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Pull Request Pull Request #209: Update drivers.py for TDM

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58.13

/pyroSAR/drivers.py

###############################################################################
# Reading and Organizing system for SAR images
# Copyright (c) 2016-2022, the pyroSAR Developers.

# This file is part of the pyroSAR Project. It is subject to the
# license terms in the LICENSE.txt file found in the top-level
# directory of this distribution and at
# https://github.com/johntruckenbrodt/pyroSAR/blob/master/LICENSE.txt.
# No part of the pyroSAR project, including this file, may be
# copied, modified, propagated, or distributed except according
# to the terms contained in the LICENSE.txt file.
###############################################################################
"""
This is the core module of package pyroSAR.
It contains the drivers for the different SAR image formats and offers
functionality for retrieving metadata, unpacking images, downloading ancillary files like DEMs and
Orbit State Vector files as well as archiving scenes in a database.
The :class:`ID` class and its subclasses allow easy and standardized access to the metadata of
images from different SAR sensors.
"""

import sys
import gc

from builtins import str
from io import BytesIO

import abc
import ast
import csv
import inspect
import math
import os
import re
import shutil
import struct
import operator
import tarfile as tf
import xml.etree.ElementTree as ET
import zipfile as zf
from datetime import datetime, timedelta
from time import strptime, strftime
from statistics import median
from itertools import groupby

import progressbar as pb
from osgeo import gdal, osr, ogr
from osgeo.gdalconst import GA_ReadOnly

from . import S1
from .ERS import passdb_query
from .xml_util import getNamespaces

from spatialist import crsConvert, sqlite3, Vector, bbox
from spatialist.ancillary import parse_literal, finder

from sqlalchemy import create_engine, Table, MetaData, Column, Integer, String, exc
from sqlalchemy import inspect as sql_inspect
from sqlalchemy.event import listen
from sqlalchemy.orm import sessionmaker
from sqlalchemy.sql import select, func
from sqlalchemy.engine.url import URL
from sqlalchemy.ext.automap import automap_base
from sqlalchemy_utils import database_exists, create_database, drop_database
from geoalchemy2 import Geometry
import socket
import time
import platform
import subprocess

import logging

log = logging.getLogger(__name__)

__LOCAL__ = ['sensor', 'projection', 'orbit', 'polarizations', 'acquisition_mode', 'start', 'stop', 'product',
             'spacing', 'samples', 'lines', 'orbitNumber_abs', 'orbitNumber_rel', 'cycleNumber', 'frameNumber']


def identify(scene):
    """
    identify a SAR scene and return the appropriate metadata handler object

    Parameters
    ----------
    scene: str
        a file or directory name

    Returns
    -------
    a subclass object of :class:`~pyroSAR.drivers.ID`
        a pyroSAR metadata handler
    
    Examples
    --------

    >>> from pyroSAR import identify
    >>> filename = 'S1A_IW_GRDH_1SDV_20180829T170656_20180829T170721_023464_028DE0_F7BD.zip'
    >>> scene = identify(filename)
    >>> print(scene)
    pyroSAR ID object of type SAFE
    acquisition_mode: IW
    cycleNumber: 148
    frameNumber: 167392
    lines: 16703
    orbit: A
    orbitNumber_abs: 23464
    orbitNumber_rel: 117
    polarizations: ['VV', 'VH']
    product: GRD
    projection: +proj=longlat +datum=WGS84 +no_defs
    samples: 26056
    sensor: S1A
    spacing: (10.0, 10.0)
    start: 20180829T170656
    stop: 20180829T170721
    """
    if not os.path.exists(scene):
        raise OSError("No such file or directory: '{}'".format(scene))
    
    for handler in ID.__subclasses__():
        try:
            return handler(scene)
        except (RuntimeError, KeyError):
            pass
    raise RuntimeError('data format not supported')


def identify_many(scenes, pbar=False, sortkey=None):
    """
    wrapper function for returning metadata handlers of all valid scenes in a list, similar to function
    :func:`~pyroSAR.drivers.identify`.

    Parameters
    ----------
    scenes: list[str]
        the file names of the scenes to be identified
    pbar: bool
        adds a progressbar if True
    sortkey: str
        sort the handler object list by an attribute
    Returns
    -------
    list[ID]
        a list of pyroSAR metadata handlers
    
    Examples
    --------
    >>> from pyroSAR import identify_many
    >>> files = finder('/path', ['S1*.zip'])
    >>> ids = identify_many(files, pbar=False, sortkey='start')
    """
    idlist = []
    if pbar:
        progress = pb.ProgressBar(max_value=len(scenes)).start()
    else:
        progress = None
    for i, scene in enumerate(scenes):
        if isinstance(scene, ID):
            idlist.append(scene)
        else:
            try:
                id = identify(scene)
                idlist.append(id)
            except RuntimeError:
                continue
            except PermissionError:
                log.warning("Permission denied: '{}'".format(scene))
        if progress is not None:
            progress.update(i + 1)
    if progress is not None:
        progress.finish()
    if sortkey is not None:
        idlist.sort(key=operator.attrgetter(sortkey))
    return idlist


def filter_processed(scenelist, outdir, recursive=False):
    """
    Filter a list of pyroSAR objects to those that have not yet been processed and stored in the defined directory.
    The search for processed scenes is either done in the directory only or recursively into subdirectories.
    The scenes must have been processed with pyroSAR in order to follow the right naming scheme.

    Parameters
    ----------
    scenelist: list
        a list of pyroSAR objects
    outdir: str
        the processing directory
    recursive: bool
        scan `outdir` recursively into subdirectories?

    Returns
    -------
    list
        a list of those scenes, which have not been processed yet
    """
    return [x for x in scenelist if not x.is_processed(outdir, recursive)]


class ID(object):
    """
    Abstract class for SAR meta data handlers
    """
    
    def __init__(self, metadict):
        """
        to be called by the __init__methods of the format drivers
        scans a metadata dictionary and registers entries with a standardized name as object attributes
        see __LOCAL__ for standard names. It must be ensured that each of these is actually read by the individual SAR format driver.

        :param metadict: a dictionary containing the metadata attributes of a SAR scene
        """
        self.locals = __LOCAL__
        for item in self.locals:
            setattr(self, item, metadict[item])
    
    def __getattr__(self, item):
        raise AttributeError("object has no attribute '{}'".format(item))
    
    def __str__(self):
        lines = ['pyroSAR ID object of type {}'.format(self.__class__.__name__)]
        for item in sorted(self.locals):
            value = getattr(self, item)
            if item == 'projection':
                value = crsConvert(value, 'proj4')
            line = '{0}: {1}'.format(item, value)
            lines.append(line)
        return '\n'.join(lines)
    
    def bbox(self, outname=None, driver=None, overwrite=True):
        """
        get the bounding box of a scene either as a vector object or written to a file

        Parameters
        ----------
        outname: str
            the name of the shapefile to be written
        driver: str
            the output file format; needs to be defined if the format cannot
            be auto-detected from the filename extension
        overwrite: bool
            overwrite an existing shapefile?

        Returns
        -------
        ~spatialist.vector.Vector or None
            the vector object if `outname` is None, None otherwise
        """
        if outname is None:
            return bbox(self.getCorners(), self.projection)
        else:
            bbox(self.getCorners(), self.projection, outname=outname, driver=driver,
                 overwrite=overwrite)
    
    def geometry(self, outname=None, driver=None, overwrite=True):
        """
        get the footprint geometry of a scene either as a vector object or written to a file

        Parameters
        ----------
        outname: str
            the name of the shapefile to be written
        driver: str
            the output file format; needs to be defined if the format cannot
            be auto-detected from the filename extension
        overwrite: bool
            overwrite an existing shapefile?

        Returns
        -------
        ~spatialist.vector.Vector or None
            the vector object if `outname` is None, None otherwise
        """
        srs = crsConvert(self.projection, 'osr')
        ring = ogr.Geometry(ogr.wkbLinearRing)
        for coordinate in self.meta['coordinates']:
            ring.AddPoint(*coordinate)
        ring.CloseRings()
        
        geom = ogr.Geometry(ogr.wkbPolygon)
        geom.AddGeometry(ring)
        
        geom.FlattenTo2D()
        
        bbox = Vector(driver='Memory')
        bbox.addlayer('geometry', srs, geom.GetGeometryType())
        bbox.addfield('area', ogr.OFTReal)
        bbox.addfeature(geom, fields={'area': geom.Area()})
        geom = None
        if outname is None:
            return bbox
        else:
            bbox.write(outfile=outname, driver=driver, overwrite=overwrite)
    
    @property
    def compression(self):
        """
        check whether a scene is compressed into an tarfile or zipfile or not at all

        Returns
        -------
        str or None
            either 'zip', 'tar' or None
        """
        if os.path.isdir(self.scene):
            return None
        elif zf.is_zipfile(self.scene):
            return 'zip'
        elif tf.is_tarfile(self.scene):
            return 'tar'
        else:
            return None
    
    def export2dict(self):
        """
        Return the uuid and the metadata that is defined in self.locals as a dictionary
        """
        metadata = {item: self.meta[item] for item in self.locals}
        sq_file = os.path.basename(self.file)
        title = os.path.splitext(sq_file)[0]
        metadata['uuid'] = title
        return metadata
    
    def export2sqlite(self, dbfile):
        """
        Export relevant metadata to an SQLite database

        Parameters
        ----------
        dbfile: str
            the database file

        """
        with Archive(dbfile) as archive:
            archive.insert(self)
    
    def examine(self, include_folders=False):
        """
        check whether any items in the SAR scene structure (i.e. files/folders) match the regular expression pattern
        defined by the class. On success the item is registered in the object as attribute `file`.

        Parameters
        ----------
        include_folders: bool
            also match folder (or just files)?

        Returns
        -------

        Raises
        -------
        RuntimeError
        """
        files = self.findfiles(self.pattern, include_folders=include_folders)
        if len(files) == 1:
            self.file = files[0]
        elif len(files) == 0:
            raise RuntimeError('scene does not match {} naming convention'.format(type(self).__name__))
        else:
            raise RuntimeError('file ambiguity detected:\n{}'.format('\n'.join(files)))
    
    def findfiles(self, pattern, include_folders=False):
        """
        find files in the scene archive, which match a pattern.

