DeepFlavorTagger.py

#!/usr/bin/env python3
 
 
 
import json
import os
import basf2_mva
from basf2 import B2ERROR, B2FATAL
import basf2
from variables import variables as vm
import modularAnalysis as ma
 
 
def get_variables(particle_list, ranked_variable, variables=None, particleNumber=1):
    """ creates variable name pattern requested by the basf2 variable getVariableByRank()
    :param particle_list:
    :param ranked_variable:
    :param variables:
    :param particleNumber:
    :return:
    """
    var_list = []
    for var in variables:
        for i_num in range(1, particleNumber + 1):
            var_list.append('getVariableByRank(' + particle_list + ', ' + ranked_variable + ', ' + var + ', ' +
                            str(i_num) + ')')
    return var_list
 
 
def construct_default_variable_names(particle_lists=None, ranked_variable='p', variables=None, particleNumber=5):
    """ construct default variables (that are sorted by charge and ranked by momentum)
    :param particle_lists:
    :param ranked_variable:
    :param variables:
    :param particleNumber:
    :return:
    """
    from ROOT import Belle2  # noqa
    if particle_lists is None:
        particle_lists = ['pi+:pos_charged', 'pi+:neg_charged']
 
    variable_names = []
    for p_list in particle_lists:
        variable_names += get_variables(p_list, ranked_variable, variables, particleNumber)
 
    # make root compatible
    root_compatible_list = []
    for var in variable_names:
        root_compatible_list.append(Belle2.MakeROOTCompatible.makeROOTCompatible(var))
 
    return root_compatible_list
 
 
def DeepFlavorTagger(particle_lists, mode='expert', working_dir='', uniqueIdentifier='standard', variable_list=None,
                     target='qrCombined', overwrite=False,
                     transform_to_probability=False, signal_fraction=-1.0, classifier_args=None,
                     train_valid_fraction=.92, mva_steering_file='analysis/scripts/dft/tensorflow_dnn_interface.py',
                     maskName='all',
                     path=None):
    """
    Interfacing for the DeepFlavorTagger. This function can be used for training (``teacher``), preparation of
    training datasets (``sampler``) and inference (``expert``).
 
    This function requires reconstructed B meson signal particle list and where an RestOfEvent is built.
 
    :param particle_lists:  string or list[string], particle list(s) of the reconstructed signal B meson
    :param mode: string, valid modes are ``expert`` (default), ``teacher``, ``sampler``
    :param working_dir: string, working directory for the method
    :param uniqueIdentifier: string, database identifier for the method
    :param variable_list: list[string], name of the basf2 variables used for discrimination
    :param target: string, target variable
    :param overwrite: bool, overwrite already (locally!) existing training
    :param transform_to_probability: bool, enable a purity transformation to compensate potential over-training,
     can only be set during training
    :param signal_fraction: float, (experimental) signal fraction override,
     transform to output to a probability if an uneven signal/background fraction is used in the training data,
     can only be set during training
    :param classifier_args: dictionary, customized arguments for the mlp
     possible attributes of the dictionary are:
     lr_dec_rate: learning rate decay rate
     lr_init: learning rate initial value
     mom_init: momentum initial value
     min_epochs: minimal number of epochs
     max_epochs: maximal number of epochs
     stop_epochs: epochs to stop without improvements on the validation set for early stopping
     batch_size: batch size
     seed: random seed for tensorflow
     layers: [[layer name, activation function, input_width, output_width, init_bias, init_weights],..]
     wd_coeffs: weight decay coefficients, length of layers
     cuda_visible_devices: selection of cuda devices
     tensorboard_dir: addition directory for logging the training process
    :param train_valid_fraction: float, train-valid fraction (.92). If transform to probability is
     enabled, train valid fraction will be split into a test set (.5)
    :param maskName: get ROE particles from a specified ROE mask
    :param path: basf2 path obj
    :return: None
    """
 
    if isinstance(particle_lists, str):
        particle_lists = [particle_lists]
 
    if mode not in ['expert', 'teacher', 'sampler']:
        B2FATAL('Invalid mode  %s' % mode)
 
    if variable_list is None and mode in ['sampler', 'teacher']:
        variable_list = [
            'useCMSFrame(p)',
            'useCMSFrame(cosTheta)',
            'useCMSFrame(phi)',
            'kaonID',
            'electronID',
            'muonID',
            'protonID',
            'nCDCHits',
            'nPXDHits',
            'nSVDHits',
            'dz',
            'dr',
            'chiProb']
 
    if variable_list is not None and mode == 'expert':
        B2ERROR('DFT: Variables from identifier file are used. Input variables will be ignored.')
 
    if classifier_args is None:
        classifier_args = {}
    else:
        assert isinstance(classifier_args, dict)
 
    classifier_args['transform_to_prob'] = transform_to_probability
 
    output_file_name = os.path.join(working_dir, uniqueIdentifier + '_training_data.root')
 
