def export(self):
"""
Export the files
"""
from dials.util import best
experiment = self.experiments[0]
reflections = self.reflections[0]
partiality = reflections["partiality"]
sel = partiality >= self.params.min_partiality
logger.info(
"Selecting %s/%s reflections with partiality >= %s",
sel.count(True),
sel.size(),
self.params.min_partiality,
)
if sel.count(True) == 0:
raise Sorry(
"No reflections remaining after filtering for minimum partiality (min_partiality=%f)"
% (self.params.min_partiality))
reflections = reflections.select(sel)
imageset = experiment.imageset
prefix = self.params.output.prefix
best.write_background_file(f"{prefix}.dat",
imageset,
n_bins=self.params.n_bins)
best.write_integrated_hkl(prefix, reflections)
best.write_par_file(f"{prefix}.par", experiment)
def export(self):
'''
Export the files
'''
from dials.util import best
experiment = self.experiments[0]
reflections = self.reflections[0]
partiality = reflections['partiality']
sel = partiality >= self.params.best.min_partiality
logger.info(
'Selecting %s/%s reflections with partiality >= %s' %
(sel.count(True), sel.size(), self.params.best.min_partiality))
if sel.count(True) == 0:
raise Sorry(
"No reflections remaining after filtering for minimum partiality (min_partiality=%f)"
% (self.params.best.min_partiality))
reflections = reflections.select(sel)
imageset = experiment.imageset
prefix = self.params.best.prefix
best.write_background_file('%s.dat' % prefix,
imageset,
n_bins=self.params.best.n_bins)
best.write_integrated_hkl(prefix, reflections)
best.write_par_file('%s.par' % prefix, experiment)
def export(self):
'''
Export the files
'''
from dials.util import best
experiment = self.experiments[0]
reflections = self.reflections[0]
imageset = experiment.imageset
prefix = self.params.best.prefix
best.write_background_file(
'%s.dat' %prefix, imageset, n_bins=self.params.best.n_bins)
best.write_integrated_hkl(prefix, reflections)
best.write_par_file('%s.par' %prefix, experiment)
def export(self):
'''
Export the files
'''
from dials.util import best
experiment = self.experiments[0]
reflections = self.reflections[0]
imageset = experiment.imageset
prefix = self.params.best.prefix
best.write_background_file('%s.dat' % prefix,
imageset,
n_bins=self.params.best.n_bins)
best.write_integrated_hkl(prefix, reflections)
best.write_par_file('%s.par' % prefix, experiment)
def run(args):
from dials.util.options import OptionParser
from dials.util.options import flatten_experiments
from dials.util.options import flatten_reflections
import libtbx.load_env
from dials.util import best
usage = "%s [options] experiments.json integrated.pickle" % (
libtbx.env.dispatcher_name)
parser = OptionParser(
usage=usage,
phil=phil_scope,
read_experiments=True,
read_reflections=True,
epilog=help_message)
params, options = parser.parse_args(show_diff_phil=True)
experiments = flatten_experiments(params.input.experiments)
reflections = flatten_reflections(params.input.reflections)
if len(experiments) == 0 or len(reflections) == 0:
parser.print_help()
exit()
#assert(len(experiments) == 1)
experiment = experiments[0]
reflections = reflections[0]
imageset = experiment.imageset
best.write_background_file('bestfile.dat', imageset, n_bins=params.n_bins)
best.write_integrated_hkl('bestfile', reflections)
best.write_par_file('bestfile.par', experiment)
def run(args):
from dials.util.options import OptionParser
from dials.util.options import flatten_experiments
from dials.util.options import flatten_reflections
import libtbx.load_env
from dials.util import best
usage = "%s [options] experiments.json integrated.pickle" % (
libtbx.env.dispatcher_name)
parser = OptionParser(usage=usage,
phil=phil_scope,
read_experiments=True,
read_reflections=True,
epilog=help_message)
params, options = parser.parse_args(show_diff_phil=True)
experiments = flatten_experiments(params.input.experiments)
reflections = flatten_reflections(params.input.reflections)
if len(experiments) == 0 or len(reflections) == 0:
parser.print_help()
exit()
#assert(len(experiments) == 1)
experiment = experiments[0]
reflections = reflections[0]
imageset = experiment.imageset
best.write_background_file('bestfile.dat', imageset, n_bins=params.n_bins)
best.write_integrated_hkl('bestfile', reflections)
best.write_par_file('bestfile.par', experiment)