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web/run.py 40.1 KB
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# coding=utf-8

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import StringIO
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import datetime
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import gzip
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import json
import logging
import random
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import tarfile
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import time
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import urllib
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from csv import writer as csv_writer
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from math import sqrt
from os import environ, remove as removefile
from os.path import isfile, join, abspath, dirname

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from dateutil.relativedelta import relativedelta
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from flask import Flask
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from flask import request
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from flask import url_for, send_from_directory, abort as abort_flask
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from jinja2 import Environment, FileSystemLoader, Markup
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from netCDF4 import Dataset, date2num
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from yaml import load as yaml_load
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# PATH RELATIVITY #############################################################

THIS_DIRECTORY = dirname(abspath(__file__))


def get_path(relative_path):
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    """Get an absolute path from the relative path to this script directory."""
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    return abspath(join(THIS_DIRECTORY, relative_path))


# COLLECT GLOBAL INFORMATION FROM SOURCES #####################################

# VERSION
with open(get_path('../VERSION'), 'r') as version_file:
    version = version_file.read().strip()

# CONFIG
with open(get_path('../config.yml'), 'r') as config_file:
    config = yaml_load(config_file.read())

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FILE_DATE_FMT = "%Y-%m-%dT%H:%M:%S"

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# LOGGING #####################################################################

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LOG_FILE = get_path('run.log')

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log = logging.getLogger("HelioPropa")
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log.setLevel(logging.DEBUG)
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# log.setLevel(logging.ERROR)                        # <-- set log level here !
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logHandler = logging.FileHandler(LOG_FILE)
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logHandler.setFormatter(logging.Formatter(
    "%(asctime)s - %(levelname)s - %(message)s"
))
log.addHandler(logHandler)
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# HARDCODED CONFIGURATION #####################################################

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# Absolute path to the installed CDF library from https://cdf.gsfc.nasa.gov/
CDF_LIB = '/usr/local/lib/libcdf'

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# Absolute path to the data cache directory
CACHE_DIR = get_path('../cache')

# These two configs are not in the YAML config because adding a new parameter
# will not work as-is, you'll have to edit some netcdf-related code.

# The slugs of the available parameters in the generated CSV files.
# The order matters. If you change this you also need to change the
# innermost loop of `get_data_for_target`.
# The javascript knows the targets' properties under these names.
PROPERTIES = ('time', 'vrad', 'vtan', 'vtot', 'btan', 'temp', 'pdyn', 'dens',
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              'atse', 'xhee', 'yhee')
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# The parameters that the users can handle.
# The slug MUST be one of the properties above.
PARAMETERS = {
    'pdyn': {
        'slug': 'pdyn',
        'name': 'Dyn. Pressure',
        'title': 'The dynamic pressure.',
        'units': 'nPa',
        'active': True,
        'position': 10,
    },
    'vtot': {
        'slug': 'vtot',
        'name': 'Velocity',
        'title': 'The velocity of the particles.',
        'units': 'km/s',
        'active': False,
        'position': 20,
    },
    'btan': {
        'slug': 'btan',
        'name': 'B Tangential',
        'title': 'B Tangential.',
        'units': 'nT',
        'active': False,
        'position': 30,
    },
    'temp': {
        'slug': 'temp',
        'name': 'Temperature',
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        'title': 'The temperature.',
        'units': 'eV',
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        'active': False,
        'position': 40,
    },
    'dens': {
        'slug': 'dens',
        'name': 'Density',
        'title': 'The density N.',
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        'units': 'cm^-3',
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        'active': False,
        'position': 50,
    },
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    'atse': {
        'slug': 'atse',
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        'name': 'Angle T-S-E',
        'title': 'Angle Target-Sun-Earth.',
        'units': 'deg',
        'active': False,
        'position': 60,
    },
}


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# SETUP FLASK ENGINE ##########################################################

app = Flask(__name__, root_path=THIS_DIRECTORY)
app.debug = environ.get('DEBUG') == 'true'
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if app.debug:
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    log.info("Starting Flask app IN DEBUG MODE...")
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else:
    log.info("Starting Flask app...")
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# SETUP JINJA2 TEMPLATE ENGINE ################################################

def static_global(filename):
    return url_for('static', filename=filename)


def shuffle_filter(seq):
    """
    This shuffles the sequence it is applied to.
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    Jinja2 _should_ provide this.
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    """
    try:
        result = list(seq)
        random.shuffle(result)
        return result
    except:
        return seq


def markdown_filter(value, nl2br=False, p=True):
    """
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    Converts markdown into html.
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    nl2br: set to True to replace line breaks with <br> tags
    p: set to False to remove the enclosing <p></p> tags
    """
    from markdown import markdown
    from markdown.extensions.nl2br import Nl2BrExtension
    from markdown.extensions.abbr import AbbrExtension
    extensions = [AbbrExtension()]
    if nl2br is True:
        extensions.append(Nl2BrExtension())
    markdowned = markdown(value, output_format='html5', extensions=extensions)
    if p is False:
        markdowned = markdowned.replace(r"<p>", "").replace(r"</p>", "")
    return markdowned


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_js_escapes = {
        '\\': '\\u005C',
        '\'': '\\u0027',
        '"': '\\u0022',
        '>': '\\u003E',
        '<': '\\u003C',
        '&': '\\u0026',
        '=': '\\u003D',
        '-': '\\u002D',
        ';': '\\u003B',
        u'\u2028': '\\u2028',
        u'\u2029': '\\u2029'
}
# Escape every ASCII character with a value less than 32.
_js_escapes.update(('%c' % z, '\\u%04X' % z) for z in xrange(32))


def escapejs_filter(value):
    escaped = []
    for letter in value:
        if letter in _js_escapes:
            escaped.append(_js_escapes[letter])
        else:
            escaped.append(letter)

    return Markup("".join(escaped))

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tpl_engine = Environment(loader=FileSystemLoader([get_path('view')]),
                         trim_blocks=True,
                         lstrip_blocks=True)

tpl_engine.globals.update(
    url_for=url_for,
    static=static_global,
)

tpl_engine.filters['markdown'] = markdown_filter
tpl_engine.filters['md'] = markdown_filter
tpl_engine.filters['shuffle'] = shuffle_filter
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tpl_engine.filters['escapejs'] = escapejs_filter
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tpl_global_vars = {
    'request': request,
    'version': version,
    'config': config,
    'now': datetime.datetime.now(),
}


