def create_gate_from_interval(self):
table = self.Parent.sourceChoice.GetStringSelection()
colname = self.Parent.measurementsChoice.GetStringSelection()
from guiutils import GateDialog
dlg = GateDialog(self)
if dlg.ShowModal() == wx.ID_OK:
from sqltools import Gate, Gate1D
p.gates[dlg.Value] = Gate([Gate1D((table, colname), self.interval)])
dlg.Destroy()
def load_file(self, filename):
''' Loads variables in from a properties file. '''
from sqltools import Gate, Filter, OldFilter
self.clear()
self._filename = filename
self._groups = {}
self._filters = ObservableDict()
self.gates = ObservableDict()
f = open(filename, 'U')
lines = f.read()
self._textfile = lines # store raw file
lines = lines.split('\n')
for idx in xrange(len(lines)):
line = lines[idx]
# skip commented and empty lines
if not line.strip().startswith('#') and line.strip() != '':
try:
(name, val) = line.split('=', 1)
name = name.strip()
val = val.strip()
except ValueError:
raise Exception('PROPERTIES ERROR: Could not parse line #%d\n'
'\t"%s"\n'
'Did you accidentally load your training set instead of your properties file?'%(idx + 1, line))
if name in string_vars:
self.__dict__[name] = val or None
elif name in list_vars:
self.__dict__[name] = self.parse_list_value(val) or None
elif name.startswith('group_SQL_'):
group_name = name[10:]
if group_name == '':
raise Exception, ('PROPERTIES ERROR (%s): "group_SQL_" should be followed by a group name.\n'
'Example: "group_SQL_MyGroup = <QUERY>" would define a group named "MyGroup" defined by\n'
'a MySQL query "<QUERY>". See the README.'%(name))
if group_name in self._groups.keys():
raise Exception, 'Group "%s" is defined twice in properties file.'%(group_name)
if group_name in self._filters.keys():
raise Exception, 'Name "%s" is already taken for a filter.'%(group_name)
if not val:
logging.warn('PROPERTIES WARNING (%s): Undefined group'%(name))
continue
self._groups[group_name] = val
elif name.startswith('filter_SQL_'):
# Load old-style SQL filters:
filter_name = name[11:]
if filter_name == '':
raise Exception, ('PROPERTIES ERROR (%s): "filter_SQL_" should be followed by a filter name.\n'
'Example: "filter_SQL_MyFilter = <QUERY>" would define a filter named "MyFilter" defined by\n'
'a MySQL query "<QUERY>". See the README.'%(name))
if filter_name in self._filters.keys():
raise Exception, 'Filter "%s" is defined twice in properties file.'%(filter_name)
if filter_name in self._groups.keys():
raise Exception, 'Name "%s" is already taken for a group.'%(filter_name)
if re.search('\W', filter_name):
raise Exception, 'PROPERTIES ERROR (%s): Filter names may only contain alphanumeric characters and "_".'%(filter_name)
if not val:
logging.warn('PROPERTIES WARNING (%s): Undefined filter'%(name))
continue
self._filters[filter_name] = OldFilter(val)
elif name == 'groups':
logging.warn('PROPERTIES WARNING (%s): This field is no longer necessary in the properties file.\n'
'Only the group_SQL_XXX and filter_SQL_XXX fields are needed when defining groups and filters.'%(name))
elif name == 'filters':
# Load new-style filters
if val.strip() == '':
logging.warn('PROPERTIES WARNING (filters): Field should not be left blank')
continue
d = eval(val)
if type(d) != dict:
raise Exception, 'PROPERTIES ERROR (filters): Error parsing filters. Check the "filters" field in your properties file.'
for k, v in d.items():
self._filters[k] = Filter.decode(v)
del d
elif name == 'gates':
d = eval(val)
if type(d) != dict:
raise Exception, 'PROPERTIES ERROR (gates): Error parsing gates. Check the "gates" field in your properties file.'