        Parameters
        ----------
        pattern: str
            the regular expression to match
        include_folders: bool
             also match folders (or just files)?
        Returns
        -------
        list[str]
            the matched file names
        
        See Also
        --------
        :func:`spatialist.ancillary.finder`
        """
        foldermode = 1 if include_folders else 0
        
        files = finder(target=self.scene, matchlist=[pattern],
                       foldermode=foldermode, regex=True)
        
        if os.path.isdir(self.scene) \
                and re.search(pattern, os.path.basename(self.scene)) \
                and include_folders:
            files.append(self.scene)
        
        return files
    
    def gdalinfo(self):
        """
        read metadata directly from the GDAL SAR image drivers

        Returns
        -------
        dict
            the metadata attributes
        """
        files = self.findfiles(r'(?:\.[NE][12]$|DAT_01\.001$|product\.xml|manifest\.safe$)')
        
        if len(files) == 1:
            prefix = {'zip': '/vsizip/', 'tar': '/vsitar/', None: ''}[self.compression]
            header = files[0]
        elif len(files) > 1:
            raise RuntimeError('file ambiguity detected')
        else:
            raise RuntimeError('file type not supported')
        
        meta = {}
        
        ext_lookup = {'.N1': 'ASAR', '.E1': 'ERS1', '.E2': 'ERS2'}
        extension = os.path.splitext(header)[1]
        if extension in ext_lookup:
            meta['sensor'] = ext_lookup[extension]
        
        img = gdal.Open(prefix + header, GA_ReadOnly)
        gdalmeta = img.GetMetadata()
        meta['samples'], meta['lines'], meta['bands'] = img.RasterXSize, img.RasterYSize, img.RasterCount
        meta['projection'] = img.GetGCPProjection()
        meta['gcps'] = [((x.GCPPixel, x.GCPLine), (x.GCPX, x.GCPY, x.GCPZ)) for x in img.GetGCPs()]
        img = None
        
        for item in gdalmeta:
            entry = [item, parse_literal(gdalmeta[item].strip())]
            
            try:
                entry[1] = self.parse_date(str(entry[1]))
            except ValueError:
                pass
            
            if re.search('LAT|LONG', entry[0]):
                entry[1] /= 1000000.
            meta[entry[0]] = entry[1]
        return meta
    
    @abc.abstractmethod
    def getCorners(self):
        """
        derive the corner coordinates from a SAR scene

        Returns
        -------
        dict
            dictionary with keys `xmin`, `xmax`, `ymin` and `ymax`
        """
        raise NotImplementedError
    
    def getFileObj(self, filename):
        """
        Load a file into a readable file object.

        Parameters
        ----------
        filename: str
            the name of a file in the scene archive, easiest to get with method :meth:`~ID.findfiles`

        Returns
        -------
        ~io.BytesIO
            a file pointer object
        """
        return getFileObj(self.scene, filename)
    
    def getGammaImages(self, directory=None):
        """
        list all files processed by GAMMA

        Parameters
        ----------
        directory: str or None
            the directory to be scanned; if left empty the object attribute `gammadir` is scanned

        Returns
        -------
        list
            the file names of the images processed by GAMMA

        Raises
        -------
        RuntimeError
        """
        if directory is None:
            if hasattr(self, 'gammadir'):
                directory = self.gammadir
            else:
                raise RuntimeError(
                    'directory missing; please provide directory to function or define object attribute "gammadir"')
        return [x for x in finder(directory, [self.outname_base()], regex=True) if
                not re.search(r'\.(?:par|hdr|aux\.xml|swp|sh)$', x)]
    
    def getHGT(self):
        """
        get the names of all SRTM HGT tiles overlapping with the SAR scene

        Returns
        -------
        list
            names of the SRTM HGT tiles
        """
        
        corners = self.getCorners()
        
        # generate sequence of integer coordinates marking the tie points of the overlapping hgt tiles
        lat = range(int(float(corners['ymin']) // 1), int(float(corners['ymax']) // 1) + 1)
        lon = range(int(float(corners['xmin']) // 1), int(float(corners['xmax']) // 1) + 1)
        
        # convert coordinates to string with leading zeros and hemisphere identification letter
        lat = [str(x).zfill(2 + len(str(x)) - len(str(x).strip('-'))) for x in lat]
        lat = [x.replace('-', 'S') if '-' in x else 'N' + x for x in lat]
        
        lon = [str(x).zfill(3 + len(str(x)) - len(str(x).strip('-'))) for x in lon]
        lon = [x.replace('-', 'W') if '-' in x else 'E' + x for x in lon]
        
        # concatenate all formatted latitudes and longitudes with each other as final product
        return [x + y + '.hgt' for x in lat for y in lon]
    
    def is_processed(self, outdir, recursive=False):
        """
        check whether a scene has already been processed and stored in the defined output directory
        (and subdirectories if scanned recursively)

        Parameters
        ----------
        outdir: str
            the directory to be checked

        Returns
        -------
        bool
            does an image matching the scene pattern exist?
        """
        if os.path.isdir(outdir):
            # '{}.*tif$'.format(self.outname_base())
            return len(finder(outdir, [self.outname_base()], regex=True, recursive=recursive)) != 0
        else:
            return False
    
    def outname_base(self, extensions=None):
        """
        parse a string containing basic information about the scene in standardized format.
        Currently this id contains the sensor (4 digits), acquisition mode (4 digits), orbit (1 digit)
        and acquisition start time (15 digits)., e.g. `S1A__IW___A_20150523T122350`
        
        Parameters
        ----------
        extensions: list of str
            the names of additional parameters to append to the basename, e.g. ``['orbitNumber_rel']``
        Returns
        -------
        str
            a standardized name unique to the scene
            
        """
        
        fields = ('{:_<4}'.format(self.sensor),
                  '{:_<4}'.format(self.acquisition_mode),
                  self.orbit,
                  self.start)
        out = '_'.join(fields)
        if isinstance(extensions, list) and len(extensions) is not None:
            ext = '_'.join([str(getattr(self, key)) for key in extensions])
            out += '_' + ext
        return out
    
    @staticmethod
    def parse_date(x):
        """
        this function gathers known time formats provided in the different SAR products and converts them to a common
        standard of the form YYYYMMDDTHHMMSS.

        Parameters
        ----------
        x: str
            the time stamp

        Returns
        -------
        str
            the converted time stamp in format YYYYmmddTHHMMSS
        """
        return parse_date(x)
    
    @abc.abstractmethod
    def quicklook(self, outname, format='kmz'):
        """
        export a quick look image of the scene

        Parameters
        ----------
        outname: str
            the name of the output file
        format: str
            the format of the file to write;
            currently only kmz is supported

        Returns
        -------

        Examples
        --------

        >>> from pyroSAR import identify
        >>> scene = identify('S1A_IW_GRDH_1SDV_20180101T170648_20180101T170713_019964_021FFD_DA78.zip')
        >>> scene.quicklook('S1A__IW___A_20180101T170648.kmz')
        """
        raise NotImplementedError
    
    def summary(self):
        """
        print the set of standardized scene metadata attributes

        Returns
        -------

        """
        print(self.__str__())
    
    @abc.abstractmethod
    def scanMetadata(self):
        """
        scan SAR scenes for metadata attributes.
        The returned dictionary is registered as attribute `meta` by the class upon object initialization.
        This dictionary furthermore needs to return a set of standardized attribute keys,
        which are directly registered as object attributes.

        Returns
        -------
        dict
            the derived attributes

        """
        raise NotImplementedError
    
    @abc.abstractmethod
    def unpack(self, directory, overwrite=False, exist_ok=False):
        """
        Unpack the SAR scene into a defined directory.

        Parameters
        ----------
        directory: str
            the base directory into which the scene is unpacked
        overwrite: bool
            overwrite an existing unpacked scene?
        exist_ok: bool
            allow existing output files and do not create new ones?

        Returns
        -------

        """
        raise NotImplementedError
    
    def _unpack(self, directory, offset=None, overwrite=False, exist_ok=False):
        """
        general function for unpacking scene archives; to be called by implementations of ID.unpack.
        Will reset object attributes `scene` and `file` to point to the locations of the unpacked scene
        
        Parameters
        ----------
        directory: str
            the name of the directory in which the files are written
        offset: str
            an archive directory offset; to be defined if only a subdirectory is to be unpacked (see e.g. TSX.unpack)
        overwrite: bool
            should an existing directory be overwritten?
        exist_ok: bool
            do not attempt unpacking if the target directory already exists? Ignored if ``overwrite==True``
        
        Returns
        -------
        
        """
        do_unpack = True
        if os.path.isdir(directory):
            if overwrite:
                shutil.rmtree(directory)
            else:
                if exist_ok:
                    do_unpack = False
                else:
                    raise RuntimeError('target scene directory already exists: {}'.format(directory))
        os.makedirs(directory, exist_ok=True)
        
        if do_unpack:
            if tf.is_tarfile(self.scene):
                archive = tf.open(self.scene, 'r')
                names = archive.getnames()
                if offset is not None:
                    names = [x for x in names if x.startswith(offset)]
                header = os.path.commonprefix(names)
                
                if header in names:
                    if archive.getmember(header).isdir():
                        for item in sorted(names):
                            if item != header:
                                member = archive.getmember(item)
                                if offset is not None:
                                    member.name = member.name.replace(offset + '/', '')
                                archive.extract(member, directory)
                        archive.close()
                    else:
                        archive.extractall(directory)
                        archive.close()
            
            elif zf.is_zipfile(self.scene):
                archive = zf.ZipFile(self.scene, 'r')
                names = archive.namelist()
                header = os.path.commonprefix(names)
                if header.endswith('/'):
                    for item in sorted(names):
                        if item != header:
                            repl = item.replace(header, '', 1)
                            outname = os.path.join(directory, repl)
                            outname = outname.replace('/', os.path.sep)
                            if item.endswith('/'):
                                os.makedirs(outname)
                            else:
                                try:
                                    with open(outname, 'wb') as outfile:
                                        outfile.write(archive.read(item))
                                except zf.BadZipfile:
                                    log.info('corrupt archive, unpacking failed')
                                    continue
                    archive.close()
                else:
                    archive.extractall(directory)
                    archive.close()
            else:
                log.info('unpacking is only supported for TAR and ZIP archives')
                return
        
        self.scene = directory
        main = os.path.join(self.scene, os.path.basename(self.file))
        self.file = main if os.path.isfile(main) else self.scene


class BEAM_DIMAP(ID):
    """
    Handler class for BEAM-DIMAP data

    Sensors:
        * SNAP supported sensors
    """
    
    def __init__(self, scene):
        
        if not scene.lower().endswith('.dim'):
            raise RuntimeError('Scene format is not BEAM-DIMAP')
        
        self.root = None
        self.scene = scene
        self.meta = dict()
        self.scanMetadata()
        
        super(BEAM_DIMAP, self).__init__(self.meta)
    
    def getCorners(self):
        return self.meta['corners']
    
    def scanMetadata(self):
        self.root = ET.parse(self.scene).getroot()
        
        def get_by_name(attr):
            return self.root.find('.//MDATTR[@name="{}"]'.format(attr)).text
        
        self.meta['acquisition_mode'] = get_by_name('ACQUISITION_MODE')
        self.meta['IPF_version'] = get_by_name('Processing_system_identifier')
        self.meta['sensor'] = get_by_name('MISSION').replace('ENTINEL-', '')
        self.meta['orbit'] = get_by_name('PASS')[0]
        pols = [x.text for x in self.root.findall('.//MDATTR[@desc="Polarization"]')]
        self.meta['polarizations'] = list(set([x for x in pols if '-' not in x]))
        self.meta['spacing'] = (round(float(get_by_name('range_spacing')), 6),
                                round(float(get_by_name('azimuth_spacing')), 6))
        self.meta['samples'] = int(self.root.find('.//BAND_RASTER_WIDTH').text)
        self.meta['lines'] = int(self.root.find('.//BAND_RASTER_HEIGHT').text)
        self.meta['bands'] = int(self.root.find('.//NBANDS').text)
        self.meta['orbitNumber_abs'] = int(get_by_name('ABS_ORBIT'))
        self.meta['orbitNumber_rel'] = int(get_by_name('REL_ORBIT'))
        self.meta['cycleNumber'] = int(get_by_name('cycleNumber'))
        self.meta['frameNumber'] = int(get_by_name('data_take_id'))
        self.meta['product'] = self.root.find('.//PRODUCT_TYPE').text
        