# HELPERS #####################################################################

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def abort(code, message):
    log.error(message)
    abort_flask(code, message)


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def render_view(view, context=None):
    """
    A simple helper to render [view] template with [context] vars.
    It automatically adds the global template vars defined above, too.
    It returns a string, usually the HTML contents to display.
    """
    context = {} if context is None else context
    return tpl_engine.get_template(view).render(
        dict(tpl_global_vars.items() + context.items())
    )


# def render_page(page, title="My Page", context=None):
#     """
#     A simple helper to render the md_page.html template with [context] vars &
#     the additional contents of `page/[page].md` in the `md_page` variable.
#     It automagically adds the global template vars defined above, too.
#     It returns a string, usually the HTML contents to display.
#     """
#     if context is None:
#         context = {}
#     context['title'] = title
#     context['md_page'] = ''
#     with file(get_path('page/%s.md' % page)) as f:
#         context['md_page'] = f.read()
#     return tpl_engine.get_template('md_page.html').render(
#         dict(tpl_global_vars.items() + context.items())
#     )

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def is_list_in_list(needle, haystack):
    for n in needle:
        if n not in haystack:
            return False
    return True


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def round_time(dt=None, round_to=60):
    """
    Round a datetime object to any time laps in seconds
    dt : datetime.datetime object, default now.
    roundTo : Closest number of seconds to round to, default 1 minute.
    """
    if dt is None:
        dt = datetime.datetime.now()
    seconds = (dt.replace(tzinfo=None) - dt.min).seconds
    rounding = (seconds + round_to / 2) // round_to * round_to
    return dt + datetime.timedelta(0, rounding-seconds, -dt.microsecond)


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def datetime_from_list(time_list):
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    """
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    Datetimes in retrieved CDFs are stored as lists of numbers,
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    with DayOfYear starting at 0. We want it starting at 1 because it's what
    vendor parsers use, both in python and javascript.
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    """
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    # Day Of Year starts at 0, but for our datetime parser it starts at 1
    doy = '{:03d}'.format(int(''.join(time_list[4:7])) + 1)
    return datetime.datetime.strptime(
        "%s%s%s" % (''.join(time_list[0:4]), doy, ''.join(time_list[7:])),
        "%Y%j%H%M%S%f"
    )
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def get_local_filename(url):
    """
    Build the local cache filename for the distant file
    :param url: string
    :return: string
    """
    from slugify import slugify
    n = len('http://')
    if url.startswith('https'):
        n += 1
    s = url[n:]
    return slugify(s)


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def get_target_config(slug):
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    for s in config['targets']:  # dumb
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        if s['slug'] == slug:
            return s
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    raise Exception("No target found in configuration for '%s'." % slug)
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def check_target_config(slug):
    get_target_config(slug)


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def get_active_targets():
    all_targets = config['targets']
    return [t for t in all_targets if not ('locked' in t and t['locked'])]


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def retrieve_amda_netcdf(orbiter, what, started_at, stopped_at):
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    """
    Handles remote querying Myriam's API, downloading, extracting and caching
    the netCDF files.
    :param orbiter: key of the source in the YAML config
    :param what: either 'model' or 'orbit', a key in the config of the source
    :param started_at:
    :param stopped_at:
    :return: a list of local file paths to netCDF (.nc) files
    """

    url = config['amda'].format(
        dataSet=what,
        startTime=started_at.isoformat(),
        stopTime=stopped_at.isoformat()
    )
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    log.info("Fetching remote gzip files list at '%s'." % url)
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    retries = 0
    success = False
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    errors = []
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    remote_gzip_files = []
    while not success and retries < 3:
        try:
            response = urllib.urlopen(url)
            remote_gzip_files = json.loads(response.read())
            if not remote_gzip_files:
                raise Exception("Failed to fetch data at '%s'." % url)
            if remote_gzip_files == 'NODATASET':
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                raise Exception("API says there's no dataset at '%s'." % url)
            if remote_gzip_files == 'ERROR':
                raise Exception("API returned an error at '%s'." % url)
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            if remote_gzip_files == ['OUTOFTIME']:  # it happens
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                return []
                # raise Exception("API says it's out of time at '%s'." % url)
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            success = True
        except Exception as e:
            log.warn("Failed (%d/3) '%s' : %s" % (retries+1, url, e.message))
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            remote_gzip_files = []
            errors.append(e)
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        finally:
            retries += 1
    if not remote_gzip_files:
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        abort(400, "Failed to fetch gzip files list for %s at '%s' : %s" %
                   (orbiter, url, errors))
    else:
        remote_gzip_files = list(set(remote_gzip_files))
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    log.debug("Fetched remote gzip files list : %s." % str(remote_gzip_files))
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    local_gzip_files = []
    for remote_gzip_file in remote_gzip_files:
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        # hotfixes to remove when fixed upstream @Myriam
        if remote_gzip_file in ['OUTOFTIME', 'ERROR']:
            continue  # sometimes half the response is okay, the other not
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        if remote_gzip_file.endswith('/.gz'):
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            continue  # this is just a plain bug
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        remote_gzip_file = remote_gzip_file.replace('cdpp1', 'cdpp', 1)
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        ################################################
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        local_gzip_file = join(CACHE_DIR, get_local_filename(remote_gzip_file))
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        local_gzip_files.append(local_gzip_file)
        if not isfile(local_gzip_file):
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            log.debug("Retrieving '%s'..." % local_gzip_file)
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            urllib.urlretrieve(remote_gzip_file, local_gzip_file)
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            log.debug("Retrieved '%s'." % local_gzip_file)
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        else:
            log.debug("Found '%s' in the cache." % local_gzip_file)
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    local_netc_files = []
    for local_gzip_file in local_gzip_files:
        local_netc_file = local_gzip_file[0:-3]
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        log.debug("Unzipping '%s'..." % local_gzip_file)
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        success = True
        try:
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            with gzip.open(local_gzip_file) as f:
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                file_content = f.read()
                with open(local_netc_file, 'w+b') as g:
                    g.write(file_content)
        except Exception as e:
            success = False
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            log.error("Cannot process gz file '%s' from '%s' : %s" %
                      (local_gzip_file, url, e))
            # Sometimes, the downloaded gz is corrupted, and CRC checks fail.
            # We want to delete the local gz file and try again next time.
            removefile(local_gzip_file)
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        if success:
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            local_netc_files.append(local_netc_file)
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            log.debug("Unzipped '%s'." % local_gzip_file)
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    return list(set(local_netc_files))  # remove possible dupes
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def get_data_for_target(target_config, started_at, stopped_at):
    """
    :return: dict whose keys are datetime as str, values tuples of data
    """
    log.debug("Grabbing data for '%s'..." % target_config['slug'])
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    try:
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        models = target_config['models']
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    except Exception as e:
        abort(500, "Invalid model configuration for '%s' : %s"
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              % (target_config['slug'], str(e)))
    try:
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        orbits = target_config['orbit']['models']
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    except KeyError as e:
        orbits = []
        # abort(500, "Invalid orbit configuration for '%s' : %s"
        #       % (target_config['slug'], str(e)))
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    def _sta_sto(_cnf, _sta, _sto):
        if 'started_at' in _cnf:
            _s0 = datetime.datetime.strptime(_cnf['started_at'], FILE_DATE_FMT)
            _s0 = max(_s0, _sta)
        else:
            _s0 = _sta
        if 'stopped_at' in _cnf:
            _s1 = datetime.datetime.strptime(_cnf['stopped_at'], FILE_DATE_FMT)
            _s1 = min(_s1, _sto)
        else:
            _s1 = _sto
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        return _s0, _s1
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467
468
469
470
471
472
    def _read_var(_nc, _keys, _key, mandatory=False):
        try:
            return _nc.variables[_keys[_key]]
        except KeyError:
            pass
        if mandatory:
            raise Exception("No variable '%s' found in NetCDF." % _keys[_key])
        return [None] * len(_nc.variables['Time'])  # slow -- use numpy!

