote_path = self.get_member_annotation("path")
logging.info("Pyro file name: " + remote_path)
hostname = self.get_member_annotation("host")
if self.ssh_session is None:
self.ssh_start(user, port)
import time
time.sleep(1)
return nxloadremote(remote_path, uri, hostname=hostname)
def ssh_start(self, user=None, port=8801):
if user is None:
user = os.getenv('USER')
logging.info("")
hostname = self.get_member_annotation("host")
self.ssh_session = NeXPyroSession(user, hostname, port)
self.ssh_session.run()
def ssh_stop(self):
logging.info("")
assert(self.ssh_session != None)
self.ssh_session.terminate()
self.ssh_session = None
def finalize(self):
if self.ssh_session != None:
self.ssh_session.terminate()
def __str__(self):
result = "GlobusCatalog"
if self.catalog != None:
result += ":" + self.catalog
if self.dataset != None:
if self.member == None:
result += "[%s]"%(self.dataset)
else:
result += "[%s:%s]"%(self.dataset,self.member)
return result