        # Metadata sections that need some parsing to match naming convention with SAFE format
        start = datetime.strptime(self.root.find('.//PRODUCT_SCENE_RASTER_START_TIME').text,
                                  '%d-%b-%Y %H:%M:%S.%f')
        self.meta['start'] = start.strftime('%Y%m%dT%H%M%S')
        stop = datetime.strptime(self.root.find('.//PRODUCT_SCENE_RASTER_STOP_TIME').text,
                                 '%d-%b-%Y %H:%M:%S.%f')
        self.meta['stop'] = stop.strftime('%Y%m%dT%H%M%S')
        
        if self.root.find('.//WKT') is not None:
            self.meta['projection'] = self.root.find('.//WKT').text.lstrip()
        else:
            self.meta['projection'] = crsConvert(4326, 'wkt')
        
        longs = [
            get_by_name('first_far_long'),
            get_by_name('first_near_long'),
            get_by_name('last_far_long'),
            get_by_name('last_near_long')
        ]
        lats = [
            get_by_name('first_far_lat'),
            get_by_name('first_near_lat'),
            get_by_name('last_far_lat'),
            get_by_name('last_near_lat')
        ]
        # Convert to floats
        longs = [float(lon) for lon in longs]
        lats = [float(lat) for lat in lats]
        self.meta['corners'] = {'xmin': min(longs), 'xmax': max(longs),
                                'ymin': min(lats), 'ymax': max(lats)}
    
    def unpack(self, directory, overwrite=False, exist_ok=False):
        raise RuntimeError('unpacking of BEAM-DIMAP products is not supported')


class CEOS_ERS(ID):
    """
    Handler class for ERS data in CEOS format
    
    Sensors:
        * ERS1
        * ERS2
    
    Reference:
        ER-IS-EPO-GS-5902-3: Annex C. ERS SAR.SLC/SLC-I. CCT and EXABYTE
        (`ESA 1998 <https://earth.esa.int/documents/10174/1597298/SAR05E.pdf>`_)
    """
    
    def __init__(self, scene):
        self.pattern = r'(?P<product_id>(?:SAR|ASA)_(?:IM(?:S|P|G|M|_)|AP(?:S|P|G|M|_)|WV(?:I|S|W|_)|WS(?:M|S|_))_[012B][CP])' \
                       r'(?P<processing_stage_flag>[A-Z])' \
                       r'(?P<originator_ID>[A-Z\-]{3})' \
                       r'(?P<start_day>[0-9]{8})_' \
                       r'(?P<start_time>[0-9]{6})_' \
                       r'(?P<duration>[0-9]{8})' \
                       r'(?P<phase>[0-9A-Z]{1})' \
                       r'(?P<cycle>[0-9]{3})_' \
                       r'(?P<relative_orbit>[0-9]{5})_' \
                       r'(?P<absolute_orbit>[0-9]{5})_' \
                       r'(?P<counter>[0-9]{4,})\.' \
                       r'(?P<satellite_ID>[EN][12])' \
                       r'(?P<extension>(?:\.zip|\.tar\.gz|\.PS|))$'
        
        self.pattern_pid = r'(?P<sat_id>(?:SAR|ASA))_' \
                           r'(?P<image_mode>(?:IM(?:S|P|G|M|_)|AP(?:S|P|G|M|_)|WV(?:I|S|W|_)|WS(?:M|S|_)))_' \
                           r'(?P<processing_level>[012B][CP])'
        
        self.scene = os.path.realpath(scene)
        
        self.examine()
        
        match = re.match(re.compile(self.pattern), os.path.basename(self.file))
        match2 = re.match(re.compile(self.pattern_pid), match.group('product_id'))
        
        if re.search('IM__0', match.group('product_id')):
            raise RuntimeError('product level 0 not supported (yet)')
        
        self.meta = self.gdalinfo()
        
        self.meta['acquisition_mode'] = match2.group('image_mode')
        self.meta['polarizations'] = ['VV']
        self.meta['product'] = 'SLC' if self.meta['acquisition_mode'] in ['IMS', 'APS', 'WSS'] else 'PRI'
        self.meta['spacing'] = (self.meta['CEOS_PIXEL_SPACING_METERS'], self.meta['CEOS_LINE_SPACING_METERS'])
        self.meta['sensor'] = self.meta['CEOS_MISSION_ID']
        self.meta['incidence_angle'] = self.meta['CEOS_INC_ANGLE']
        self.meta['k_db'] = -10 * math.log(float(self.meta['CEOS_CALIBRATION_CONSTANT_K']), 10)
        self.meta['sc_db'] = {'ERS1': 59.61, 'ERS2': 60}[self.meta['sensor']]
        
        # acquire additional metadata from the file LEA_01.001
        self.meta.update(self.scanMetadata())
        
        # register the standardized meta attributes as object attributes
        super(CEOS_ERS, self).__init__(self.meta)
    
    def getCorners(self):
        lat = [x[1][1] for x in self.meta['gcps']]
        lon = [x[1][0] for x in self.meta['gcps']]
        return {'xmin': min(lon), 'xmax': max(lon), 'ymin': min(lat), 'ymax': max(lat)}
    
    def unpack(self, directory, overwrite=False, exist_ok=False):
        if self.sensor in ['ERS1', 'ERS2']:
            base_file = re.sub(r'\.PS$', '', os.path.basename(self.file))
            base_dir = os.path.basename(directory.strip('/'))
            
            outdir = directory if base_file == base_dir else os.path.join(directory, base_file)
            
            self._unpack(outdir, overwrite=overwrite, exist_ok=exist_ok)
        else:
            raise NotImplementedError('sensor {} not implemented yet'.format(self.sensor))
    
    def scanMetadata(self):
        lea_obj = self.getFileObj(self.findfiles('LEA_01.001')[0])
        lea = lea_obj.read()
        lea_obj.close()
        meta = dict()
        offset = 720
        meta['sensor'] = lea[(offset + 396):(offset + 412)].strip()
        meta['start'] = self.parse_date(str(lea[(offset + 1814):(offset + 1838)].decode('utf-8')))
        meta['stop'] = self.parse_date(str(lea[(offset + 1862):(offset + 1886)].decode('utf-8')))
        
        looks_range = float(lea[(offset + 1174):(offset + 1190)])
        looks_azimuth = float(lea[(offset + 1190):(offset + 1206)])
        meta['looks'] = (looks_range, looks_azimuth)
        
        meta['heading'] = float(lea[(offset + 468):(offset + 476)])
        meta['orbit'] = 'D' if meta['heading'] > 180 else 'A'
        orbitNumber, frameNumber = map(int, re.findall('[0-9]+', lea[(offset + 36):(offset + 68)].decode('utf-8')))
        meta['orbitNumber_abs'] = orbitNumber
        meta['frameNumber'] = frameNumber
        orbitInfo = passdb_query(meta['sensor'], datetime.strptime(meta['start'], '%Y%m%dT%H%M%S'))
        meta['cycleNumber'] = orbitInfo['cycleNumber']
        meta['orbitNumber_rel'] = orbitInfo['orbitNumber_rel']
        # the following parameters are already read by gdalinfo
        # spacing_azimuth = float(lea[(offset+1686):(offset+1702)])
        # spacing_range = float(lea[(offset+1702):(offset+1718)])
        # meta['spacing'] = (spacing_range, spacing_azimuth)
        # meta['incidence_angle'] = float(lea[(offset+484):(offset+492)])
        meta['proc_facility'] = lea[(offset + 1045):(offset + 1061)].strip()
        meta['proc_system'] = lea[(offset + 1061):(offset + 1069)].strip()
        meta['proc_version'] = lea[(offset + 1069):(offset + 1077)].strip()
        # text_subset = lea[re.search('FACILITY RELATED DATA RECORD \[ESA GENERAL TYPE\]', lea).start() - 13:]
        # meta['k_db'] = -10*math.log(float(text_subset[663:679].strip()), 10)
        # meta['antenna_flag'] = int(text_subset[659:663].strip())
        return meta
        
        # def correctAntennaPattern(self):
        # the following section is only relevant for PRI products and can be considered future work
        # select antenna gain correction lookup file from extracted meta information
        # the lookup files are stored in a subfolder CAL which is included in the pythonland software package
        # if sensor == 'ERS1':
        #     if date < 19950717:
        #         antenna = 'antenna_ERS1_x_x_19950716'
        #     else:
        #         if proc_sys == 'VMP':
        #             antenna = 'antenna_ERS2_VMP_v68_x' if proc_vrs >= 6.8 else 'antenna_ERS2_VMP_x_v67'
        #         elif proc_fac == 'UKPAF' and date < 19970121:
        #             antenna = 'antenna_ERS1_UKPAF_19950717_19970120'
        #         else:
        #             antenna = 'antenna_ERS1'
        # else:
        #     if proc_sys == 'VMP':
        #         antenna = 'antenna_ERS2_VMP_v68_x' if proc_vrs >= 6.8 else 'antenna_ERS2_VMP_x_v67'
        #     elif proc_fac == 'UKPAF' and date < 19970121:
        #         antenna = 'antenna_ERS2_UKPAF_x_19970120'
        #     else:
        #         antenna = 'antenna_ERS2'


class CEOS_PSR(ID):
    """
    Handler class for ALOS-PALSAR data in CEOS format
    