for k, v in d.items():
self.gates[k] = Gate.decode(v)
del d
else:
logging.warn('PROPERTIES WARNING: Unrecognized field "%s" in properties file'%(name))
f.close()
self.Validate()
self._initialized = True
def load_file(self, filename):
''' Loads variables in from a properties file. '''
from sqltools import Gate, Filter, OldFilter
self.clear()
self._filename = filename
self._groups = {}
self._filters = ObservableDict()
self.gates = ObservableDict()
f = open(filename, 'U')
lines = f.read()
self._textfile = lines # store raw file
lines = lines.split('\n')
for idx in xrange(len(lines)):
line = lines[idx]
# skip commented and empty lines
if not line.strip().startswith('#') and line.strip() != '':
try:
(name, val) = line.split('=', 1)
name = name.strip()
val = val.strip()
except ValueError:
raise Exception('PROPERTIES ERROR: Could not parse line #%d\n'
'\t"%s"\n'
'Did you accidentally load your training set instead of your properties file?'%(idx + 1, line))
if name in string_vars:
self.__dict__[name] = val or None
elif name in list_vars:
self.__dict__[name] = self.parse_list_value(val) or None
elif name.startswith('group_SQL_'):
group_name = name[10:]
if group_name == '':
raise Exception('PROPERTIES ERROR (%s): "group_SQL_" should be followed by a group name.\n'
'Example: "group_SQL_MyGroup = <QUERY>" would define a group named "MyGroup" defined by\n'
'a MySQL query "<QUERY>". See the README.'%(name))
if group_name in self._groups.keys():
raise Exception('Group "%s" is defined twice in properties file.'%(group_name))
if group_name in self._filters.keys():
raise Exception('Name "%s" is already taken for a filter.'%(group_name))
if not val:
logging.warn('PROPERTIES WARNING (%s): Undefined group'%(name))
continue
self._groups[group_name] = val
elif name.startswith('filter_SQL_'):
# Load old-style SQL filters:
filter_name = name[11:]
if filter_name == '':
raise Exception('PROPERTIES ERROR (%s): "filter_SQL_" should be followed by a filter name.\n'
'Example: "filter_SQL_MyFilter = <QUERY>" would define a filter named "MyFilter" defined by\n'
'a MySQL query "<QUERY>". See the README.'%(name))
if filter_name in self._filters.keys():
raise Exception('Filter "%s" is defined twice in properties file.'%(filter_name))
if filter_name in self._groups.keys():
raise Exception('Name "%s" is already taken for a group.'%(filter_name))
if re.search('\W', filter_name):
raise Exception('PROPERTIES ERROR (%s): Filter names may only contain alphanumeric characters and "_".'%(filter_name))
if not val:
logging.warn('PROPERTIES WARNING (%s): Undefined filter'%(name))
continue
self._filters[filter_name] = OldFilter(val)
elif name == 'groups':
logging.warn('PROPERTIES WARNING (%s): This field is no longer necessary in the properties file.\n'
'Only the group_SQL_XXX and filter_SQL_XXX fields are needed when defining groups and filters.'%(name))
elif name == 'filters':
# Load new-style filters
if val.strip() == '':
logging.warn('PROPERTIES WARNING (filters): Field should not be left blank')
continue
d = eval(val)
if type(d) != dict:
raise Exception('PROPERTIES ERROR (filters): Error parsing filters. Check the "filters" field in your properties file.')
for k, v in d.items():
self._filters[k] = Filter.decode(v)
del d
elif name == 'gates':
d = eval(val)
if type(d) != dict:
raise Exception('PROPERTIES ERROR (gates): Error parsing gates. Check the "gates" field in your properties file.')
for k, v in d.items():
self.gates[k] = Gate.decode(v)
del d
else:
logging.warn('PROPERTIES WARNING: Unrecognized field "%s" in properties file'%(name))
f.close()
#if classification_type is defined
if self.field_defined('classification_type') and self.classification_type.lower() in ['image']:
self.classification_type = 'image'
#2 cases:
# object_table/object_id/cell_x_loc/cell_y_loc exist and point to a table/view of object tables
# object_table/object_id/cell_x_loc/cell_y_loc don't exist
self.object_table = self.image_table + '_objecttable'
self.object_id = 'ObjectNumber'
self.cell_x_loc = 'Image_x_loc'
self.cell_y_loc = 'Image_y_loc'
self.object_name = ['image','images']
# image_width and image_height refer to the full image width and height while
# image_tile_size refers to the size of tiles for classification
# NB: if image_width and image_height are defined, they override image_tile_size
if self.field_defined('image_width') and self.field_defined('image_height'):
self.image_width, self.image_height = int(self.image_width), int(self.image_height)
self.image_tile_size = min([self.image_width,self.image_height])
self.image_tile_size = int(self.image_tile_size)