    # create roe specific paths
    roe_path = basf2.create_path()
    dead_end_path = basf2.create_path()
 
    # define dft specific lists to enable multiple calls, if someone really wants to do that
    extension = particle_lists[0].replace(':', '_to_')
    roe_particle_list_cut = ''
    roe_particle_list = 'pi+:dft' + '_' + extension
 
    tree_name = 'dft_variables'
 
    # filter rest of events only for specific particle list
    ma.signalSideParticleListsFilter(particle_lists, 'hasRestOfEventTracks > 0', roe_path, dead_end_path)
 
    # TODO: particles with empty rest of events seems not to show up in efficiency statistics anymore
 
    # create final state particle lists
    ma.fillParticleList(roe_particle_list, roe_particle_list_cut, path=roe_path)
 
    dft_particle_lists = ['pi+:pos_charged', 'pi+:neg_charged']
 
    pos_cut = 'charge > 0 and isInRestOfEvent == 1 and passesROEMask(' + maskName + ') > 0.5 and p < infinity'
    neg_cut = 'charge < 0 and isInRestOfEvent == 1 and passesROEMask(' + maskName + ') > 0.5 and p < infinity'
 
    ma.cutAndCopyList(dft_particle_lists[0], roe_particle_list, pos_cut, writeOut=True, path=roe_path)
    ma.cutAndCopyList(dft_particle_lists[1], roe_particle_list, neg_cut, writeOut=True, path=roe_path)
 
    # sort pattern for tagging specific variables
    rank_variable = 'p'
    # rank_variable = 'useCMSFrame(p)'
 
    # create tagging specific variables
    if mode != 'expert':
        features = get_variables(dft_particle_lists[0], rank_variable, variable_list, particleNumber=5)
        features += get_variables(dft_particle_lists[1], rank_variable, variable_list, particleNumber=5)
 
    for particles in dft_particle_lists:
        ma.rankByHighest(particles, rank_variable, path=roe_path)
 
    if mode == 'sampler':
        if os.path.isfile(output_file_name) and not overwrite:
            B2FATAL('Outputfile %s already exists. Aborting writeout.' % output_file_name)
 
        # and add target
        all_variables = features + [target]
 
        # write to ntuples
        ma.variablesToNtuple('', all_variables, tree_name, output_file_name, roe_path)
 
        # write the command line output for the extern teacher to a file
        extern_command = 'basf2_mva_teacher --datafile {output_file_name} --treename {tree_name}' \
                         ' --identifier {identifier} --variables "{variables_string}"  --target_variable {target}' \
                         ' --method Python --training_fraction {fraction}' \
                         " --config '{classifier_args}' --framework tensorflow" \
                         ' --steering_file {steering_file}'\
                         ''.format(output_file_name=output_file_name, tree_name=tree_name,
                                   identifier=uniqueIdentifier,
                                   variables_string='" "'.join(features), target=target,
                                   classifier_args=json.dumps(classifier_args), fraction=train_valid_fraction,
                                   steering_file=mva_steering_file)
 
        with open(os.path.join(working_dir, uniqueIdentifier + '_teacher_command'), 'w') as f:
            f.write(extern_command)
 
    elif mode == 'teacher':
        if not os.path.isfile(output_file_name):
            B2FATAL('There is no training data file available. Run flavor tagger in sampler mode first.')
        general_options = basf2_mva.GeneralOptions()
        general_options.m_datafiles = basf2_mva.vector(output_file_name)
 
        general_options.m_treename = tree_name
        general_options.m_target_variable = target
        general_options.m_variables = basf2_mva.vector(*features)
 
        general_options.m_identifier = uniqueIdentifier
 
        specific_options = basf2_mva.PythonOptions()
        specific_options.m_framework = 'tensorflow'
        specific_options.m_steering_file = mva_steering_file
        specific_options.m_training_fraction = train_valid_fraction
 
        specific_options.m_config = json.dumps(classifier_args)
 
        basf2_mva.teacher(general_options, specific_options)
 
    elif mode == 'expert':
 
        flavorTaggerInfoBuilder = basf2.register_module('FlavorTaggerInfoBuilder')
        path.add_module(flavorTaggerInfoBuilder)
 
        expert_module = basf2.register_module('MVAExpert')
        expert_module.param('listNames', particle_lists)
        expert_module.param('identifier', uniqueIdentifier)
 
        expert_module.param('extraInfoName', 'dnn_output')
        expert_module.param('signalFraction', signal_fraction)
 
        roe_path.add_module(expert_module)
 
        flavorTaggerInfoFiller = basf2.register_module('FlavorTaggerInfoFiller')
        flavorTaggerInfoFiller.param('DNNmlp', True)
        roe_path.add_module(flavorTaggerInfoFiller)
 
        # Create standard alias for the output of the flavor tagger
        vm.addAlias('DNN_qrCombined', 'qrOutput(DNN)')
 
    path.for_each('RestOfEvent', 'RestOfEvents', roe_path)