    Sensors:
        * PSR1
        * PSR2

    PALSAR-1:
        References:
            * NEB-01006: ALOS/PALSAR Level 1 Product Format Description
              (`JAXA 2006 <https://www.eorc.jaxa.jp/ALOS/en/doc/fdata/PALSAR_L10_J_ENa.zip>`_)
            * NEB-070062B: ALOS/PALSAR Level 1.1/1.5 Product Format Description
              (`JAXA 2009 <https://www.eorc.jaxa.jp/ALOS/en/doc/fdata/PALSAR_x_Format_EL.pdf>`_)
        Products / processing levels:
            * 1.0
            * 1.1
            * 1.5
        Acquisition modes:
            * AB: [SP][HWDPC]
            * A: supplemental remarks of the sensor type:
                * S: Wide observation mode
                * P: all other modes
            * B: observation mode
                * H: Fine mode
                * W: ScanSAR mode
                * D: Direct downlink mode
                * P: Polarimetry mode
                * C: Calibration mode
    
    PALSAR-2:
        Reference:
            ALOS-2/PALSAR-2 Level 1.1/1.5/2.1/3.1 CEOS SAR Product Format Description
            (`JAXA 2014 <https://www.eorc.jaxa.jp/ALOS-2/en/doc/fdata/PALSAR-2_xx_Format_CEOS_E_r.pdf>`_).
        Products / processing levels:
            * 1.0
            * 1.1
            * 1.5
        Acquisition modes:
            * SBS: Spotlight mode
            * UBS: Ultra-fine mode Single polarization
            * UBD: Ultra-fine mode Dual polarization
            * HBS: High-sensitive mode Single polarization
            * HBD: High-sensitive mode Dual polarization
            * HBQ: High-sensitive mode Full (Quad.) polarimetry
            * FBS: Fine mode Single polarization
            * FBD: Fine mode Dual polarization
            * FBQ: Fine mode Full (Quad.) polarimetry
            * WBS: Scan SAR nominal [14MHz] mode Single polarization
            * WBD: Scan SAR nominal [14MHz] mode Dual polarization
            * WWS: Scan SAR nominal [28MHz] mode Single polarization
            * WWD: Scan SAR nominal [28MHz] mode Dual polarization
            * VBS: Scan SAR wide mode Single polarization
            * VBD: Scan SAR wide mode Dual polarization
    """
    
    def __init__(self, scene):
        
        self.scene = os.path.realpath(scene)
        
        patterns = [r'^LED-ALPSR'
                    r'(?P<sub>P|S)'
                    r'(?P<orbit>[0-9]{5})'
                    r'(?P<frame>[0-9]{4})-'
                    r'(?P<mode>[HWDPC])'
                    r'(?P<level>1\.[015])'
                    r'(?P<proc>G|_)'
                    r'(?P<proj>[UPML_])'
                    r'(?P<orbit_dir>A|D)$',
                    r'^LED-ALOS2'
                    r'(?P<orbit>[0-9]{5})'
                    r'(?P<frame>[0-9]{4})-'
                    r'(?P<date>[0-9]{6})-'
                    r'(?P<mode>SBS|UBS|UBD|HBS|HBD|HBQ|FBS|FBD|FBQ|WBS|WBD|WWS|WWD|VBS|VBD)'
                    r'(?P<look_dir>L|R)'
                    r'(?P<level>1\.0|1\.1|1\.5|2\.1|3\.1)'
                    r'(?P<proc>[GR_])'
                    r'(?P<proj>[UPML_])'
                    r'(?P<orbit_dir>A|D)$']
        
        for i, pattern in enumerate(patterns):
            self.pattern = pattern
            try:
                self.examine()
                break
            except RuntimeError as e:
                if i + 1 == len(patterns):
                    raise e
        
        self.meta = self.scanMetadata()
        
        # register the standardized meta attributes as object attributes
        super(CEOS_PSR, self).__init__(self.meta)
    
    def _getLeaderfileContent(self):
        led_obj = self.getFileObj(self.led_filename)
        led = led_obj.read()
        led_obj.close()
        return led
    
    def _parseSummary(self):
        try:
            summary_file = self.getFileObj(self.findfiles('summary|workreport')[0])
        except IndexError:
            return {}
        text = summary_file.getvalue().decode('utf-8').strip()
        summary_file.close()
        summary = ast.literal_eval('{"' + re.sub(r'\s*=', '":', text).replace('\n', ',"') + '}')
        for x, y in summary.items():
            summary[x] = parse_literal(y)
        return summary
    
    @property
    def led_filename(self):
        return self.findfiles(self.pattern)[0]
    
    def scanMetadata(self):
        ################################################################################################################
        # read leader (LED) file
        led = self._getLeaderfileContent()
        
        # read summary text file
        meta = self._parseSummary()
        
        # read polarizations from image file names
        meta['polarizations'] = [re.search('[HV]{2}', os.path.basename(x)).group(0) for x in self.findfiles('^IMG-')]
        ################################################################################################################
        # read start and stop time
        
        try:
            meta['start'] = self.parse_date(meta['Img_SceneStartDateTime'])
            meta['stop'] = self.parse_date(meta['Img_SceneEndDateTime'])
        except (AttributeError, KeyError):
            try:
                start_string = re.search('Img_SceneStartDateTime[ ="0-9:.]*', led).group()
                stop_string = re.search('Img_SceneEndDateTime[ ="0-9:.]*', led).group()
                meta['start'] = self.parse_date(re.search(r'\d+\s[\d:.]+', start_string).group())
                meta['stop'] = self.parse_date(re.search(r'\d+\s[\d:.]+', stop_string).group())
            except AttributeError:
                raise IndexError('start and stop time stamps cannot be extracted; see file {}'
                                 .format(self.led_filename))
        ################################################################################################################
        # read file descriptor record
        p0 = 0
        p1 = struct.unpack('>i', led[8:12])[0]
        fileDescriptor = led[p0:p1]
        # dataSetSummary
        dss_n = int(fileDescriptor[180:186])
        dss_l = int(fileDescriptor[186:192])
        # mapProjectionData
        mpd_n = int(fileDescriptor[192:198])
        mpd_l = int(fileDescriptor[198:204])
        # platformPositionData
        ppd_n = int(fileDescriptor[204:210])
        ppd_l = int(fileDescriptor[210:216])
        # attitudeData
        adr_n = int(fileDescriptor[216:222])
        adr_l = int(fileDescriptor[222:228])
        # radiometricData
        rdr_n = int(fileDescriptor[228:234])
        rdr_l = int(fileDescriptor[234:240])
        # dataQualitySummary
        dqs_n = int(fileDescriptor[252:258])
        dqs_l = int(fileDescriptor[258:264])
        meta['sensor'] = {'AL1': 'PSR1', 'AL2': 'PSR2'}[fileDescriptor[48:51].decode('utf-8')]
        ################################################################################################################
        # read leader file name information
        
        match = re.match(re.compile(self.pattern), os.path.basename(self.led_filename))
        
        if meta['sensor'] == 'PSR1':
            meta['acquisition_mode'] = match.group('sub') + match.group('mode')
        else:
            meta['acquisition_mode'] = match.group('mode')
        meta['product'] = match.group('level')
        ################################################################################################################
        # read led records
        p0 = p1
        p1 += dss_l * dss_n
        dataSetSummary = led[p0:p1]
        
        if mpd_n > 0:
            p0 = p1
            p1 += mpd_l * mpd_n
            mapProjectionData = led[p0:p1]
        else:
            mapProjectionData = None
        
        p0 = p1
        p1 += ppd_l * ppd_n
        platformPositionData = led[p0:p1]
        
        p0 = p1
        p1 += adr_l * adr_n
        attitudeData = led[p0:p1]
        
        p0 = p1
        p1 += rdr_l * rdr_n
        radiometricData = led[p0:p1]
        
        p0 = p1
        p1 += dqs_l * dqs_n
        dataQualitySummary = led[p0:p1]
        
        facilityRelatedData = []
        while p1 < len(led):
            p0 = p1
            length = struct.unpack('>i', led[(p0 + 8):(p0 + 12)])[0]
            p1 += length
            facilityRelatedData.append(led[p0:p1])
        ################################################################################################################
        # read map projection data record
        
        if mapProjectionData is not None:
            lat = list(map(float, [mapProjectionData[1072:1088],
                                   mapProjectionData[1104:1120],
                                   mapProjectionData[1136:1152],
                                   mapProjectionData[1168:1184]]))
            lon = list(map(float, [mapProjectionData[1088:1104],
                                   mapProjectionData[1120:1136],
                                   mapProjectionData[1152:1168],
                                   mapProjectionData[1184:1200]]))
            meta['corners'] = {'xmin': min(lon), 'xmax': max(lon), 'ymin': min(lat), 'ymax': max(lat)}
            
            # https://github.com/datalyze-solutions/LandsatProcessingPlugin/blob/master/src/metageta/formats/alos.py
            
            src_srs = osr.SpatialReference()
            # src_srs.SetGeogCS('GRS 1980','GRS 1980','GRS 1980',6378137.00000,298.2572220972)
            src_srs.SetWellKnownGeogCS('WGS84')
            # Proj CS
            projdesc = mapProjectionData[412:444].strip()
            epsg = 0  # default
            if projdesc == 'UTM-PROJECTION':
                nZone = int(mapProjectionData[476:480])
                dfFalseNorthing = float(mapProjectionData[496:512])
                if dfFalseNorthing > 0.0:
                    bNorth = False
                    epsg = 32700 + nZone
                else:
                    bNorth = True
                    epsg = 32600 + nZone
                src_srs.ImportFromEPSG(epsg)
                # src_srs.SetUTM(nZone,bNorth) #generates WKT that osr.SpatialReference.AutoIdentifyEPSG() doesn't return an EPSG for
            elif projdesc == 'UPS-PROJECTION':
                dfCenterLon = float(mapProjectionData[624, 640])
                dfCenterLat = float(mapProjectionData[640, 656])
                dfScale = float(mapProjectionData[656, 672])
                src_srs.SetPS(dfCenterLat, dfCenterLon, dfScale, 0.0, 0.0)
            elif projdesc == 'MER-PROJECTION':
                dfCenterLon = float(mapProjectionData[736, 752])
                dfCenterLat = float(mapProjectionData[752, 768])
                src_srs.SetMercator(dfCenterLat, dfCenterLon, 0, 0, 0)
            elif projdesc == 'LCC-PROJECTION':
                dfCenterLon = float(mapProjectionData[736, 752])
                dfCenterLat = float(mapProjectionData[752, 768])
                dfStdP1 = float(mapProjectionData[768, 784])
                dfStdP2 = float(mapProjectionData[784, 800])
                src_srs.SetLCC(dfStdP1, dfStdP2, dfCenterLat, dfCenterLon, 0, 0)
            meta['projection'] = src_srs.ExportToWkt()
        
