本文整理匯總了Python中xia2.Handlers.Flags.Flags.get_zero_dose方法的典型用法代碼示例。如果您正苦於以下問題：Python Flags.get_zero_dose方法的具體用法？Python Flags.get_zero_dose怎麽用？Python Flags.get_zero_dose使用的例子？那麽, 這裏精選的方法代碼示例或許可以為您提供幫助。您也可以進一步了解該方法所在類xia2.Handlers.Flags.Flags的用法示例。
在下文中一共展示了Flags.get_zero_dose方法的1個代碼示例，這些例子默認根據受歡迎程度排序。您可以為喜歡或者感覺有用的代碼點讚，您的評價將有助於係統推薦出更棒的Python代碼示例。
示例1: _scale
# 需要導入模塊: from xia2.Handlers.Flags import Flags [as 別名]
# 或者: from xia2.Handlers.Flags.Flags import get_zero_dose [as 別名]
def _scale(self):
'''Actually scale all of the data together.'''
from xia2.Handlers.Environment import debug_memory_usage
debug_memory_usage()
Journal.block(
'scaling', self.get_scaler_xcrystal().get_name(), 'XSCALE',
{'scaling model':'default (all)'})
epochs = self._sweep_information.keys()
epochs.sort()
xscale = self.XScale()
xscale.set_spacegroup_number(self._xds_spacegroup)
xscale.set_cell(self._scalr_cell)
Debug.write('Set CELL: %.2f %.2f %.2f %.2f %.2f %.2f' % \
tuple(self._scalr_cell))
Debug.write('Set SPACEGROUP_NUMBER: %d' % \
self._xds_spacegroup)
Debug.write('Gathering measurements for scaling')
for epoch in epochs:
# get the prepared reflections
reflections = self._sweep_information[epoch][
'prepared_reflections']
# and the get wavelength that this belongs to
dname = self._sweep_information[epoch]['dname']
sname = self._sweep_information[epoch]['sname']
# and the resolution range for the reflections
intgr = self._sweep_information[epoch]['integrater']
Debug.write('Epoch: %d' % epoch)
Debug.write('HKL: %s (%s/%s)' % (reflections, dname, sname))
resolution_low = intgr.get_integrater_low_resolution()
resolution_high = self._scalr_resolution_limits.get((dname, sname), 0.0)
resolution = (resolution_high, resolution_low)
xscale.add_reflection_file(reflections, dname, resolution)
# set the global properties of the sample
xscale.set_crystal(self._scalr_xname)
xscale.set_anomalous(self._scalr_anomalous)
if Flags.get_zero_dose():
Debug.write('Switching on zero-dose extrapolation')
xscale.set_zero_dose()
debug_memory_usage()
xscale.run()
scale_factor = xscale.get_scale_factor()
Debug.write('XSCALE scale factor found to be: %e' % scale_factor)
# record the log file
pname = self._scalr_pname
xname = self._scalr_xname
FileHandler.record_log_file('%s %s XSCALE' % \
(pname, xname),
os.path.join(self.get_working_directory(),
'XSCALE.LP'))
# check for outlier reflections and if a number are found
# then iterate (that is, rerun XSCALE, rejecting these outliers)
if not Flags.get_quick() and Flags.get_remove():
if len(xscale.get_remove()) > 0:
xscale_remove = xscale.get_remove()
current_remove = []
final_remove = []
# first ensure that there are no duplicate entries...
if os.path.exists(os.path.join(
self.get_working_directory(),
'REMOVE.HKL')):
for line in open(os.path.join(
self.get_working_directory(),
'REMOVE.HKL'), 'r').readlines():
h, k, l = map(int, line.split()[:3])
z = float(line.split()[3])
if not (h, k, l, z) in current_remove:
current_remove.append((h, k, l, z))
for c in xscale_remove:
if c in current_remove:
continue
final_remove.append(c)
#.........這裏部分代碼省略.........