<commit_before># -*- coding: utf-8 -*-
"""Wrapper to run elegant from the command line.

:copyright: Copyright (c) 2015 RadiaSoft LLC.  All Rights Reserved.
:license: http://www.apache.org/licenses/LICENSE-2.0.html
"""
from __future__ import absolute_import, division, print_function
from pykern import pkio
from pykern import pkresource
from pykern.pkdebug import pkdp, pkdc
from sirepo import mpi
from sirepo import simulation_db
from sirepo.template import template_common
from sirepo.template.elegant import extract_report_data, ELEGANT_LOG_FILE
import copy
import os
import re
import subprocess

_ELEGANT_STDERR_FILE = 'elegant.stderr'


def run(cfg_dir):
    """Run elegant in ``cfg_dir``

    The files in ``cfg_dir`` must be configured properly.

    Args:
        cfg_dir (str): directory to run elegant in
    """
    with pkio.save_chdir(cfg_dir):
        _run_elegant(bunch_report=True)
        _extract_bunch_report()


def run_background(cfg_dir):
    """Run elegant as a background task

    Args:
        cfg_dir (str): directory to run elegant in
    """
    with pkio.save_chdir(cfg_dir):
        _run_elegant(with_mpi=True);


def _run_elegant(bunch_report=False, with_mpi=False):
    exec(pkio.read_text(template_common.PARAMETERS_PYTHON_FILE), locals(), locals())
    if bunch_report and re.search('\&sdds_beam\s', elegant_file):
        return
    pkio.write_text('elegant.lte', lattice_file)
    ele = 'elegant.ele'
    pkio.write_text(ele, elegant_file)
    # TODO(robnagler) Need to handle this specially, b/c different binary
    if with_mpi and mpi.cfg.slaves > 1:
        return mpi.run_program(['Pelegant', ele], output=ELEGANT_LOG_FILE)
    with open(ELEGANT_LOG_FILE, 'w') as elegant_stdout:
        p = subprocess.Popen(
            ['elegant', ele],
            stdout=elegant_stdout,
            stderr=subprocess.STDOUT,
            env=env,
        )
        p.wait()


def _extract_bunch_report():
    data = simulation_db.read_json(template_common.INPUT_BASE_NAME)<commit_msg>restored missing env variable<commit_after># -*- coding: utf-8 -*-
"""Wrapper to run elegant from the command line.

:copyright: Copyright (c) 2015 RadiaSoft LLC.  All Rights Reserved.
:license: http://www.apache.org/licenses/LICENSE-2.0.html
"""
from __future__ import absolute_import, division, print_function
from pykern import pkio
from pykern import pkresource
from pykern.pkdebug import pkdp, pkdc
from sirepo import mpi
from sirepo import simulation_db
from sirepo.template import template_common
from sirepo.template.elegant import extract_report_data, ELEGANT_LOG_FILE
import copy
import os
import re
import subprocess

_ELEGANT_STDERR_FILE = 'elegant.stderr'


def run(cfg_dir):
    """Run elegant in ``cfg_dir``

    The files in ``cfg_dir`` must be configured properly.

    Args:
        cfg_dir (str): directory to run elegant in
    """
    with pkio.save_chdir(cfg_dir):
        _run_elegant(bunch_report=True)
        _extract_bunch_report()


def run_background(cfg_dir):
    """Run elegant as a background task

    Args:
        cfg_dir (str): directory to run elegant in
    """
    with pkio.save_chdir(cfg_dir):
        _run_elegant(with_mpi=True);


def _run_elegant(bunch_report=False, with_mpi=False):
    exec(pkio.read_text(template_common.PARAMETERS_PYTHON_FILE), locals(), locals())
    if bunch_report and re.search('\&sdds_beam\s', elegant_file):
        return
    pkio.write_text('elegant.lte', lattice_file)
    ele = 'elegant.ele'
    pkio.write_text(ele, elegant_file)
    # TODO(robnagler) Need to handle this specially, b/c different binary
    if with_mpi and mpi.cfg.slaves > 1:
        return mpi.run_program(['Pelegant', ele], output=ELEGANT_LOG_FILE)
    with open(ELEGANT_LOG_FILE, 'w') as elegant_stdout:
        env = copy.deepcopy(os.environ)
        env['RPN_DEFNS'] = pkresource.filename('defns.rpn')
        p = subprocess.Popen(
            ['elegant', ele],
            stdout=elegant_stdout,
            stderr=subprocess.STDOUT,
            env=env,
        )
        p.wait()


def _extract_bunch_report():
    data = simulation_db.read_json(template_common.INPUT_BASE_NAME)
{'fraction_non_alphanumeric': 0.09893822393822393, 'fraction_numerical': 0.003861003861003861, 'mean_word_length': 3.615812917594655, 'pattern_counts': {'":': 0, '<': 3, '<?xml version=': 0, '>': 5, 'https://': 0, 'lorem ipsum': 0, 'www.': 2, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '6852166', 'n_tokens_mistral': 1425, 'n_tokens_neox': 1374, 'n_words': 338}