        else:
            meta['projection'] = crsConvert(4326, 'wkt')
        ################################################################################################################
        # read data set summary record
        
        scene_id = dataSetSummary[20:52].decode('ascii')
        
        if meta['sensor'] == 'PSR1':
            pattern = r'(?P<sat_id>[A-Z]{2})' \
                      r'(?P<sensor_id>[A-Z]{3})' \
                      r'(?P<sensor_id_sub>[A-Z]{1})' \
                      r'(?P<orbitNumber>[0-9]{5})' \
                      r'(?P<frameNumber>[0-9]{4})'
        elif meta['sensor'] == 'PSR2':
            pattern = r'(?P<sat_id>[A-Z0-9]{5})' \
                      r'(?P<orbitNumber>[0-9]{5})' \
                      r'(?P<frameNumber>[0-9]{4})-' \
                      r'(?P<obs_day>[0-9]{6})[ ]{11}'
        else:
            raise ValueError('sensor must be either PSR1 or PSR2; is: {}'.format(meta['sensor']))
        
        match = re.match(re.compile(pattern), scene_id)
        
        orbitsPerCycle = {'PSR1': 671, 'PSR2': 207}[meta['sensor']]
        
        meta['orbitNumber_abs'] = int(match.group('orbitNumber'))
        meta['orbitNumber_rel'] = meta['orbitNumber_abs'] % orbitsPerCycle
        meta['cycleNumber'] = meta['orbitNumber_abs'] // orbitsPerCycle + 1
        meta['frameNumber'] = int(match.group('frameNumber'))
        
        try:
            meta['lines'] = int(dataSetSummary[324:332]) * 2
        except ValueError:
            meta['lines'] = None
        try:
            meta['samples'] = int(dataSetSummary[332:340]) * 2
        except ValueError:
            meta['samples'] = None
        meta['incidence'] = float(dataSetSummary[484:492])
        meta['wavelength'] = float(dataSetSummary[500:516]) * 100  # in cm
        meta['proc_facility'] = dataSetSummary[1046:1062].strip()
        meta['proc_system'] = dataSetSummary[1062:1070].strip()
        meta['proc_version'] = dataSetSummary[1070:1078].strip()
        
        try:
            azlks = float(dataSetSummary[1174:1190])
            rlks = float(dataSetSummary[1190:1206])
            meta['looks'] = (rlks, azlks)
        except ValueError:
            meta['looks'] = (None, None)
        
        meta['orbit'] = dataSetSummary[1534:1542].decode('utf-8').strip()[0]
        
        try:
            spacing_azimuth = float(dataSetSummary[1686:1702])
            spacing_range = float(dataSetSummary[1702:1718])
            meta['spacing'] = (spacing_range, spacing_azimuth)
        except ValueError:
            meta['spacing'] = (None, None)
        ################################################################################################################
        # read radiometric data record
        if len(radiometricData) > 0:
            meta['k_dB'] = float(radiometricData[20:36])
        else:
            meta['k_dB'] = None
        ################################################################################################################
        # additional notes
        
        # the following can be used to read platform position time from the led file
        # this covers a larger time frame than the actual scene sensing time
        # y, m, d, nd, s = platformPositionData[144:182].split()
        # start = datetime(int(y), int(m), int(d)) + timedelta(seconds=float(s))
        # npoints = int(platformPositionData[140:144])
        # interval = float(platformPositionData[182:204])
        # stop = start + timedelta(seconds=(npoints - 1) * interval)
        # parse_date(start)
        # parse_date(stop)
        
        return meta
    
    def unpack(self, directory, overwrite=False, exist_ok=False):
        outdir = os.path.join(directory, os.path.basename(self.file).replace('LED-', ''))
        self._unpack(outdir, overwrite=overwrite, exist_ok=exist_ok)
    
    def getCorners(self):
        if 'corners' not in self.meta.keys():
            lat = [y for x, y in self.meta.items() if 'Latitude' in x]
            lon = [y for x, y in self.meta.items() if 'Longitude' in x]
            if len(lat) == 0 or len(lon) == 0:
                img_filename = self.findfiles('IMG')[0]
                img_obj = self.getFileObj(img_filename)
                imageFileDescriptor = img_obj.read(720)
                
                lineRecordLength = int(imageFileDescriptor[186:192])  # bytes per line + 412
                numberOfRecords = int(imageFileDescriptor[180:186])
                
                signalDataDescriptor1 = img_obj.read(412)
                img_obj.seek(720 + lineRecordLength * (numberOfRecords - 1))
                signalDataDescriptor2 = img_obj.read()
                
                img_obj.close()
                
                lat = [signalDataDescriptor1[192:196], signalDataDescriptor1[200:204],
                       signalDataDescriptor2[192:196], signalDataDescriptor2[200:204]]
                
                lon = [signalDataDescriptor1[204:208], signalDataDescriptor1[212:216],
                       signalDataDescriptor2[204:208], signalDataDescriptor2[212:216]]
                
                lat = [struct.unpack('>i', x)[0] / 1000000. for x in lat]
                lon = [struct.unpack('>i', x)[0] / 1000000. for x in lon]
            
            self.meta['corners'] = {'xmin': min(lon), 'xmax': max(lon), 'ymin': min(lat), 'ymax': max(lat)}
        
        return self.meta['corners']


class EORC_PSR(ID):
    """
    Handler class for ALOS-2/PALSAR-2 data in EORC (Earth Observation Research Center) Path format
    
    Sensors:
        * PALSAR-2

    PALSAR-2:
        Reference: 
            NDX-150019: ALOS-2/PALSAR-2 EORC Path Product Format Description (JAXA 2016)
        Products / processing levels:
            * 1.5
        Acquisition modes:
            * FBD: Fine mode Dual polarization
            * WBD: Scan SAR nominal [14MHz] mode Dual polarization
    """
    
    def __init__(self, scene):
        
        self.scene = os.path.realpath(scene)
        
        self.pattern = r'^PSR2-' \
                       r'(?P<prodlevel>SLTR)_' \
                       r'(?P<pathnr>RSP[0-9]{3})_' \
                       r'(?P<date>[0-9]{8})' \
                       r'(?P<mode>FBD|WBD)' \
                       r'(?P<beam>[0-9]{2})' \
                       r'(?P<orbit_dir>A|D)' \
                       r'(?P<look_dir>L|R)_' \
                       r'(?P<replay_id1>[0-9A-Z]{16})-' \
                       r'(?P<replay_id2>[0-9A-Z]{5})_' \
                       r'(?P<internal>[0-9]{3})_' \
                       r'HDR$'
        
        self.examine()
        
        self.meta = self.scanMetadata()
        
        # register the standardized meta attributes as object attributes
        super(EORC_PSR, self).__init__(self.meta)
    
    def _getHeaderfileContent(self):
        head_obj = self.getFileObj(self.header_filename)
        head = head_obj.read().decode('utf-8')
        head = list(head.split('\n'))
        head_obj.close()
        return head
    
    def _parseFacter_m(self):
        try:
            facter_file = self.findfiles('facter_m.dat')[0]
        except IndexError:
            return {}
        facter_obj = self.getFileObj(facter_file)
        facter_m = facter_obj.read().decode('utf-8')
        facter_m = list(facter_m.split('\n'))
        facter_obj.close()
        return facter_m
    
    @property
    def header_filename(self):
        return self.findfiles(self.pattern)[0]
    
    def scanMetadata(self):
        ################################################################################################################
        # read header (HDR) file
        header = self._getHeaderfileContent()
        header = [head.replace(" ", "") for head in header]
        
        # read summary text file
        facter_m = self._parseFacter_m()
        facter_m = [fact.replace(" ", "") for fact in facter_m]
        
        meta = {}
        
        # read polarizations from image file names
        meta['polarizations'] = [re.search('[HV]{2}', os.path.basename(x)).group(0) for x in self.findfiles('^sar.')]
        meta['product'] = header[3]
        ################################################################################################################
        # read start and stop time --> TODO: in what format is the start and stop time?
        
        try:
            start_time = facter_m[168].split('.')[0].zfill(2) + facter_m[168].split('.')[1][:4]
            stop_time = facter_m[170].split('.')[0].zfill(2) + facter_m[170].split('.')[1][:4]
        except (AttributeError):
            raise IndexError('start and stop time stamps cannot be extracted; see file facter_m.dat')
        
        meta['start'] = str(header[6])  # +'T'+start_time
        meta['stop'] = str(header[6])  # +'T'+stop_time
        ################################################################################################################
        # read file metadata
        meta['sensor'] = header[2]
        ################################################################################################################
        # read leader file name information
        meta['acquisition_mode'] = header[12]
        # ###############################################################################################################
        # read map projection data 
        
        lat = list(map(float, [header[33], header[35], header[37], header[39]]))
        lon = list(map(float, [header[34], header[36], header[38], header[40]]))
        
        meta['corners'] = {'xmin': min(lon), 'xmax': max(lon), 'ymin': min(lat), 'ymax': max(lat)}
        
        meta['projection'] = crsConvert(4918, 'wkt')  # EPSG: 4918: ITRF97, GRS80
        ################################################################################################################
        # read data set summary record
        
        orbitsPerCycle = int(207)
        
        meta['orbitNumber_rel'] = int(header[7])
        meta['cycleNumber'] = header[5]
        meta['frameNumber'] = ''
        meta['orbitNumber_abs'] = int(orbitsPerCycle * (meta['cycleNumber'] - 1) + meta['orbitNumber_rel'])
        
        meta['lines'] = int(float(facter_m[51]))
        meta['samples'] = int(float(facter_m[50]))
        meta['incidence'] = float(facter_m[119])
        meta['proc_facility'] = header[73]
        
        meta['spacing'] = (float(header[51]), float(header[52]))
        
        meta['orbit'] = header[9]
        ################################################################################################################
        # read radiometric data record
        
        meta['k_dB'] = float(header[64])
        
        return meta
    
    def unpack(self, directory, overwrite=False, exist_ok=False):
        outdir = os.path.join(directory, os.path.basename(self.file).replace('LED-', ''))
        self._unpack(outdir, overwrite=overwrite, exist_ok=exist_ok)
    
    def getCorners(self):
        if 'corners' not in self.meta.keys():
            lat = [y for x, y in self.meta.items() if 'Latitude' in x]
            lon = [y for x, y in self.meta.items() if 'Longitude' in x]
            if len(lat) == 0 or len(lon) == 0:
                img_filename = self.findfiles('IMG')[0]
                img_obj = self.getFileObj(img_filename)
                imageFileDescriptor = img_obj.read(720)
                
                lineRecordLength = int(imageFileDescriptor[186:192])  # bytes per line + 412
                numberOfRecords = int(imageFileDescriptor[180:186])
                
                signalDataDescriptor1 = img_obj.read(412)
                img_obj.seek(720 + lineRecordLength * (numberOfRecords - 1))
                signalDataDescriptor2 = img_obj.read()
                
                img_obj.close()
                
                lat = [signalDataDescriptor1[192:196], signalDataDescriptor1[200:204],
                       signalDataDescriptor2[192:196], signalDataDescriptor2[200:204]]
                
                lon = [signalDataDescriptor1[204:208], signalDataDescriptor1[212:216],
                       signalDataDescriptor2[204:208], signalDataDescriptor2[212:216]]
                
                lat = [struct.unpack('>i', x)[0] / 1000000. for x in lat]
                lon = [struct.unpack('>i', x)[0] / 1000000. for x in lon]
            
            self.meta['corners'] = {'xmin': min(lon), 'xmax': max(lon), 'ymin': min(lat), 'ymax': max(lat)}
        
        return self.meta['corners']


class ESA(ID):
    """
    Handler class for SAR data in ESA format (Envisat ASAR, ERS-1/2)
    