else:
self.classification_type = "object"
# For image gallery
if self.field_defined('image_size'):
self.image_size = int(self.image_size)
else:
self.image_size = self.image_tile_size
self.Validate()
#if check_tables is defined
if self.field_defined('check_tables') and self.check_tables.lower() in ['yes']:
self.object_table = self.object_table + '_checked'
self._initialized = True
def load_file(self, filename):
''' Loads variables in from a properties file. '''
from sqltools import Gate, Filter, OldFilter
self.clear()
self._filename = filename
self._groups = {}
self._filters = ObservableDict()
self.gates = ObservableDict()
f = open(filename, 'U')
lines = f.read()
self._textfile = lines # store raw file
lines = lines.split('\n')
for idx in xrange(len(lines)):
line = lines[idx]
# skip commented and empty lines
if not line.strip().startswith('#') and line.strip() != '':
try:
(name, val) = line.split('=', 1)
name = name.strip()
val = val.strip()
except ValueError:
raise Exception('PROPERTIES ERROR: Could not parse line #%d\n'
'\t"%s"\n'
'Did you accidentally load your training set instead of your properties file?'%(idx + 1, line))
if name in string_vars:
self.__dict__[name] = val or None
elif name in list_vars:
self.__dict__[name] = self.parse_list_value(val) or None
elif name.startswith('group_SQL_'):
group_name = name[10:]
if group_name == '':
raise Exception, ('PROPERTIES ERROR (%s): "group_SQL_" should be followed by a group name.\n'
'Example: "group_SQL_MyGroup = <QUERY>" would define a group named "MyGroup" defined by\n'
'a MySQL query "<QUERY>". See the README.'%(name))
if group_name in self._groups.keys():
raise Exception, 'Group "%s" is defined twice in properties file.'%(group_name)
if group_name in self._filters.keys():
raise Exception, 'Name "%s" is already taken for a filter.'%(group_name)
if not val:
logging.warn('PROPERTIES WARNING (%s): Undefined group'%(name))
continue
self._groups[group_name] = val
elif name.startswith('filter_SQL_'):
# Load old-style SQL filters:
filter_name = name[11:]
if filter_name == '':
raise Exception, ('PROPERTIES ERROR (%s): "filter_SQL_" should be followed by a filter name.\n'
'Example: "filter_SQL_MyFilter = <QUERY>" would define a filter named "MyFilter" defined by\n'
'a MySQL query "<QUERY>". See the README.'%(name))
if filter_name in self._filters.keys():
raise Exception, 'Filter "%s" is defined twice in properties file.'%(filter_name)
if filter_name in self._groups.keys():
raise Exception, 'Name "%s" is already taken for a group.'%(filter_name)
if re.search('\W', filter_name):
raise Exception, 'PROPERTIES ERROR (%s): Filter names may only contain alphanumeric characters and "_".'%(filter_name)
if not val:
logging.warn('PROPERTIES WARNING (%s): Undefined filter'%(name))
continue
self._filters[filter_name] = OldFilter(val)
elif name == 'groups':
logging.warn('PROPERTIES WARNING (%s): This field is no longer necessary in the properties file.\n'
'Only the group_SQL_XXX and filter_SQL_XXX fields are needed when defining groups and filters.'%(name))
elif name == 'filters':
# Load new-style filters
if val.strip() == '':
logging.warn('PROPERTIES WARNING (filters): Field should not be left blank')
continue
d = eval(val)
if type(d) != dict:
raise Exception, 'PROPERTIES ERROR (filters): Error parsing filters. Check the "filters" field in your properties file.'
for k, v in d.items():
self._filters[k] = Filter.decode(v)
del d
elif name == 'gates':
d = eval(val)
if type(d) != dict:
raise Exception, 'PROPERTIES ERROR (gates): Error parsing gates. Check the "gates" field in your properties file.'
for k, v in d.items():
self.gates[k] = Gate.decode(v)
del d
else:
logging.warn('PROPERTIES WARNING: Unrecognized field "%s" in properties file'%(name))
f.close()
self.Validate()
self._initialized = True
def load_file(self, filename):
''' Loads variables in from a properties file. '''
from sqltools import Gate, Filter, OldFilter
self.clear()
self._filename = filename
self._groups = {}
self._filters = ObservableDict()
self.gates = ObservableDict()
f = open(filename, 'U')
lines = f.read()
self._textfile = lines # store raw file
lines = lines.split('\n')
for idx in xrange(len(lines)):
line = lines[idx]
# skip commented and empty lines
if not line.strip().startswith('#') and line.strip() != '':
try:
(name, val) = line.split('=', 1)
name = name.strip()
val = val.strip()
except ValueError:
raise Exception(
'PROPERTIES ERROR: Could not parse line #%d\n'
'\t"%s"\n'
'Did you accidentally load your training set instead of your properties file?'