    # Override them using the configuration, maybe also put these in config ?
    default_nc_keys = {
        'hee': 'HEE',
        'vtot': 'V',
        'magn': 'B',
        'temp': 'T',
        'dens': 'N',
        'pdyn': 'P_dyn',
        'atse': 'Delta_angle',
    }

80352490   Goutte   Multi model suppo...
473
    precision = "%Y-%m-%dT%H"  # model and orbits times are only equal-ish
180d7d97   Goutte   Refactor heavily.
474
    orbit_data = {}  # keys are datetime as str, values arrays of XY
ea6c8d5d   Goutte   Add interval cons...
475
476

    for orbit in orbits:
58bfe281   Goutte   Handle start and ...
477
        s0, s1 = _sta_sto(orbit, started_at, stopped_at)
ea6c8d5d   Goutte   Add interval cons...
478

d1c44c51   Goutte   Enable Earth
479
480
481
482
        nc_keys = default_nc_keys.copy()
        if 'parameters' in orbit:
            nc_keys.update(orbit['parameters'])

ea6c8d5d   Goutte   Add interval cons...
483
484
485
486
487
488
489
490
        orbit_files = retrieve_amda_netcdf(
            target_config['slug'], orbit['slug'], s0, s1
        )
        for orbit_file in orbit_files:
            log.debug("%s: opening orbit NETCDF4 '%s'..." %
                      (target_config['name'], orbit_file))
            cdf_handle = Dataset(orbit_file, "r", format="NETCDF4")
            times = cdf_handle.variables['Time']  # YYYY DOY HH MM SS .ms
d1c44c51   Goutte   Enable Earth
491
            data_hee = _read_var(cdf_handle, nc_keys, 'hee', mandatory=True)
ea6c8d5d   Goutte   Add interval cons...
492
493
494

            log.debug("%s: aggregating data from '%s'..." %
                      (target_config['name'], orbit_file))
d1c44c51   Goutte   Enable Earth
495
            for ltime, datum_hee in zip(times, data_hee):
1324cc91   Goutte   Make the footer i...
496
                try:
d1c44c51   Goutte   Enable Earth
497
498
499
500
                    dtime = datetime_from_list(ltime)
                except Exception:
                    log.error("Failed to parse time from %s." % ltime)
                    raise
ea6c8d5d   Goutte   Add interval cons...
501
                if s0 <= dtime <= s1:
1324cc91   Goutte   Make the footer i...
502
                    dkey = round_time(dtime, 60*60).strftime(precision)
ea6c8d5d   Goutte   Add interval cons...
503
504
                    orbit_data[dkey] = datum_hee
            cdf_handle.close()
180d7d97   Goutte   Refactor heavily.
505

8644387c   Goutte   Use real data.
506
    all_data = {}  # keys are datetime as str, values tuples of data
58bfe281   Goutte   Handle start and ...
507
508
509
510
511
    for model in models:
        s0, s1 = _sta_sto(model, started_at, stopped_at)
        model_files = retrieve_amda_netcdf(
            target_config['slug'], model['slug'], s0, s1
        )
d1c44c51   Goutte   Enable Earth
512
513
514
515
        nc_keys = default_nc_keys.copy()
        if 'parameters' in model:
            nc_keys.update(model['parameters'])

58bfe281   Goutte   Handle start and ...
516
        for model_file in model_files:
58bfe281   Goutte   Handle start and ...
517
518
519
            log.debug("%s: opening model NETCDF4 '%s'..." %
                      (target_config['name'], model_file))
            cdf_handle = Dataset(model_file, "r", format="NETCDF4")
d1c44c51   Goutte   Enable Earth
520
            # log.debug(cdf_handle.variables.keys())
58bfe281   Goutte   Handle start and ...
521
            times = cdf_handle.variables['Time']  # YYYY DOY HH MM SS .ms
d1c44c51   Goutte   Enable Earth
522
523
524
525
526
527
528
529
530
531
532
533
534
535
536
537
            data_v = _read_var(cdf_handle, nc_keys, 'vtot')
            data_b = _read_var(cdf_handle, nc_keys, 'magn')
            data_t = _read_var(cdf_handle, nc_keys, 'temp')
            data_n = _read_var(cdf_handle, nc_keys, 'dens')
            data_p = _read_var(cdf_handle, nc_keys, 'pdyn')
            data_a = _read_var(cdf_handle, nc_keys, 'atse')

            # Usually:
            # Time, StartTime, StopTime, V, B, N, T, Delta_angle, P_dyn
            # Earth:
            # Time, BartelsNumber, ImfID, SwID, ImfPoints,
            # SwPoints, B_M_av, B_Vec_av, B_Theta_av,
            # B_Phi_av, B, T, N, V, Vlat, Vlon,
            # Alpha, RamP, E, Beta, Ma, Kp, R, DST,
            # AE, Flux, Flag, F10_Index, StartTime, StopTime

