def package_dependencies():
import core.packagemanager
manager = core.packagemanager.get_package_manager()
reg = core.modules.module_registry.get_module_registry()
conf = get_vistrails_configuration()
if conf.check("abstractionsDirectory"):
abstraction_dir = conf.abstractionsDirectory
p = re.compile(r".*\.xml")
all_packages = set()
for abstraction in os.listdir(abstraction_dir):
if p.match(abstraction):
abs_fname = os.path.join(abstraction_dir, abstraction)
try:
vistrail = read_vistrail(abs_fname)
dependencies = get_abstraction_dependencies(vistrail)
except core.modules.module_registry.MissingPackage, e:
dependencies = {e._identifier: set()}
add_abstraction = True
inter_depends = []
for package, depends in dependencies.iteritems():
if package != identifier:
if not manager.has_package(package):
add_abstraction = False
break
else:
inter_depends.append(depends)
if add_abstraction:
# print 'adding', abstraction[:-4]
all_packages.update(p for p in dependencies.iterkeys()
if p != identifier)
vistrails[abstraction[:-4]] = \
(vistrail, abs_fname, inter_depends)
else:
debug.critical(
("Subworkflow '%s' is missing packages it " + "depends on")
% abstraction)
def package_dependencies():
import core.packagemanager
manager = core.packagemanager.get_package_manager()
reg = core.modules.module_registry.get_module_registry()
conf = get_vistrails_configuration()
if conf.check("abstractionsDirectory"):
abstraction_dir = conf.abstractionsDirectory
p = re.compile(r".*\.xml")
all_packages = set()
for abstraction in os.listdir(abstraction_dir):
if p.match(abstraction):
abs_fname = os.path.join(abstraction_dir, abstraction)
try:
vistrail = read_vistrail(abs_fname)
dependencies = get_abstraction_dependencies(vistrail)
except core.modules.module_registry.MissingPackage, e:
dependencies = {e._identifier: set()}
add_abstraction = True
inter_depends = []
for package, depends in dependencies.iteritems():
if package != identifier:
if not manager.has_package(package):
add_abstraction = False
break
else:
inter_depends.append(depends)
if add_abstraction:
# print 'adding', abstraction[:-4]
all_packages.update(p for p in dependencies.iterkeys()
if p != identifier)
vistrails[abstraction[:-4]] = \
(vistrail, abs_fname, inter_depends)
else:
debug.critical(("Subworkflow '%s' is missing packages it " +
"depends on") % abstraction)
def initialize(*args, **kwargs):
import core.packagemanager
manager = core.packagemanager.get_package_manager()
reg = core.modules.module_registry.get_module_registry()
# conf = get_vistrails_configuration()
# if conf.check("userPackageDirectory"):
# if conf.check('userPackageDirectory'):
# abstraction_dir = os.path.join(conf.userPackageDirectory,
# 'abstractions')
# abs_fnames = []
# p = re.compile(r".*\.vt")
# for abstraction in os.listdir(abstraction_dir):
# if p.match(abstraction):
# abs_fnames.append(os.path.join(abstraction_dir, abstraction))
abs_vistrails = vistrails
last_count = len(vistrails) + 1
cannot_load = {}
while len(abs_vistrails) > 0 and len(abs_vistrails) < last_count:
new_vistrails = {}
for (abs_name, abs_info) in abs_vistrails.iteritems():
(abs_vistrail, abs_fname, abs_depends) = abs_info
packages = get_abstraction_dependencies(abs_vistrail)
add_abstraction = True
for package, inter_depends in packages.iteritems():
if package != identifier:
if not manager.has_package(package):
add_abstraction = False
cannot_load[abs_name] = abs_vistrail
break
else:
for descriptor_info in inter_depends:
if not reg.has_descriptor_with_name(*descriptor_info):
add_abstraction = False
new_vistrails[abs_name] = abs_info
break
if add_abstraction:
