def _create_worklist_series(self):
"""
Generates all the buffer dilution worklists (as series).
The worklists for the transfer from 1-molecule-design stock rack to
pool stock rack are not included but stored at the ISO sample
stock racks to enable quadrant tracking.
"""
self.add_debug('Create worklist series ...')
volume_calculator = \
VolumeCalculator(self.target_volume, self.target_concentration,
self.__number_designs, self.__stock_concentration)
generator = StockSampleCreationWorklistGenerator(
volume_calculator, self.iso_request_label,
parent=self)
self.__worklist_series = generator.get_result()
if self.__worklist_series is None:
msg = 'Error when trying to generate worklist series.'
self.add_error(msg)
else:
self.__adj_target_volume = \
volume_calculator.get_adjusted_target_volume()
if not self.__adj_target_volume is None:
robot_specs = get_pipetting_specs_cybio()
msg = 'The target volume you have requested needs to be ' \
'increased slightly because of the constraints of the ' \
'pipetting robot (%s, min. transfer volume: %s ul, ' \
'step size: 0.1 ul). The target volume will be ' \
'increased from %s ul to %s ul.' \
% (robot_specs.name,
get_trimmed_string(robot_specs.min_transfer_volume \
* VOLUME_CONVERSION_FACTOR),
get_trimmed_string(self.target_volume),
get_trimmed_string(self.__adj_target_volume))
self.add_warning(msg)
def _create_worklist_series(self):
"""
Generates all the buffer dilution worklists (as series).
The worklists for the transfer from 1-molecule-design stock rack to
pool stock rack are not included but stored at the ISO sample
stock racks to enable quadrant tracking.
"""
self.add_debug('Create worklist series ...')
volume_calculator = \
VolumeCalculator(self.target_volume, self.target_concentration,
self.__number_designs, self.__stock_concentration)
generator = StockSampleCreationWorklistGenerator(
volume_calculator, self.iso_request_label, parent=self)
self.__worklist_series = generator.get_result()
if self.__worklist_series is None:
msg = 'Error when trying to generate worklist series.'
self.add_error(msg)
else:
self.__adj_target_volume = \
volume_calculator.get_adjusted_target_volume()
if not self.__adj_target_volume is None:
robot_specs = get_pipetting_specs_cybio()
msg = 'The target volume you have requested needs to be ' \
'increased slightly because of the constraints of the ' \
'pipetting robot (%s, min. transfer volume: %s ul, ' \
'step size: 0.1 ul). The target volume will be ' \
'increased from %s ul to %s ul.' \
% (robot_specs.name,
get_trimmed_string(robot_specs.min_transfer_volume \
* VOLUME_CONVERSION_FACTOR),
get_trimmed_string(self.target_volume),
get_trimmed_string(self.__adj_target_volume))
self.add_warning(msg)
def __pick_pool_candidates(self):
# Runs the optimizer which finds stock tube for the single molecule
# designs. The optimizer returns a list of :class:`PoolCandidate`
# objects (in order of the optimizing completion).
volume_calculator = \
VolumeCalculator.from_iso_request(self.iso_request)
self._run_and_record_error(volume_calculator.calculate,
base_msg='Unable to determine stock transfer volume: ',
error_types=ValueError)
if not self.has_errors():
take_out_volume = \
volume_calculator.get_single_design_stock_transfer_volume()
optimizer = StockSampleCreationTubePicker(
self._queued_pools,
self.__single_design_stock_concentration,
take_out_volume,
excluded_racks=self.excluded_racks,
requested_tubes=self.requested_tubes,
parent=self)
self._pool_candidates = optimizer.get_result()
if self._pool_candidates is None:
msg = 'Error when trying to pick tubes.'
self.add_error(msg)
def __pick_pool_candidates(self):
# Runs the optimizer which finds stock tube for the single molecule
# designs. The optimizer returns a list of :class:`PoolCandidate`
# objects (in order of the optimizing completion).
volume_calculator = \
VolumeCalculator.from_iso_request(self.iso_request)
self._run_and_record_error(
volume_calculator.calculate,
base_msg='Unable to determine stock transfer volume: ',
error_types=ValueError)
if not self.has_errors():
take_out_volume = \
volume_calculator.get_single_design_stock_transfer_volume()
optimizer = StockSampleCreationTubePicker(
self._queued_pools,
self.__single_design_stock_concentration,
take_out_volume,
excluded_racks=self.excluded_racks,
requested_tubes=self.requested_tubes,
parent=self)
self._pool_candidates = optimizer.get_result()
if self._pool_candidates is None:
msg = 'Error when trying to pick tubes.'
self.add_error(msg)