58bfe281   Goutte   Handle start and ...
538
539
            log.debug("%s: aggregating data from '%s'..." %
                      (target_config['name'], model_file))
d1c44c51   Goutte   Enable Earth
540
541
542
            for ltime, datum_v, datum_b, datum_t, datum_n, datum_p, datum_a \
                    in zip(times, data_v, data_b, data_t, data_n, data_p, data_a):

58bfe281   Goutte   Handle start and ...
543
                try:
d1c44c51   Goutte   Enable Earth
544
545
546
547
                    dtime = datetime_from_list(ltime)
                except Exception:
                    log.error("Failed to parse time from %s." % ltime)
                    raise
58bfe281   Goutte   Handle start and ...
548
549
                if s0 <= dtime <= s1:
                    dkey = round_time(dtime, 60*60).strftime(precision)
d1c44c51   Goutte   Enable Earth
550
551
552
553
554
555
556
557
558
559

                    if hasattr(datum_v, '__len__'):
                        vrad = datum_v[0]
                        vtan = datum_v[1]
                        vtot = sqrt(vrad * vrad + vtan * vtan)
                    else:  # eg: Earth
                        vrad = None
                        vtan = None
                        vtot = datum_v

58bfe281   Goutte   Handle start and ...
560
561
                    x_hee = None
                    y_hee = None
d1c44c51   Goutte   Enable Earth
562
563
564
                    if target_config['slug'] == 'earth':
                        x_hee = 1
                        y_hee = 0
58bfe281   Goutte   Handle start and ...
565
566
567
568
569
                    if dkey in orbit_data:
                        x_hee = orbit_data[dkey][0]
                        y_hee = orbit_data[dkey][1]
                    all_data[dkey] = (
                        dtime.strftime("%Y-%m-%dT%H:%M:%S+00:00"),
d1c44c51   Goutte   Enable Earth
570
571
                        vrad, vtan, vtot,
                        datum_b, datum_t, datum_n, datum_p, datum_a,
58bfe281   Goutte   Handle start and ...
572
573
574
                        x_hee, y_hee
                    )
            cdf_handle.close()
8644387c   Goutte   Use real data.
575

180d7d97   Goutte   Refactor heavily.
576
577
578
579
580
581
582
583
584
585
586
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588
    return all_data


def generate_csv_contents(target_slug, started_at, stopped_at):
    target_config = get_target_config(target_slug)
    log.debug("Crunching CSV contents for '%s'..." % target_config['name'])
    si = StringIO.StringIO()
    cw = csv_writer(si)
    cw.writerow(PROPERTIES)

    all_data = get_data_for_target(target_config, started_at, stopped_at)

    log.debug("Writing and sorting CSV for '%s'..." % target_config['slug'])
8644387c   Goutte   Use real data.
589
590
    for dkey in sorted(all_data):
        cw.writerow(all_data[dkey])
2d2af24b   Goutte   Add a basic orbit...
591

180d7d97   Goutte   Refactor heavily.
592
    log.info("Generated CSV contents for '%s'." % target_config['slug'])
2d2af24b   Goutte   Add a basic orbit...
593
594
    return si.getvalue()

8644387c   Goutte   Use real data.
595

180d7d97   Goutte   Refactor heavily.
596
597
def generate_csv_file_if_needed(target_slug, started_at, stopped_at):
    filename = "%s_%s_%s.csv" % (target_slug,
c0df94bc   Goutte   Adding more logs.
598
599
                                 started_at.strftime(FILE_DATE_FMT),
                                 stopped_at.strftime(FILE_DATE_FMT))
e18701b6   Goutte   Cache clear (remo...
600
    local_csv_file = join(CACHE_DIR, filename)
80352490   Goutte   Multi model suppo...
601
602
603
604
605
606
607
608
609
610
611
612
613

    generate = True
    if isfile(local_csv_file):
        # It need to have more than one line to not be empty (headers)
        with open(local_csv_file) as f:
            cnt = 0
            for _ in f:
                cnt += 1
                if cnt > 1:
                    generate = False
                    break

    if generate:
c0df94bc   Goutte   Adding more logs.
614
615
616
        log.info("Generating CSV '%s'..." % local_csv_file)
        try:
            with open(local_csv_file, mode="w+") as f:
180d7d97   Goutte   Refactor heavily.
617
                f.write(generate_csv_contents(target_slug,
c0df94bc   Goutte   Adding more logs.
618
619
620
621
                                              started_at=started_at,
                                              stopped_at=stopped_at))
            log.info("Generation of '%s' done." % filename)
        except Exception as e:
d1c44c51   Goutte   Enable Earth
622
623
624
            from sys import exc_info
            from traceback import extract_tb
            exc_type, exc_value, exc_traceback = exc_info()
dc0be992   Goutte   Support having no...
625
            log.error(e)
d1c44c51   Goutte   Enable Earth
626
627
            for trace in extract_tb(exc_traceback):
                log.error(trace)
5ede388f   Goutte   Make sure failed ...
628
            if isfile(local_csv_file):
92abc15b   Goutte   Mistrust the API ...
629
                log.warn("Removing failed CSV '%s'..." % local_csv_file)
5ede388f   Goutte   Make sure failed ...
630
                removefile(local_csv_file)
9bfa6c42   Goutte   More bug hunting.
631
            abort(500, "Failed creating CSV '%s' : %s" % (filename, e))
c0df94bc   Goutte   Adding more logs.
632
633


e18701b6   Goutte   Cache clear (remo...
634
635
636
637
638
639
640
641
642
643
644
645
646
647
648
649
650
651
652
653
654
655
656
def remove_all_files(in_directory):
    """
    Will throw if something horrible happens.
    Does not remove recursively (could be done with os.walk if needed).
    Does not remove directories either.
    :param in_directory: absolute path to directory
    :return:
    """
    import os

    if not os.path.isdir(in_directory):
        raise ValueError("No directory to clean at '%s'.")

    removed_files = []
    for file_name in os.listdir(in_directory):
        file_path = os.path.join(in_directory, file_name)
        if os.path.isfile(file_path):
            os.remove(file_path)
            removed_files.append(file_path)

    return removed_files


28bb4b28   Goutte   API for the cache...
657
658
def remove_files_created_before(date, in_directory):
    """
077980eb   Goutte   Improve availabil...
659
660
661
    Will throw if something horrible happens.
    Does not remove recursively (could be done with os.walk if needed).
    Does not remove directories either.
28bb4b28   Goutte   API for the cache...
662
    :param date: datetime object
077980eb   Goutte   Improve availabil...
663
    :param in_directory: absolute path to directory
28bb4b28   Goutte   API for the cache...
664
665
666
667
668
669
670
    :return:
    """
    import os
    import time

    secs = time.mktime(date.timetuple())

