def __init__(self, institution='tardis'):
self.institution = institution
self.sites = None
self.site_manager = SiteManager()
def __init__(self, institution='tardis'):
self.institution = institution
self.sites = None
self.site_manager = SiteManager()
class SyncManager(object):
def __init__(self, institution='tardis'):
self.institution = institution
self.sites = None
self.site_manager = SiteManager()
def generate_exp_uid(self, experiment):
uid_str = "%s.%s" % (self.institution, experiment.pk)
return uid_str
def _exp_from_uid(self, uid):
try:
[institution, pk] = uid.split('.')
pk = int(pk)
except ValueError:
raise TransferService.InvalidUIDError('Invalid format')
if institution != self.institution:
raise TransferService.InvalidUIDError('Invalid institution')
try:
exp = Experiment.objects.get(pk=pk)
except Experiment.DoesNotExist:
raise TransferService.InvalidUIDError('Experiment does not exist')
return exp
# originally '_register_file_settings' in parser
#
# TODO change the mecat-as app etc to call this
# rather than the parser.py files registration logic
#
def push_experiment_to_institutions(self, experiment, owners):
"""
Transfers experiment metadata to experiment owner's
MyTardis instance at the home institute.
:keyword experiment: Experiment object to transfer.
:keyword owners: Emails of owners of the experiment.
"""
sites = []
# loop over sites
for ss in self.site_manager.sites():
# is the email domain of the experiment's owner registered
# by any site?
site_owners = []
for owner in owners:
for domain in ss['email-endswith']:
if owner.endswith(domain):
site_owners.append(owner)
break
register_settings = ss['register']
# register meta-data and file transfer request at another
# MyTARDIS instance
if site_owners:
success = self._post_experiment(experiment, site_owners,
register_settings)
sites.append((ss['register']['url'], success))
# return a list of registered sites
return sites
def _post_experiment(self, experiment, site_owners, site_settings):
uid = self.generate_exp_uid(experiment)
url = site_settings['url']
username = site_settings['username']
password = site_settings['password']
protocol = site_settings['fileProtocol']
# Create the form with simple fields
mpform = MultiPartForm()
mpform.add_field('username', username)
mpform.add_field('password', password)
mpform.add_field('from_url', settings.MYTARDIS_SITE_URL)
mpform.add_field('originid', uid)
for owner in site_owners:
mpform.add_field('experiment_owner', owner)
# export METS file
filename = 'mets_expid_%i_%s' % (experiment.id, protocol)
logger.debug('=== extracting mets file for experiment %s ' % uid)
from tardis.tardis_portal.metsexporter import MetsExporter
exporter = MetsExporter()
if protocol:
# translate vbl:// into tardis:// url for datafiles
metsfile = exporter.export(experimentId=experiment.id,
replace_protocols={'vbl': protocol},
filename=filename,
export_images=False)
else:
metsfile = exporter.export(experimentId=experiment.id,
filename=filename,
export_images=False)
logger.debug('=== extraction done, filename = %s' % metsfile)
f = open(metsfile, "r")
mpform.add_file('xmldata', 'METS.xml', fileHandle=f)
body = str(mpform)
logger.debug('about to send register request to site %s' % url)
# build the request
headers = {
'User-agent': 'MyTardis',
'Content-type': mpform.get_content_type(),
}
# This should be made into a background task.
# Or rather- the processing on the other end should be.
h = Http(timeout=9999, disable_ssl_certificate_validation=True)
h.force_exception_to_status_code = True
resp, content = h.request(url, 'POST', headers=headers, body=body)
f.close()
if resp.status != 200:
logger.error('Posting experiment to %s failed:' % url)
logger.error('%s: %s' % (resp.status, resp.reason))
logger.debug('SERVER RESPONSE: ' + content)
return False
return True
def start_file_transfer(self, uid, site_settings_url, dest_path):
exp = self._exp_from_uid(uid)
site_settings = self.site_manager.get_site_settings(site_settings_url)
if site_settings is None:
raise TransferService.SiteError(
'Error retrieving settings for site %s' % site_settings_url)
return self._start_file_transfer(exp, site_settings['transfer'],
dest_path)
def get_status(self, uid):
exp = self._exp_from_uid(uid)
return self._get_status(exp)
def _start_file_transfer(self, experiment, settings, path):
return True
def _get_status(self, experiment):
return (TransferService.TRANSFER_FAILED, time.time(), {})
class SyncManager(object):
def __init__(self, institution='tardis'):
self.institution = institution
self.sites = None
self.site_manager = SiteManager()
def generate_exp_uid(self, experiment):
uid_str = "%s.%s" % (self.institution, experiment.pk)
return uid_str
def _exp_from_uid(self, uid):
try:
[institution, pk] = uid.split('.')
