def walkToObject(root_object, object_key):
if isinstance(object_key, basestring):
path = [safeDataKey(key) for key in object_key.split('.')]
else:
path = [safeDataKey(key) for key in object_key]
try:
_object = root_object[path[0]]
except KeyError:
raise KeyError, WALK_ERRMSG % (dottedPath(root_object), path[0])
if len(path) == 1: return _object
else: return walkToObject(_object, path[1:])
def _setObjectAttribute_(self, _object, attr_name, attr_value):
""" Returns a dictionary of attr_name/attr_value pairs for all
setable attributes of the dataset .
"""
try:
_object.attrs[safeDataKey(attr_name)] = safestring(attr_value)
except Exception as e:
errmsg = "Could not set attribute '%s' to '%s' for object '%s'"
errmsg = errmsg % (attr_name, str(attr_value), _object.name)
e.args = (errmsg, ) + e.args
def _deleteObjectAttribute_(self, _object, attr_name):
""" Deletes an attribute of an object.
"""
try:
del _object.attrs[safeDataKey(attr_name)]
except Exception as e:
errmsg = "Could not delete attribute '%s' of object '%s'"
errmsg = errmsg % (attr_name, _object.name)
e.args = (errmsg, ) + e.args
raise
def _getObjectAttribute_(self, _object, attr_name, default=BOGUS_VALUE):
""" Returns a the value of a single attribute of an object
"""
try:
return _object.attrs[safeDataKey(attr_name)]
except Exception as e:
if default != BOGUS_VALUE: return default
errmsg = "ERROR retrieving attribute '%s' from object '%s'"
e.args = (errmsg % (attr_name, _object.name), ) + e.args
raise e
def _getDatasetAttribute_(self,
parent,
dataset_name,
attr_name,
default=BOGUS_VALUE):
""" Returns a the value of a single attribute of the dataset
indicated by dataset_key.
"""
dataset = self._getDataset_(parent, dataset_name)
try:
return dataset.attrs[safeDataKey(attr_name)]
except Exception as e:
if default != BOGUS_VALUE: return default
errmsg = "ERROR retrieving attribute '%s' from dataset '%s'"
e.args = (errmsg % (attr_name, dataset_name), ) + e.args
raise e
def hdfObjectKey(self, dot_path):
return safeDataKey(dot_path).replace('.', '/')
def _updateDataset_(self, parent, dataset_name, numpy_array, attributes,
**kwargs):
""" Update a dataset in the data file. If the dataset does not exist,
it is created. Returns a pointer to the dataset.
"""
dataset = self._getDataset_(parent, dataset_name)
array_dimensions = len(numpy_array.shape)
dataset_dimensions = len(dataset.shape)
if array_dimensions > dataset_dimensions:
errmsg = 'Cannot insert array of shape %s into dataset of shape %s'
raise IndexError, errmsg % (str(
numpy_array.shape), str(dataset.shape), indx)
if 'indexes' in kwargs:
index_strings = []
for indx in kwargs['indexes']:
if isinstance(indx, (tuple, list)):
index_strings.append(':'.join([str(it) for it in indx]))
else:
index_strings.append(str(indx))
subset = ','.join(index_strings)
update_string = 'dataset[%s] = numpy_array' % subset
eval(update_string)
elif 'index' in kwargs:
indx = kwargs['index']
from_indexes = ','.join([':' for dim in range(array_dimensions)])
from_array = 'numpy_array[%s]' % from_indexes
if array_dimensions < dataset_dimensions:
indexes = ','.join(
[':' for dim in range(dataset_dimensions - 1)])
to_array = 'dataset[%d,%s]' % (int(indx), indexes)
update_string = 'dataset[%s] = numpy_array[%s]' % subset
eval(update_string)
else:
errmsg = 'Cannot insert %s array into %s dataset as index %d.'
raise IndexError, errmsg % (str(
numpy_array.shape), str(dataset.shape), indx)
else:
if numpy_array.shape == dataset.shape:
indexes = ','.join(
[':' for dim in range(array_dimensions - 1)])
update_string = 'dataset[%s] = numpy_array[%s]' % (indexes,
indexes)
eval(update_string)
elif numpy_array.shape < dataset.shape:
errmsg = 'Not enough information to insert %s array into %s dataset.'
raise IndexError, errmsg % (str(
numpy_array.shape), str(dataset.shape))
for attr_name, attr_value in attributes.items():
try:
dataset.attrs[safeDataKey(attr_name)] = safevalue(attr_value)
except Exception as e:
errmsg = "Could not set attribute '%s' to '%s' for dataset '%s'"
ds_name = dataset.name
if ds_name.startswith('/'): ds_name = ds_name[1:]
errmsg = errmsg % (attr_name, str(attr_value), ds_name)
e.args = (errmsg, ) + e.args
raise
dataset.attrs['updated'] = self._timestamp_()
return dataset