077980eb   Goutte   Improve availabil...
671
672
    if not os.path.isdir(in_directory):
        raise ValueError("No directory to clean at '%s'.")
28bb4b28   Goutte   API for the cache...
673
674
675
676

    removed_files = []
    for file_name in os.listdir(in_directory):
        file_path = os.path.join(in_directory, file_name)
077980eb   Goutte   Improve availabil...
677
678
679
680
681
        if os.path.isfile(file_path):
            t = os.stat(file_path)
            if t.st_ctime < secs:
                os.remove(file_path)
                removed_files.append(file_path)
28bb4b28   Goutte   API for the cache...
682
683
684
685

    return removed_files


077980eb   Goutte   Improve availabil...
686
687
688
689
690
691
692
693
694
695
696
def get_hit_counter():
    hit_count_path = get_path("../VISITS")

    if isfile(hit_count_path):
        hit_count = int(open(hit_count_path).read())
    else:
        hit_count = 1

    return hit_count


a4a9ef03   Goutte   Cache generated C...
697
698
699
700
701
702
703
704
705
706
707
708
709
710
711
712
def increment_hit_counter():
    hit_count_path = get_path("../VISITS")

    if isfile(hit_count_path):
        hit_count = int(open(hit_count_path).read())
        hit_count += 1
    else:
        hit_count = 1

    hit_counter_file = open(hit_count_path, 'w')
    hit_counter_file.write(str(hit_count))
    hit_counter_file.close()

    return hit_count


077980eb   Goutte   Improve availabil...
713
714
715
tpl_global_vars['visits'] = get_hit_counter()


a4a9ef03   Goutte   Cache generated C...
716
717
718
# ROUTING #####################################################################

@app.route('/favicon.ico')
bde97e4d   Goutte   Add more changes ...
719
def favicon():  # we want it served from the root, not from static/
a4a9ef03   Goutte   Cache generated C...
720
721
722
723
724
725
726
727
728
729
    return send_from_directory(
        join(app.root_path, 'static', 'img'),
        'favicon.ico', mimetype='image/vnd.microsoft.icon'
    )


@app.route("/")
@app.route("/home.html")
@app.route("/index.html")
def home():
077980eb   Goutte   Improve availabil...
730
    increment_hit_counter()
bde97e4d   Goutte   Add more changes ...
731
732
    parameters = PARAMETERS.values()
    parameters.sort(key=lambda x: x['position'])
a4a9ef03   Goutte   Cache generated C...
733
734
    return render_view('home.html.jinja2', {
        'targets': config['targets'],
bde97e4d   Goutte   Add more changes ...
735
        'parameters': parameters,
a4a9ef03   Goutte   Cache generated C...
736
737
738
        'planets': [s for s in config['targets'] if s['type'] == 'planet'],
        'probes':  [s for s in config['targets'] if s['type'] == 'probe'],
        'comets':  [s for s in config['targets'] if s['type'] == 'comet'],
077980eb   Goutte   Improve availabil...
739
        'visits':  get_hit_counter(),
a4a9ef03   Goutte   Cache generated C...
740
741
742
    })


180d7d97   Goutte   Refactor heavily.
743
744
@app.route("/<target>_<started_at>_<stopped_at>.csv")
def download_target_csv(target, started_at, stopped_at):
a4a9ef03   Goutte   Cache generated C...
745
746
747
748
749
    """
    Grab data and orbit data for the specified `target`,
    rearrange it and return it as a CSV file.
    `started_at` and `stopped_at` should be UTC.
    """
180d7d97   Goutte   Refactor heavily.
750
    check_target_config(target)
a4a9ef03   Goutte   Cache generated C...
751
    try:
c0df94bc   Goutte   Adding more logs.
752
        started_at = datetime.datetime.strptime(started_at, FILE_DATE_FMT)
a4a9ef03   Goutte   Cache generated C...
753
754
755
    except:
        abort(400, "Invalid started_at parameter : '%s'." % started_at)
    try:
c0df94bc   Goutte   Adding more logs.
756
        stopped_at = datetime.datetime.strptime(stopped_at, FILE_DATE_FMT)
a4a9ef03   Goutte   Cache generated C...
757
758
759
    except:
        abort(400, "Invalid stopped_at parameter : '%s'." % stopped_at)

180d7d97   Goutte   Refactor heavily.
760
    filename = "%s_%s_%s.csv" % (target,
c0df94bc   Goutte   Adding more logs.
761
762
                                 started_at.strftime(FILE_DATE_FMT),
                                 stopped_at.strftime(FILE_DATE_FMT))
e18701b6   Goutte   Cache clear (remo...
763
    local_csv_file = join(CACHE_DIR, filename)
180d7d97   Goutte   Refactor heavily.
764
    generate_csv_file_if_needed(target, started_at, stopped_at)
a4a9ef03   Goutte   Cache generated C...
765
766
767
    if not isfile(local_csv_file):
        abort(500, "Could not cache CSV file at '%s'." % local_csv_file)

e18701b6   Goutte   Cache clear (remo...
768
    return send_from_directory(CACHE_DIR, filename)
a4a9ef03   Goutte   Cache generated C...
769
770


0511eed7   Goutte   Tarball generatio...
771
772
@app.route("/<targets>_<started_at>_<stopped_at>.tar.gz")
def download_targets_tarball(targets, started_at, stopped_at):
b2837a08   Goutte   Add three retries...
773
    """
bc18b96c   Goutte   Implement first (...
774
775
776
    Grab data and orbit data for each of the specified `targets`,
    in their own CSV file, and make a tarball of them.
    `started_at` and `stopped_at` should be UTC strings.
b2837a08   Goutte   Add three retries...
777

ea6c8d5d   Goutte   Add interval cons...
778
779
    Note: we do not use this route anymore, but let's keep it shelved for now.