    Sensors:
        * ASAR
        * ERS1
        * ERS2
    """
    
    def __init__(self, scene):
        
        self.pattern = r'(?P<product_id>(?:SAR|ASA)_(?:IM(?:S|P|G|M|_)|AP(?:S|P|G|M|_)|WV(?:I|S|W|_)|WS(?:M|S|_))_[012B][CP])' \
                       r'(?P<processing_stage_flag>[A-Z])' \
                       r'(?P<originator_ID>[A-Z\-]{3})' \
                       r'(?P<start_day>[0-9]{8})_' \
                       r'(?P<start_time>[0-9]{6})_' \
                       r'(?P<duration>[0-9]{8})' \
                       r'(?P<phase>[0-9A-Z]{1})' \
                       r'(?P<cycle>[0-9]{3})_' \
                       r'(?P<relative_orbit>[0-9]{5})_' \
                       r'(?P<absolute_orbit>[0-9]{5})_' \
                       r'(?P<counter>[0-9]{4,})\.' \
                       r'(?P<satellite_ID>[EN][12])' \
                       r'(?P<extension>(?:\.zip|\.tar\.gz|))$'
        
        self.pattern_pid = r'(?P<sat_id>(?:SAR|ASA))_' \
                           r'(?P<image_mode>(?:IM(?:S|P|G|M|_)|AP(?:S|P|G|M|_)|WV(?:I|S|W|_)|WS(?:M|S|_)))_' \
                           r'(?P<processing_level>[012B][CP])'
        
        self.scene = os.path.realpath(scene)
        
        self.examine()
        
        match = re.match(re.compile(self.pattern), os.path.basename(self.file))
        match2 = re.match(re.compile(self.pattern_pid), match.group('product_id'))
        
        if re.search('IM__0', match.group('product_id')):
            raise RuntimeError('product level 0 not supported (yet)')
        
        self.meta = self.scanMetadata()
        self.meta['acquisition_mode'] = match2.group('image_mode')
        self.meta['product'] = 'SLC' if self.meta['acquisition_mode'] in ['IMS', 'APS', 'WSS'] else 'PRI'
        self.meta['frameNumber'] = int(match.group('counter'))
        
        # register the standardized meta attributes as object attributes
        super(ESA, self).__init__(self.meta)
    
    def getCorners(self):
        lon = [self.meta[x] for x in self.meta if re.search('LONG', x)]
        lat = [self.meta[x] for x in self.meta if re.search('LAT', x)]
        return {'xmin': min(lon), 'xmax': max(lon), 'ymin': min(lat), 'ymax': max(lat)}
    
    def scanMetadata(self):
        meta = self.gdalinfo()
        
        if meta['sensor'] == 'ASAR':
            meta['polarizations'] = sorted([y.replace('/', '') for x, y in meta.items() if
                                            'TX_RX_POLAR' in x and len(y) == 3])
        elif meta['sensor'] in ['ERS1', 'ERS2']:
            meta['polarizations'] = ['VV']
        
        meta['orbit'] = meta['SPH_PASS'][0]
        meta['start'] = meta['MPH_SENSING_START']
        meta['stop'] = meta['MPH_SENSING_STOP']
        meta['spacing'] = (meta['SPH_RANGE_SPACING'], meta['SPH_AZIMUTH_SPACING'])
        meta['looks'] = (meta['SPH_RANGE_LOOKS'], meta['SPH_AZIMUTH_LOOKS'])
        
        meta['orbitNumber_abs'] = meta['MPH_ABS_ORBIT']
        meta['orbitNumber_rel'] = meta['MPH_REL_ORBIT']
        meta['cycleNumber'] = meta['MPH_CYCLE']
        return meta
    
    def unpack(self, directory, overwrite=False, exist_ok=False):
        base_file = os.path.basename(self.file).strip(r'\.zip|\.tar(?:\.gz|)')
        base_dir = os.path.basename(directory.strip('/'))
        
        outdir = directory if base_file == base_dir else os.path.join(directory, base_file)
        
        self._unpack(outdir, overwrite=overwrite, exist_ok=exist_ok)


class SAFE(ID):
    """
    Handler class for Sentinel-1 data
    
    Sensors:
        * S1A
        * S1B

    References:
        * S1-RS-MDA-52-7443 Sentinel-1 IPF Auxiliary Product Specification
        * MPC-0243 Masking "No-value" Pixels on GRD Products generated by the Sentinel-1 ESA IPF
    """
    
    def __init__(self, scene):
        
        self.scene = os.path.realpath(scene)
        
        self.pattern = r'^(?P<sensor>S1[AB])_' \
                       r'(?P<beam>S1|S2|S3|S4|S5|S6|IW|EW|WV|EN|N1|N2|N3|N4|N5|N6|IM)_' \
                       r'(?P<product>SLC|GRD|OCN)' \
                       r'(?P<resolution>F|H|M|_)_' \
                       r'(?P<processingLevel>1|2)' \
                       r'(?P<category>S|A)' \
                       r'(?P<pols>SH|SV|DH|DV|VV|HH|HV|VH)_' \
                       r'(?P<start>[0-9]{8}T[0-9]{6})_' \
                       r'(?P<stop>[0-9]{8}T[0-9]{6})_' \
                       r'(?P<orbitNumber>[0-9]{6})_' \
                       r'(?P<dataTakeID>[0-9A-F]{6})_' \
                       r'(?P<productIdentifier>[0-9A-F]{4})' \
                       r'\.SAFE$'
        
        self.pattern_ds = r'^s1[ab]-' \
                          r'(?P<swath>s[1-6]|iw[1-3]?|ew[1-5]?|wv[1-2]|n[1-6])-' \
                          r'(?P<product>slc|grd|ocn)-' \
                          r'(?P<pol>hh|hv|vv|vh)-' \
                          r'(?P<start>[0-9]{8}t[0-9]{6})-' \
                          r'(?P<stop>[0-9]{8}t[0-9]{6})-' \
                          r'(?:[0-9]{6})-(?:[0-9a-f]{6})-' \
                          r'(?P<id>[0-9]{3})' \
                          r'\.xml$'
        
        self.examine(include_folders=True)
        
        if not re.match(re.compile(self.pattern), os.path.basename(self.file)):
            raise RuntimeError('folder does not match S1 scene naming convention')
        
        # scan the metadata XML files file and add selected attributes to a meta dictionary
        self.meta = self.scanMetadata()
        self.meta['projection'] = crsConvert(4326, 'wkt')
        
        # register the standardized meta attributes as object attributes
        super(SAFE, self).__init__(self.meta)
        
        self.gammafiles = {'slc': [], 'pri': [], 'grd': []}
    
    def removeGRDBorderNoise(self, method='pyroSAR'):
        """
        mask out Sentinel-1 image border noise.
        
        Parameters
        ----------
        method: str
            the border noise removal method to be applied; one of the following:
            
             - 'ESA': the pure implementation as described by ESA
             - 'pyroSAR': the ESA method plus the custom pyroSAR refinement

        Returns
        -------
        
        See Also
        --------
        :func:`~pyroSAR.S1.removeGRDBorderNoise`
        """
        S1.removeGRDBorderNoise(self, method=method)
    
    def getCorners(self):
        coordinates = self.meta['coordinates']
        lat = [x[1] for x in coordinates]
        lon = [x[0] for x in coordinates]
        return {'xmin': min(lon), 'xmax': max(lon), 'ymin': min(lat), 'ymax': max(lat)}
    
    def getOSV(self, osvdir=None, osvType='POE', returnMatch=False, useLocal=True, timeout=300, url_option=1):
        """
        download Orbit State Vector files for the scene

        Parameters
        ----------
        osvdir: str
            the directory of OSV files; subdirectories POEORB and RESORB are created automatically;
            if no directory is defined, the standard SNAP auxdata location is used
        osvType: str or list
            the type of orbit file either 'POE', 'RES' or a list of both;
            if both are selected, the best matching file will be retrieved. I.e., POE if available and RES otherwise
        returnMatch: bool
            return the best matching orbit file?
        useLocal: bool
            use locally existing files and do not search for files online if the right file has been found?
        timeout: int or tuple or None
            the timeout in seconds for downloading OSV files as provided to :func:`requests.get`
        url_option: int
            the URL to query for scenes
            
             - 1: https://scihub.copernicus.eu/gnss
             - 2: https://step.esa.int/auxdata/orbits/Sentinel-1

        Returns
        -------
        str or None
            the best matching OSV file if `returnMatch` is True or None otherwise
        
        See Also
        --------
        :class:`pyroSAR.S1.OSV`
        """
        date = datetime.strptime(self.start, '%Y%m%dT%H%M%S')
        
        # create a time span with one day before and one after the acquisition
        before = (date - timedelta(days=1)).strftime('%Y%m%dT%H%M%S')
        after = (date + timedelta(days=1)).strftime('%Y%m%dT%H%M%S')
        
        if useLocal:
            with S1.OSV(osvdir, timeout=timeout) as osv:
                match = osv.match(sensor=self.sensor, timestamp=self.start, osvtype=osvType)
            if match is not None:
                return match if returnMatch else None
        
        if osvType in ['POE', 'RES']:
            with S1.OSV(osvdir, timeout=timeout) as osv:
                files = osv.catch(sensor=self.sensor, osvtype=osvType, start=before, stop=after,
                                  url_option=url_option)
        
        elif sorted(osvType) == ['POE', 'RES']:
            with S1.OSV(osvdir, timeout=timeout) as osv:
                files = osv.catch(sensor=self.sensor, osvtype='POE', start=before, stop=after,
                                  url_option=url_option)
                if len(files) == 0:
                    files = osv.catch(sensor=self.sensor, osvtype='RES', start=before, stop=after,
                                      url_option=url_option)
        else:
            raise TypeError("osvType must either be 'POE', 'RES' or a list of both")
        
        osv.retrieve(files)
        
        if returnMatch:
            with S1.OSV(osvdir, timeout=timeout) as osv:
                match = osv.match(sensor=self.sensor, timestamp=self.start, osvtype=osvType)
            return match
    
    def quicklook(self, outname, format='kmz'):
        if format != 'kmz':
            raise RuntimeError('currently only kmz is supported as format')
        kml_name = self.findfiles('map-overlay.kml')[0]
        png_name = self.findfiles('quick-look.png')[0]
        with zf.ZipFile(outname, 'w') as out:
            with self.getFileObj(kml_name) as kml_in:
                kml = kml_in.getvalue().decode('utf-8')
                kml = kml.replace('Sentinel-1 Map Overlay', self.outname_base())
                out.writestr('doc.kml', data=kml)
            with self.getFileObj(png_name) as png_in:
                out.writestr('quick-look.png', data=png_in.getvalue())
    
    def resolution(self):
        """
        Compute the mid-swath resolution of the Sentinel-1 product. For GRD products the resolution is expressed in
        ground range and in slant range otherwise.
        