% (idx + 1, line))
if name in string_vars:
self.__dict__[name] = val or None
elif name in list_vars:
self.__dict__[name] = self.parse_list_value(val) or None
elif name.startswith('group_SQL_'):
group_name = name[10:]
if group_name == '':
raise Exception, (
'PROPERTIES ERROR (%s): "group_SQL_" should be followed by a group name.\n'
'Example: "group_SQL_MyGroup = <QUERY>" would define a group named "MyGroup" defined by\n'
'a MySQL query "<QUERY>". See the README.' %
(name))
if group_name in self._groups.keys():
raise Exception, 'Group "%s" is defined twice in properties file.' % (
group_name)
if group_name in self._filters.keys():
raise Exception, 'Name "%s" is already taken for a filter.' % (
group_name)
if not val:
logging.warn(
'PROPERTIES WARNING (%s): Undefined group' %
(name))
continue
self._groups[group_name] = val
elif name.startswith('filter_SQL_'):
# Load old-style SQL filters:
filter_name = name[11:]
if filter_name == '':
raise Exception, (
'PROPERTIES ERROR (%s): "filter_SQL_" should be followed by a filter name.\n'
'Example: "filter_SQL_MyFilter = <QUERY>" would define a filter named "MyFilter" defined by\n'
'a MySQL query "<QUERY>". See the README.' %
(name))
if filter_name in self._filters.keys():
raise Exception, 'Filter "%s" is defined twice in properties file.' % (
filter_name)
if filter_name in self._groups.keys():
raise Exception, 'Name "%s" is already taken for a group.' % (
filter_name)
if re.search('\W', filter_name):
raise Exception, 'PROPERTIES ERROR (%s): Filter names may only contain alphanumeric characters and "_".' % (
filter_name)
if not val:
logging.warn(
'PROPERTIES WARNING (%s): Undefined filter' %
(name))
continue
self._filters[filter_name] = OldFilter(val)
elif name == 'groups':
logging.warn(
'PROPERTIES WARNING (%s): This field is no longer necessary in the properties file.\n'
'Only the group_SQL_XXX and filter_SQL_XXX fields are needed when defining groups and filters.'
% (name))
elif name == 'filters':
# Load new-style filters
if val.strip() == '':
logging.warn(
'PROPERTIES WARNING (filters): Field should not be left blank'
)
continue
d = eval(val)
if type(d) != dict:
raise Exception, 'PROPERTIES ERROR (filters): Error parsing filters. Check the "filters" field in your properties file.'
for k, v in d.items():
self._filters[k] = Filter.decode(v)
del d
elif name == 'gates':
d = eval(val)
if type(d) != dict:
raise Exception, 'PROPERTIES ERROR (gates): Error parsing gates. Check the "gates" field in your properties file.'
for k, v in d.items():
self.gates[k] = Gate.decode(v)
del d
else:
logging.warn(
'PROPERTIES WARNING: Unrecognized field "%s" in properties file'
% (name))
f.close()
#if classification_type is defined
if self.field_defined('classification_type'
) and self.classification_type.lower() in [
'image'
]:
self.classification_type = 'image'
#2 cases:
# object_table/object_id/cell_x_loc/cell_y_loc exist and point to a table/view of object tables
# object_table/object_id/cell_x_loc/cell_y_loc don't exist
self.object_table = self.image_table + '_ObjectTable'
self.object_id = 'ObjectNumber'
self.cell_x_loc = 'Image_x_loc'
self.cell_y_loc = 'Image_y_loc'
self.object_name = ['image', 'images']
# image_width and image_height refer to the full image width and height while
# image_tile_size refers to the size of tiles for classification
# NB: if image_width and image_height are defined, they override image_tile_size
if self.field_defined('image_width') and self.field_defined(
'image_height'):
self.image_width, self.image_height = int(
self.image_width), int(self.image_height)
self.image_tile_size = min(
[self.image_width, self.image_height])
self.image_tile_size = int(self.image_tile_size)
else:
self.classification_type = "object"
# For image gallery
if self.field_defined('image_size'):
self.image_size = int(self.image_size)
else:
self.image_size = self.image_tile_size
self.Validate()
#if check_tables is defined
if self.field_defined(
'check_tables') and self.check_tables.lower() in ['yes']:
self.object_table = self.object_table + '_Checked'
self._initialized = True