abstraction = None
try:
abstraction = \
new_abstraction(abs_name, abs_vistrail, abs_fname)
except InvalidPipeline, e:
# handle_invalid_pipeline will raise it's own InvalidPipeline
# exception if it fails
try:
import core.vistrail.controller
module_version = abs_vistrail.get_latest_version()
# Use a "dummy" controller to handle the upgrade
controller = core.vistrail.controller.VistrailController(abs_vistrail)
(new_version, new_pipeline) = \
controller.handle_invalid_pipeline(e, long(module_version),
abs_vistrail, False, True)
del controller
save_abstraction(abs_vistrail, abs_fname)
abstraction = new_abstraction(abs_name, abs_vistrail, abs_fname,
new_version, new_pipeline)
except Exception, _e:
cannot_load[abs_name] = (abs_vistrail, _e)
except Exception, e:
cannot_load[abs_name] = (abs_vistrail, e)
if abstraction is not None:
options = {'namespace': abstraction.uuid,
'hide_namespace': True,
'version': str(abstraction.internal_version)}
reg.auto_add_module((abstraction, options))
reg.auto_add_ports(abstraction)
# print "Added subworkflow", abs_name, abstraction.uuid
elif abs_name not in cannot_load:
cannot_load[abs_name] = (abs_vistrail, '')
def initialize(*args, **kwargs):
import core.packagemanager
manager = core.packagemanager.get_package_manager()
reg = core.modules.module_registry.get_module_registry()
# conf = get_vistrails_configuration()
# if conf.check("userPackageDirectory"):
# if conf.check('userPackageDirectory'):
# abstraction_dir = os.path.join(conf.userPackageDirectory,
# 'abstractions')
# abs_fnames = []
# p = re.compile(r".*\.vt")
# for abstraction in os.listdir(abstraction_dir):
# if p.match(abstraction):
# abs_fnames.append(os.path.join(abstraction_dir, abstraction))
abs_vistrails = vistrails
last_count = len(vistrails) + 1
cannot_load = {}
while len(abs_vistrails) > 0 and len(abs_vistrails) < last_count:
new_vistrails = {}
for (abs_name, abs_info) in abs_vistrails.iteritems():
(abs_vistrail, abs_fname, abs_depends) = abs_info
packages = get_abstraction_dependencies(abs_vistrail)
add_abstraction = True
for package, inter_depends in packages.iteritems():
if package != identifier:
if not manager.has_package(package):
add_abstraction = False
cannot_load[abs_name] = abs_vistrail
break
else:
for descriptor_info in inter_depends:
if not reg.has_descriptor_with_name(*descriptor_info):
add_abstraction = False
new_vistrails[abs_name] = abs_info
break
if add_abstraction:
abstraction = None
try:
abstraction = \
new_abstraction(abs_name, abs_vistrail, abs_fname)
except InvalidPipeline, e:
# handle_invalid_pipeline will raise it's own InvalidPipeline
# exception if it fails
try:
import core.vistrail.controller
module_version = abs_vistrail.get_latest_version()
# Use a "dummy" controller to handle the upgrade
controller = core.vistrail.controller.VistrailController(
abs_vistrail)
(new_version, new_pipeline) = \
controller.handle_invalid_pipeline(e, long(module_version),
abs_vistrail, False, True)
del controller
save_abstraction(abs_vistrail, abs_fname)
abstraction = new_abstraction(abs_name, abs_vistrail,
abs_fname, new_version,
new_pipeline)
except Exception, _e:
cannot_load[abs_name] = (abs_vistrail, _e)
except Exception, e:
cannot_load[abs_name] = (abs_vistrail, e)
if abstraction is not None:
options = {
'namespace': abstraction.uuid,
'hide_namespace': True,
'version': str(abstraction.internal_version)
}
reg.auto_add_module((abstraction, options))
reg.auto_add_ports(abstraction)
# print "Added subworkflow", abs_name, abstraction.uuid
elif abs_name not in cannot_load:
cannot_load[abs_name] = (abs_vistrail, '')