        References:
            * https://sentinel.esa.int/web/sentinel/user-guides/sentinel-1-sar/resolutions/level-1-single-look-complex
            * https://sentinel.esa.int/web/sentinel/user-guides/sentinel-1-sar/resolutions/level-1-ground-range-detected
            * https://sentinel.esa.int/web/sentinel/user-guides/sentinel-1-sar/document-library/-/asset_publisher/1dO7RF5fJMbd/content/sentinel-1-product-definition
        
        Returns
        -------
        tuple[float]
            the resolution as (range, azimuth)
        """
        if 'resolution' in self.meta.keys():
            return self.meta['resolution']
        annotations = self.findfiles(self.pattern_ds)
        key = lambda x: re.search('-[vh]{2}-', x).group()
        groups = groupby(sorted(annotations, key=key), key=key)
        annotations = [list(value) for key, value in groups][0]
        proc_pars = []  # processing parameters per sub-swath
        sp_az = []  # azimuth pixel spacings per sub-swath
        ti_az = []  # azimuth time intervals per sub-swath
        for ann in annotations:
            with self.getFileObj(ann) as ann_xml:
                tree = ET.fromstring(ann_xml.read())
                par = tree.findall('.//swathProcParams')
                proc_pars.extend(par)
                for i in range(len(par)):
                    sp_az.append(float(tree.find('.//azimuthPixelSpacing').text))
                    ti_az.append(float(tree.find('.//azimuthTimeInterval').text))
        c = 299792458.0  # speed of light
        # see Sentinel-1 product definition for Hamming window coefficients
        # and Impulse Response Width (IRW) broadening factors:
        coefficients = [0.52, 0.6, 0.61, 0.62, 0.63, 0.65, 0.70, 0.72, 0.73, 0.75]
        b_factors = [1.54, 1.32, 1.3, 1.28, 1.27, 1.24, 1.18, 1.16, 1.15, 1.13]
        resolutions_rg = []
        resolutions_az = []
        for i, par in enumerate(proc_pars):
            # computation of slant range resolution
            rg_proc = par.find('rangeProcessing')
            wrg = float(rg_proc.find('windowCoefficient').text)
            brg = float(rg_proc.find('processingBandwidth').text)
            lbrg = float(rg_proc.find('lookBandwidth').text)
            lrg = brg / lbrg
            kbrg = b_factors[coefficients.index(wrg)]
            resolutions_rg.append(0.886 * c / (2 * brg) * kbrg * lrg)
            
            # computation of azimuth resolution; yet to be checked for correctness
            az_proc = par.find('azimuthProcessing')
            waz = float(az_proc.find('windowCoefficient').text)
            baz = float(az_proc.find('processingBandwidth').text)
            lbaz = float(az_proc.find('lookBandwidth').text)
            laz = baz / lbaz
            kbaz = b_factors[coefficients.index(waz)]
            vsat = sp_az[i] / ti_az[i]
            resolutions_az.append(0.886 * vsat / baz * kbaz * laz)
        
        resolution_rg = median(resolutions_rg)
        resolution_az = median(resolutions_az)
        
        if self.meta['image_geometry'] == 'GROUND_RANGE':
            resolution_rg /= math.sin(math.radians(self.meta['incidence']))
        
        self.meta['resolution'] = resolution_rg, resolution_az
        return self.meta['resolution']
    
    def scanMetadata(self):
        with self.getFileObj(self.findfiles('manifest.safe')[0]) as input:
            manifest = input.getvalue()
        namespaces = getNamespaces(manifest)
        tree = ET.fromstring(manifest)
        
        meta = dict()
        acqmode = tree.find('.//s1sarl1:mode', namespaces).text
        if acqmode == 'SM':
            meta['acquisition_mode'] = tree.find('.//s1sarl1:swath', namespaces).text
        else:
            meta['acquisition_mode'] = acqmode
        meta['acquisition_time'] = dict(
            [(x, tree.find('.//safe:{}Time'.format(x), namespaces).text) for x in ['start', 'stop']])
        meta['start'], meta['stop'] = (self.parse_date(meta['acquisition_time'][x]) for x in ['start', 'stop'])
        meta['coordinates'] = [tuple([float(y) for y in x.split(',')][::-1]) for x in
                               tree.find('.//gml:coordinates', namespaces).text.split()]
        meta['orbit'] = tree.find('.//s1:pass', namespaces).text[0]
        
        meta['orbitNumber_abs'] = int(tree.find('.//safe:orbitNumber[@type="start"]', namespaces).text)
        meta['orbitNumber_rel'] = int(tree.find('.//safe:relativeOrbitNumber[@type="start"]', namespaces).text)
        meta['cycleNumber'] = int(tree.find('.//safe:cycleNumber', namespaces).text)
        meta['frameNumber'] = int(tree.find('.//s1sarl1:missionDataTakeID', namespaces).text)
        
        meta['orbitNumbers_abs'] = dict(
            [(x, int(tree.find('.//safe:orbitNumber[@type="{0}"]'.format(x), namespaces).text)) for x in
             ['start', 'stop']])
        meta['orbitNumbers_rel'] = dict(
            [(x, int(tree.find('.//safe:relativeOrbitNumber[@type="{0}"]'.format(x), namespaces).text)) for x in
             ['start', 'stop']])
        meta['polarizations'] = [x.text for x in tree.findall('.//s1sarl1:transmitterReceiverPolarisation', namespaces)]
        meta['product'] = tree.find('.//s1sarl1:productType', namespaces).text
        meta['category'] = tree.find('.//s1sarl1:productClass', namespaces).text
        meta['sensor'] = tree.find('.//safe:familyName', namespaces).text.replace('ENTINEL-', '') + tree.find(
            './/safe:number', namespaces).text
        meta['IPF_version'] = float(tree.find('.//safe:software', namespaces).attrib['version'])
        meta['sliceNumber'] = int(tree.find('.//s1sarl1:sliceNumber', namespaces).text)
        meta['totalSlices'] = int(tree.find('.//s1sarl1:totalSlices', namespaces).text)
        
        annotations = self.findfiles(self.pattern_ds)
        key = lambda x: re.search('-[vh]{2}-', x).group()
        groups = groupby(sorted(annotations, key=key), key=key)
        annotations = [list(value) for key, value in groups][0]
        ann_trees = []
        for ann in annotations:
            with self.getFileObj(ann) as ann_xml:
                ann_trees.append(ET.fromstring(ann_xml.read()))
        
        sp_rg = [float(x.find('.//rangePixelSpacing').text) for x in ann_trees]
        sp_az = [float(x.find('.//azimuthPixelSpacing').text) for x in ann_trees]
        meta['spacing'] = (median(sp_rg), median(sp_az))
        samples = [x.find('.//imageAnnotation/imageInformation/numberOfSamples').text for x in ann_trees]
        meta['samples'] = sum([int(x) for x in samples])
        lines = [x.find('.//imageAnnotation/imageInformation/numberOfLines').text for x in ann_trees]
        meta['lines'] = sum([int(x) for x in lines])
        heading = median(float(x.find('.//platformHeading').text) for x in ann_trees)
        meta['heading'] = heading if heading > 0 else heading + 360
        incidence = [float(x.find('.//incidenceAngleMidSwath').text) for x in ann_trees]
        meta['incidence'] = median(incidence)
        meta['image_geometry'] = ann_trees[0].find('.//projection').text.replace(' ', '_').upper()
        
        return meta
    
    def unpack(self, directory, overwrite=False, exist_ok=False):
        outdir = os.path.join(directory, os.path.basename(self.file))
        self._unpack(outdir, overwrite=overwrite, exist_ok=exist_ok)


class TSX(ID):
    """
    Handler class for TerraSAR-X and TanDEM-X data
    
    Sensors:
        * TSX1
        * TDX1

    References:
        * TX-GS-DD-3302  TerraSAR-X Basic Product Specification Document
        * TX-GS-DD-3303  TerraSAR-X Experimental Product Description
        * TD-GS-PS-3028  TanDEM-X Experimental Product Description
        * TerraSAR-X Image Product Guide (Airbus Defence and Space)
    
    Acquisition modes:
        * ST:    Staring Spotlight
        * HS:    High Resolution SpotLight
        * HS300: High Resolution SpotLight 300 MHz
        * SL:    SpotLight
        * SM:    StripMap
        * SC:    ScanSAR
        * WS:    Wide ScanSAR
    
    Polarisation modes:
        * Single (S): all acquisition modes
        * Dual   (D): High Resolution SpotLight (HS), SpotLight (SL) and StripMap (SM)
        * Twin   (T): StripMap (SM) (experimental)
        * Quad   (Q): StripMap (SM) (experimental)
    