2fedd73b   Goutte   Initial implement...
780
    targets: string list of targets' slugs, separated by `-`.
b2837a08   Goutte   Add three retries...
781
    """
2fedd73b   Goutte   Initial implement...
782
    separator = '-'
0511eed7   Goutte   Tarball generatio...
783
784
    targets = targets.split(separator)
    targets.sort()
2fedd73b   Goutte   Initial implement...
785
786
    targets_configs = []
    for target in targets:
b2837a08   Goutte   Add three retries...
787
788
        if not target:
            abort(400, "Invalid targets format : `%s`." % targets)
180d7d97   Goutte   Refactor heavily.
789
        targets_configs.append(get_target_config(target))
2fedd73b   Goutte   Initial implement...
790
    if 0 == len(targets_configs):
b2837a08   Goutte   Add three retries...
791
792
        abort(400, "No valid targets specified. What are you doing?")

b2837a08   Goutte   Add three retries...
793
    try:
ea6c8d5d   Goutte   Add interval cons...
794
        started_at = datetime.datetime.strptime(started_at, FILE_DATE_FMT)
b2837a08   Goutte   Add three retries...
795
796
797
    except:
        abort(400, "Invalid started_at parameter : '%s'." % started_at)
    try:
ea6c8d5d   Goutte   Add interval cons...
798
        stopped_at = datetime.datetime.strptime(stopped_at, FILE_DATE_FMT)
b2837a08   Goutte   Add three retries...
799
800
    except:
        abort(400, "Invalid stopped_at parameter : '%s'." % stopped_at)
ea6c8d5d   Goutte   Add interval cons...
801
802
    sta = started_at.strftime(FILE_DATE_FMT)
    sto = stopped_at.strftime(FILE_DATE_FMT)
b2837a08   Goutte   Add three retries...
803

0511eed7   Goutte   Tarball generatio...
804
    gzip_filename = "%s_%s_%s.tar.gz" % (separator.join(targets), sta, sto)
e18701b6   Goutte   Cache clear (remo...
805
    local_gzip_file = join(CACHE_DIR, gzip_filename)
2fedd73b   Goutte   Initial implement...
806
807

    if not isfile(local_gzip_file):
0511eed7   Goutte   Tarball generatio...
808
        log.debug("Creating the CSV files for the tarball...")
2fedd73b   Goutte   Initial implement...
809
        for target_config in targets_configs:
0511eed7   Goutte   Tarball generatio...
810
            filename = "%s_%s_%s.csv" % (target_config['slug'], sta, sto)
e18701b6   Goutte   Cache clear (remo...
811
            local_csv_file = join(CACHE_DIR, filename)
2fedd73b   Goutte   Initial implement...
812
813
            if not isfile(local_csv_file):
                with open(local_csv_file, mode="w+") as f:
180d7d97   Goutte   Refactor heavily.
814
                    f.write(generate_csv_contents(target_config['slug'],
2fedd73b   Goutte   Initial implement...
815
816
817
                                                  started_at=started_at,
                                                  stopped_at=stopped_at))

0511eed7   Goutte   Tarball generatio...
818
        log.debug("Creating the tarball '%s'..." % local_gzip_file)
2fedd73b   Goutte   Initial implement...
819
820
        with tarfile.open(local_gzip_file, "w:gz") as tar:
            for target_config in targets_configs:
0511eed7   Goutte   Tarball generatio...
821
                filename = "%s_%s_%s.csv" % (target_config['slug'], sta, sto)
e18701b6   Goutte   Cache clear (remo...
822
                local_csv_file = join(CACHE_DIR, filename)
2fedd73b   Goutte   Initial implement...
823
824
825
                tar.add(local_csv_file, arcname=filename)

    if not isfile(local_gzip_file):
0511eed7   Goutte   Tarball generatio...
826
        abort(500, "No tarball to serve. Looked at '%s'." % local_gzip_file)
2fedd73b   Goutte   Initial implement...
827

e18701b6   Goutte   Cache clear (remo...
828
    return send_from_directory(CACHE_DIR, gzip_filename)
b2837a08   Goutte   Add three retries...
829

28bb4b28   Goutte   API for the cache...
830

bc18b96c   Goutte   Implement first (...
831
832
833
834
@app.route("/<targets>_<params>_<started_at>_<stopped_at>.nc")
def download_targets_netcdf(targets, params, started_at, stopped_at):
    """
    Grab data and orbit data for the specified `target`,
aa7247d6   Goutte   Generate a CDF fi...
835
    rearrange it and return it as a NetCDF file.
e18701b6   Goutte   Cache clear (remo...
836
    `started_at` and `stopped_at` are expected to be UTC.
bc18b96c   Goutte   Implement first (...
837
838
839
840

    targets: string list of targets' slugs, separated by `-`.
    params: string list of targets' parameters, separated by `-`.
    """
e18701b6   Goutte   Cache clear (remo...
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    separator = '-'  # /!\ this char should never be in target's slugs
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    targets = targets.split(separator)
    targets.sort()
    targets_configs = []
    for target in targets:
        if not target:
            abort(400, "Invalid targets format : `%s`." % targets)
        targets_configs.append(get_target_config(target))
    if 0 == len(targets_configs):
        abort(400, "No valid targets specified. What are you doing?")
    params = params.split(separator)
    params.sort()
    if 0 == len(params):
        abort(400, "No valid parameters specified. What are you doing?")
    if not is_list_in_list(params, PARAMETERS.keys()):
        abort(400, "Some parameters are not recognized in '%s'." % str(params))

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    date_fmt = FILE_DATE_FMT
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    try:
        started_at = datetime.datetime.strptime(started_at, date_fmt)
    except:
        abort(400, "Invalid started_at parameter : '%s'." % started_at)
    try:
        stopped_at = datetime.datetime.strptime(stopped_at, date_fmt)
    except:
        abort(400, "Invalid stopped_at parameter : '%s'." % stopped_at)
    sta = started_at.strftime(date_fmt)
    sto = stopped_at.strftime(date_fmt)

    nc_filename = "%s_%s_%s_%s.nc" % \
                  (separator.join(targets), separator.join(params), sta, sto)
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    nc_path = join(CACHE_DIR, nc_filename)
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    if not isfile(nc_path):
        log.debug("Creating the NetCDF file '%s'..." % nc_filename)
        nc_handle = Dataset(nc_path, "w", format="NETCDF4")
        try:
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878
            nc_handle.description = "Model and orbit data for targets"  # todo
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879
            nc_handle.history = "Created " + time.ctime(time.time())
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880
            nc_handle.source = "Heliopropa (CDDP)"
bc18b96c   Goutte   Implement first (...
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            available_params = list(PROPERTIES)
            for target in targets_configs:
                target_slug = target['slug']
                log.debug("Adding group '%s' to the NetCDF..." % target_slug)
                nc_group = nc_handle.createGroup(target_slug)
                data = get_data_for_target(target, started_at, stopped_at)
                dkeys = sorted(data)
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889
                dimension = 'dim_'+target_slug
                nc_handle.createDimension(dimension, len(dkeys))
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                # TIME #
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                nc_time = nc_group.createVariable('time', 'i8', (dimension,))
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                nc_time.units = "hours since 1970-01-01 00:00:00"
                nc_time.calendar = "standard"
                times = []
                for dkey in dkeys:
                    time_as_string = data[dkey][0][:-6]  # remove +00:00 tail
                    date = datetime.datetime.strptime(time_as_string, date_fmt)
                    times.append(date2num(
                        date, units=nc_time.units, calendar=nc_time.calendar
                    ))
                nc_time[:] = times