pk = int(pk)
except ValueError:
raise TransferService.InvalidUIDError('Invalid format')
if institution != self.institution:
raise TransferService.InvalidUIDError('Invalid institution')
try:
exp = Experiment.objects.get(pk=pk)
except Experiment.DoesNotExist:
raise TransferService.InvalidUIDError('Experiment does not exist')
return exp
# originally '_register_file_settings' in parser
#
# TODO change the mecat-as app etc to call this
# rather than the parser.py files registration logic
#
def push_experiment_to_institutions(self, experiment, owners):
"""
Transfers experiment metadata to experiment owner's
MyTardis instance at the home institute.
:keyword experiment: Experiment object to transfer.
:keyword owners: Emails of owners of the experiment.
"""
sites = []
# loop over sites
for ss in self.site_manager.sites():
# is the email domain of the experiment's owner registered
# by any site?
site_owners = []
for owner in owners:
for domain in ss['email-endswith']:
if owner.endswith(domain):
site_owners.append(owner)
break
register_settings = ss['register']
# register meta-data and file transfer request at another
# MyTARDIS instance
if site_owners:
success = self._post_experiment(experiment, site_owners, register_settings)
sites.append((ss['register']['url'], success))
# return a list of registered sites
return sites
def _post_experiment(self, experiment, site_owners, site_settings):
uid = self.generate_exp_uid(experiment)
url = site_settings['url']
username = site_settings['username']
password = site_settings['password']
protocol = site_settings['fileProtocol']
# Create the form with simple fields
mpform = MultiPartForm()
mpform.add_field('username', username)
mpform.add_field('password', password)
mpform.add_field('from_url', settings.MYTARDIS_SITE_URL)
mpform.add_field('originid', uid)
for owner in site_owners:
mpform.add_field('experiment_owner', owner)
# export METS file
filename = 'mets_expid_%i_%s' % (experiment.id, protocol)
logger.debug('=== extracting mets file for experiment %s ' % uid)
from tardis.tardis_portal.metsexporter import MetsExporter
exporter = MetsExporter()
if protocol:
# translate vbl:// into tardis:// url for datafiles
metsfile = exporter.export(experimentId=experiment.id,
replace_protocols={'vbl': protocol},
filename=filename,
export_images=False)
else:
metsfile = exporter.export(experimentId=experiment.id,
filename=filename,
export_images=False)
logger.debug('=== extraction done, filename = %s' % metsfile)
f = open(metsfile, "r")
mpform.add_file('xmldata', 'METS.xml', fileHandle=f)
body = str(mpform)
logger.debug('about to send register request to site %s' % url)
# build the request
headers = {
'User-agent': 'MyTardis',
'Content-type': mpform.get_content_type(),
}
# This should be made into a background task.
# Or rather- the processing on the other end should be.
h = Http(timeout=9999, disable_ssl_certificate_validation=True)
h.force_exception_to_status_code = True
resp, content = h.request(url, 'POST', headers=headers, body=body)
f.close()
if resp.status != 200:
logger.error('Posting experiment to %s failed:' % url)
logger.error('%s: %s' % (resp.status, resp.reason))
logger.debug('SERVER RESPONSE: ' + content)
return False
return True
def start_file_transfer(self, uid, site_settings_url, dest_path):
exp = self._exp_from_uid(uid)
site_settings = self.site_manager.get_site_settings(site_settings_url)
if site_settings is None:
raise TransferService.SiteError('Error retrieving settings for site %s' % site_settings_url)
return self._start_file_transfer(exp, site_settings['transfer'], dest_path)
def get_status(self, uid):
exp = self._exp_from_uid(uid)
return self._get_status(exp)
def _start_file_transfer(self, experiment, settings, path):
return True
def _get_status(self, experiment):
return (TransferService.TRANSFER_FAILED, time.time(), {})