                # SELECTED PARAMETERS #
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                nc_vars = []
                indices = []
                for param in params:
                    indices.append(available_params.index(param))
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                    nc_var = nc_group.createVariable(param, 'f8', (dimension,))
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                    nc_var.units = PARAMETERS[param]['units']
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                    nc_vars.append(nc_var)
                for i, nc_var in enumerate(nc_vars):
                    index = indices[i]
                    values = []
                    for dkey in dkeys:
                        dval = data[dkey]
                        values.append(dval[index])
                    nc_var[:] = values
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                # ORBIT #
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921
                nc_x = nc_group.createVariable('xhee', 'f8', (dimension,))
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                nc_x.units = 'Au'
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                nc_y = nc_group.createVariable('yhee', 'f8', (dimension,))
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                nc_y.units = 'Au'
                values_x = []
                values_y = []
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                index_x = available_params.index('xhee')
                index_y = available_params.index('yhee')
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                for dkey in dkeys:
                    dval = data[dkey]
                    values_x.append(dval[index_x])
                    values_y.append(dval[index_y])
                nc_x[:] = values_x
                nc_y[:] = values_y
            log.debug("Writing NetCDF '%s'..." % nc_filename)

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        except Exception:
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938
            log.error("Failed to generate NetCDF '%s'." % nc_filename)
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939
            raise
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        finally:
            nc_handle.close()

    if not isfile(nc_path):
        abort(500, "No NetCDF to serve. Looked at '%s'." % nc_path)

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    return send_from_directory(CACHE_DIR, nc_filename)
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@app.route("/<targets>_<started_at>_<stopped_at>.cdf")
def download_targets_cdf(targets, started_at, stopped_at):
    """
    Grab data and orbit data for the specified `target`,
    rearrange it and return it as a CDF file.
    `started_at` and `stopped_at` are expected to be UTC.

    targets: string list of targets' slugs, separated by `-`.
    params: string list of targets' parameters, separated by `-`.
    """
    separator = '-'  # /!\ this char should never be in target's slugs
    targets = targets.split(separator)
    targets.sort()
    targets_configs = []
    for target in targets:
        if not target:
            abort(400, "Invalid targets format : `%s`." % targets)
        targets_configs.append(get_target_config(target))
    if 0 == len(targets_configs):
        abort(400, "No valid targets specified. What are you doing?")

    params = PARAMETERS.keys()
    # params = params.split(separator)
    # params.sort()
    # if 0 == len(params):
    #     abort(400, "No valid parameters specified. What are you doing?")
    # if not is_list_in_list(params, PARAMETERS.keys()):
    #     abort(400, "Some parameters are not recognized in '%s'." % str(params))

    try:
        started_at = datetime.datetime.strptime(started_at, FILE_DATE_FMT)
    except:
        abort(400, "Invalid started_at parameter : '%s'." % started_at)
    try:
        stopped_at = datetime.datetime.strptime(stopped_at, FILE_DATE_FMT)
    except:
        abort(400, "Invalid stopped_at parameter : '%s'." % stopped_at)
    sta = started_at.strftime(FILE_DATE_FMT)
    sto = stopped_at.strftime(FILE_DATE_FMT)

    cdf_filename = "%s_%s_%s.cdf" % (separator.join(targets), sta, sto)
    cdf_path = join(CACHE_DIR, cdf_filename)

    if not isfile(cdf_path):
        log.debug("Creating the CDF file '%s'..." % cdf_filename)
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        environ['CDF_LIB'] = CDF_LIB
        from spacepy import pycdf
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        try:
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            cdf_handle = pycdf.CDF(cdf_path, masterpath='')
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999
            description = "Model and orbit data for %s." % \
                ', '.join([t['name'] for t in targets_configs])
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            cdf_handle.attrs['Description'] = description
            cdf_handle.attrs['Author'] = "Heliopropa.irap.omp.eu (CDPP)"
            cdf_handle.attrs['Created'] = str(time.ctime(time.time()))
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            available_params = list(PROPERTIES)
            for target in targets_configs:
                target_slug = target['slug']
                data = get_data_for_target(target, started_at, stopped_at)
                dkeys = sorted(data)

                values = []
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1011
                for dkey in dkeys:
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                    time_str = data[dkey][0][:-6]  # remove +00:00 tail
                    date = datetime.datetime.strptime(time_str, FILE_DATE_FMT)
                    values.append(date)
                kt = "%s_time" % target_slug
                cdf_handle[kt] = values
                cdf_handle[kt].attrs['FIELDNAM'] = "Time since 0 A.D"
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                for param in params:
                    k = "%s_%s" % (target_slug, param)
                    values = []
                    i = available_params.index(param)
                    for dkey in dkeys:
                        values.append(data[dkey][i])
                    cdf_handle[k] = values
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                    attrs = cdf_handle[k].attrs
                    attrs['UNITS'] = PARAMETERS[param]['units']
                    attrs['LABLAXIS'] = PARAMETERS[param]['name']
                    attrs['FIELDNAM'] = PARAMETERS[param]['title']
                    if values:
                        attrs['VALIDMIN'] = min(values)
                        attrs['VALIDMAX'] = max(values)

                kx = "%s_xhee" % target_slug
                ky = "%s_yhee" % target_slug
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1036
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                values_xhee = []
                values_yhee = []
                index_x = available_params.index('xhee')
                index_y = available_params.index('yhee')
                for dkey in dkeys:
                    values_xhee.append(data[dkey][index_x])
                    values_yhee.append(data[dkey][index_y])
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1043
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1046
                cdf_handle[kx] = values_xhee
                cdf_handle[ky] = values_yhee
                cdf_handle[kx].attrs['UNITS'] = 'Au'
                cdf_handle[ky].attrs['UNITS'] = 'Au'
aa7247d6   Goutte   Generate a CDF fi...
1047
1048

            log.debug("Writing CDF '%s'..." % cdf_filename)
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1049
1050
            cdf_handle.close()
            log.debug("Wrote CDF '%s'." % cdf_filename)
aa7247d6   Goutte   Generate a CDF fi...
1051
1052
1053

        except Exception as e:
            log.error("Failed to generate CDF '%s'." % cdf_filename)
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1054
1055
            if isfile(cdf_path):
                removefile(cdf_path)
aa7247d6   Goutte   Generate a CDF fi...
1056
1057
            raise

aa7247d6   Goutte   Generate a CDF fi...
1058
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1061
1062
1063
    if not isfile(cdf_path):
        abort(500, "No CDF to serve. Looked at '%s'." % cdf_path)

    return send_from_directory(CACHE_DIR, cdf_filename)


28bb4b28   Goutte   API for the cache...
1064
1065
# API #########################################################################

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1066
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@app.route("/cache/clear")
def cache_clear():
    """
    Removes all files from the cache.
    Note: It also removes the .gitkeep file. Not a problem for prod.
    """
    removed_files = remove_all_files(CACHE_DIR)
    count = len(removed_files)
    return "Cache cleared! Removed %d file%s." \
           % (count, 's' if count != 1 else '')


d9710a98   Goutte   Rename the cleanu...
1078
1079
@app.route("/cache/cleanup")
def cache_cleanup():
28bb4b28   Goutte   API for the cache...
1080
1081
    """
    Removes all files from the cache that are older than roughly one month.
e18701b6   Goutte   Cache clear (remo...
1082
    Note: It also removes the .gitkeep file. Maybe it should not, but hey.
28bb4b28   Goutte   API for the cache...
1083
1084
    """
    a_month_ago = datetime.datetime.now() - datetime.timedelta(days=32)
e18701b6   Goutte   Cache clear (remo...
1085
    removed_files = remove_files_created_before(a_month_ago, CACHE_DIR)
d9710a98   Goutte   Rename the cleanu...
1086
1087
1088
    count = len(removed_files)
    return "Cache cleaned! Removed %d old file%s." \
           % (count, 's' if count != 1 else '')
28bb4b28   Goutte   API for the cache...
1089
1090


b500e561   Goutte   Invert the orbits...
1091
1092
1093
1094
@app.route("/cache/warmup")
def cache_warmup():
    """
    Warms up the cache for the current day.
927c69c3   Goutte   Make the local ca...
1095
    Linked to SpaceWeather#edit in swapp.ls to get the default time interval.
e18701b6   Goutte   Cache clear (remo...
1096
    If you edit this code you'll need to edit the other as well and vice versa.
b500e561   Goutte   Invert the orbits...
1097
    """
fb383448   Goutte   Implement the cac...
1098
1099
1100
1101
1102
1103
1104
1105
1106
1107
1108
1109
1110
1111
1112
1113
    before = relativedelta(years=1)
    after = relativedelta(weeks=3)
    today = datetime.datetime.now().replace(hour=0, minute=0, second=0)
    started_at = today - before
    stopped_at = today + after
    sta = started_at.strftime(FILE_DATE_FMT)
    sto = stopped_at.strftime(FILE_DATE_FMT)

    targets = get_active_targets()
    for target in targets:
        download_target_csv(target['slug'], sta, sto)
    targets_slugs = [target['slug'] for target in targets]
    targets_slugs.sort()
    download_targets_cdf('-'.join(targets_slugs), sta, sto)

    return "Done"
b500e561   Goutte   Invert the orbits...
1114
1115


1324cc91   Goutte   Make the footer i...
1116
1117
1118
@app.route("/log")
def log_show():
    with open(LOG_FILE, 'r') as f:
bde97e4d   Goutte   Add more changes ...
1119
        contents = f.read()
fb383448   Goutte   Implement the cac...
1120
    return "<pre>" + contents + "</pre>"
bde97e4d   Goutte   Add more changes ...
1121
1122


1324cc91   Goutte   Make the footer i...
1123
1124
1125
1126
1127
1128
1129
@app.route("/log/clear")
def log_clear():
    with open(LOG_FILE, 'w') as f:
        f.truncate()
    return "Log cleared successfully."


1754789b   Goutte   Decorate and clea...
1130
1131
1132
1133
# DEV TOOLS ###################################################################

# @app.route("/inspect")
# def analyze_cdf():
a4a9ef03   Goutte   Cache generated C...
1134
#     """
1754789b   Goutte   Decorate and clea...
1135
#     For debug purposes.
a4a9ef03   Goutte   Cache generated C...
1136
#     """
1754789b   Goutte   Decorate and clea...
1137
1138
#     cdf_to_inspect = get_path("../res/dummy.nc")
#     cdf_to_inspect = get_path("../res/dummy_jupiter_coordinates.nc")
a4a9ef03   Goutte   Cache generated C...
1139
1140
#
#     si = StringIO.StringIO()
1754789b   Goutte   Decorate and clea...
1141
1142
#     cw = csv.DictWriter(si, fieldnames=['Name', 'Shape', 'Length'])
#     cw.writeheader()
a4a9ef03   Goutte   Cache generated C...
1143
#
1754789b   Goutte   Decorate and clea...
1144
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1146
1147
1148
1149
1150
1151
1152
1153
#     # Time, StartTime, StopTime, V, B, N, T, Delta_angle, P_dyn, QualityFlag
#     cdf_handle = Dataset(cdf_to_inspect, "r", format="NETCDF4")
#     for variable in cdf_handle.variables:
#         v = cdf_handle.variables[variable]
#         cw.writerow({
#             'Name': variable,
#             'Shape': v.shape,
#             'Length': v.size,
#         })
#     cdf_handle.close()
a4a9ef03   Goutte   Cache generated C...
1154
1155
1156
1157
#
#     return si.getvalue()


9390ec89   Goutte   Initial experimen...
1158
1159
1160
# MAIN ########################################################################

if __name__ == "__main__":
952e3d8f   Goutte   Move to another s...
1161
    # Debug mode is on, as the production server does not use this but run.wsgi
9390ec89   Goutte   Initial experimen...
1162
1163
    extra_files = [get_path('../config.yml')]
    app.run(debug=True, extra_files=extra_files)