    Products:
        * SSC: Single Look Slant Range Complex
        * MGD: Multi Look Ground Range Detected
        * GEC: Geocoded Ellipsoid Corrected
        * EEC: Enhanced Ellipsoid Corrected
    """
    
    def __init__(self, scene):
        if isinstance(scene, str):
            self.scene = os.path.realpath(scene)
        
            self.pattern = r'^(?P<sat>T[DS]X1)_SAR__' \
                        r'(?P<prod>SSC|MGD|GEC|EEC)_' \
                        r'(?P<var>____|SE__|RE__|MON1|MON2|BTX1|BRX2)_' \
                        r'(?P<mode>SM|SL|HS|HS300|ST|SC)_' \
                        r'(?P<pols>[SDTQ])_' \
                        r'(?:SRA|DRA)_' \
                        r'(?P<start>[0-9]{8}T[0-9]{6})_' \
                        r'(?P<stop>[0-9]{8}T[0-9]{6})(?:\.xml|)$'
            
            self.pattern_ds = r'^IMAGE_(?P<pol>HH|HV|VH|VV)_(?:SRA|FWD|AFT)_(?P<beam>[^\.]+)\.(cos|tif)$'
            self.examine(include_folders=False)
            
            if not re.match(re.compile(self.pattern), os.path.basename(self.file)):
                raise RuntimeError('folder does not match TSX scene naming convention')
            
            self.meta = self.scanMetadata()
            self.meta['projection'] = crsConvert(4326, 'wkt')
            
        super(TSX, self).__init__(self.meta)
    
    def getCorners(self):
        geocs = self.getFileObj(self.findfiles('GEOREF.xml')[0]).getvalue()
        tree = ET.fromstring(geocs)
        pts = tree.findall('.//gridPoint')
        lat = [float(x.find('lat').text) for x in pts]
        lon = [float(x.find('lon').text) for x in pts]
        # shift lon in case of west direction.
        lon = [x-360 if x > 180 else x for x in lon ]
        return {'xmin': min(lon), 'xmax': max(lon), 'ymin': min(lat), 'ymax': max(lat)}
    
    def scanMetadata(self):
        annotation = self.getFileObj(self.file).getvalue()
        namespaces = getNamespaces(annotation)
        tree = ET.fromstring(annotation)
        meta = dict()
        meta['sensor'] = tree.find('.//generalHeader/mission', namespaces).text.replace('-', '')
        meta['product'] = tree.find('.//orderInfo/productVariant', namespaces).text
        meta['orbit'] = tree.find('.//missionInfo/orbitDirection', namespaces).text[0]
        meta['polarizations'] = [x.text for x in
                                 tree.findall('.//acquisitionInfo/polarisationList/polLayer', namespaces)]
        
        meta['orbitNumber_abs'] = int(tree.find('.//missionInfo/absOrbit', namespaces).text)
        meta['orbitNumber_rel'] = int(tree.find('.//missionInfo/relOrbit', namespaces).text)
        meta['cycleNumber'] = int(tree.find('.//missionInfo/orbitCycle', namespaces).text)
        meta['frameNumber'] = int(tree.find('.//inputData/uniqueDataTakeID', namespaces).text)
        
        meta['acquisition_mode'] = tree.find('.//acquisitionInfo/imagingMode', namespaces).text
        meta['start'] = self.parse_date(tree.find('.//sceneInfo/start/timeUTC', namespaces).text)
        meta['stop'] = self.parse_date(tree.find('.//sceneInfo/stop/timeUTC', namespaces).text)
        spacing_row = float(tree.find('.//imageDataInfo/imageRaster/rowSpacing', namespaces).text)
        spacing_col = float(tree.find('.//imageDataInfo/imageRaster/columnSpacing', namespaces).text)
        meta['spacing'] = (spacing_col, spacing_row)
        meta['samples'] = int(tree.find('.//imageDataInfo/imageRaster/numberOfColumns', namespaces).text)
        meta['lines'] = int(tree.find('.//imageDataInfo/imageRaster/numberOfRows', namespaces).text)
        rlks = float(tree.find('.//imageDataInfo/imageRaster/rangeLooks', namespaces).text)
        azlks = float(tree.find('.//imageDataInfo/imageRaster/azimuthLooks', namespaces).text)
        meta['looks'] = (rlks, azlks)
        meta['incidence'] = float(tree.find('.//sceneInfo/sceneCenterCoord/incidenceAngle', namespaces).text)
        return meta
    
    def unpack(self, directory, overwrite=False, exist_ok=False):
        match = self.findfiles(self.pattern, True)
        header = [x for x in match if not x.endswith('xml') and 'iif' not in x][0].replace(self.scene, '').strip('/')
        outdir = os.path.join(directory, os.path.basename(header))
        self._unpack(outdir, offset=header, overwrite=overwrite, exist_ok=exist_ok)


class TDM(TSX):
    """
    Handler class for TerraSAR-X and TanDEM-X experimental data
    
    Sensors:
        * TDM1

    References:
        * TD-GS-PS-3028  TanDEM-X Experimental Product Description
    
    Acquisition modes:
        * HS:    High Resolution SpotLight
        * SL:    SpotLight
        * SM:    StripMap
    
    Polarisation modes:
        * Single (S): all acquisition modes
        * Dual   (D): High Resolution SpotLight (HS), SpotLight (SL) and StripMap (SM)
        * Twin   (T): StripMap (SM) (experimental)
        * Quad   (Q): StripMap (SM) (experimental)
    
    Products:
        * CoSSCs: (bi-static) SAR co-registered single look slant range complex products (CoSSCs)


    Examples
    ----------
    Ingest all Tandem-X Bistatic scenes in a directory and its sub-directories into the database:

    >>> from pyroSAR import Archive, identify
    >>> from spatialist.ancillary import finder
    >>> dbfile = '/.../scenelist.db'
    >>> archive_tdm = '/.../TDM/'
    >>> scenes_tdm = finder(archive_tdm, [r'^TDM1.*'], foldermode=2, regex=True, recursive=True)
    >>> with Archive(dbfile) as archive:
    >>>     archive.insert(scenes_tdm)
    """
    
    def __init__(self, scene):
        self.scene = os.path.realpath(scene)
        
        self.pattern = r'^(?P<sat>T[D]M1)_SAR__' \
                       r'(?P<prod>COS)_' \
                       r'(?P<var>____|MONO|BIST|ALT1|ALT2)_' \
                       r'(?P<mode>SM|SL|HS)_' \
                       r'(?P<pols>[SDQ])_' \
                       r'(?:SRA|DRA)_' \
                       r'(?P<start>[0-9]{8}T[0-9]{6})_' \
                       r'(?P<stop>[0-9]{8}T[0-9]{6})(?:\.xml|)$'
        
        self.pattern_ds = r'^IMAGE_(?P<pol>HH|HV|VH|VV)_(?:SRA|FWD|AFT)_(?P<beam>[^\.]+)\.(cos|tif)$'
        self.examine(include_folders=False)
        
        if not re.match(re.compile(self.pattern), os.path.basename(self.file)):
            raise RuntimeError('folder does not match TDM scene naming convention')
        
        self.meta = self.scanMetadata()
        self.meta['projection'] = crsConvert(4326, 'wkt')
        
        super(TDM, self).__init__(self.meta)
    
    def getCorners(self):
        geocs = self.getFileObj(self.file).getvalue()
        tree = ET.fromstring(geocs)
        pts = tree.findall('.//sceneCornerCoord')
        lat = [float(x.find('lat').text) for x in pts]
        lon = [float(x.find('lon').text) for x in pts]
        # shift lon in case of west direction.
        lon = [x-360 if x > 180 else x for x in lon ]
        return {'xmin': min(lon), 'xmax': max(lon), 'ymin': min(lat), 'ymax': max(lat)}
    
    
    def scanMetadata(self):
        annotation = self.getFileObj(self.file).getvalue()
        namespaces = getNamespaces(annotation)
        tree = ET.fromstring(annotation)
        meta = dict()
        meta['sensor'] = tree.find('.//commonAcquisitionInfo/missionID', namespaces).text.replace('-', '')
        meta['product'] = tree.find('.//productInfo/productType', namespaces).text
        meta['SAT1'] = tree.find('.//commonAcquisitionInfo/satelliteIDsat1', namespaces).text
        meta['SAT2'] = tree.find('.//commonAcquisitionInfo/satelliteIDsat2', namespaces).text
        meta['inSARmasterID'] = tree.find('.//commonAcquisitionInfo/inSARmasterID', namespaces).text
        meta['inSARmaster'] = tree.find('.//commonAcquisitionInfo/satelliteID{}'.format(meta['inSARmasterID'].lower()), namespaces).text.replace('-', '')

        meta['acquisitionItemID'] = int(tree.find('.//commonAcquisitionInfo/operationsInfo/acquisitionItemID', namespaces).text)
        
        meta['effectiveBaseline'] = float(tree.find('.//acquisitionGeometry/effectiveBaseline', namespaces).text)
        meta['heightOfAmbiguity'] = float(tree.find('.//acquisitionGeometry/heightOfAmbiguity', namespaces).text)
        meta['distanceActivePos'] = float(tree.find('.//acquisitionGeometry/distanceActivePos', namespaces).text)
        meta['distanceTracks'] = float(tree.find('.//acquisitionGeometry/distanceTracks', namespaces).text)
    
        meta['cooperativeMode'] = tree.find('.//commonAcquisitionInfo/cooperativeMode', namespaces).text
        
        if meta['cooperativeMode'].lower() == "bistatic":
            meta['bistatic'] = True
        else:
            meta['bistatic'] = False
        

        meta['orbit'] = tree.find('.//acquisitionGeometry/orbitDirection', namespaces).text[0]
        
        

        self.primary_scene = os.path.join(self.scene, tree.findall(".//productComponents/component[@componentClass='imageData']/file/location/name", )[0].text)
        self.secondary_scene = os.path.join(self.scene, tree.findall(".//productComponents/component[@componentClass='imageData']/file/location/name", )[1].text)
        meta["SAT1"] = TSX(self.primary_scene).scanMetadata()
        meta["SAT2"] = TSX(self.secondary_scene).scanMetadata()
        
        
                
        meta['start'] = self.parse_date(tree.find('.//orbitHeader/firstStateTime/firstStateTimeUTC', namespaces).text)
        meta['stop'] = self.parse_date(tree.find('.//orbitHeader/lastStateTime/lastStateTimeUTC', namespaces).text)
        meta['samples'] = int(tree.find('.//coregistration/coregRaster/samples', namespaces).text)
        meta['lines'] = int(tree.find('.//coregistration/coregRaster/lines', namespaces).text)
        rlks = float(tree.find('.//processingInfo/inSARProcessing/looks/range', namespaces).text)
        azlks = float(tree.find('.//processingInfo/inSARProcessing/looks/azimuth', namespaces).text)
        meta['looks'] = (rlks, azlks)
        meta['incidence'] = float(tree.find('.//commonSceneInfo/sceneCenterCoord/incidenceAngle', namespaces).text)
        
        
        meta['orbit'] = meta[meta['inSARmasterID']]['orbit']
        meta['polarizations'] = meta[meta['inSARmasterID']]['polarizations']
        
        meta['orbitNumber_abs'] = meta[meta['inSARmasterID']]['orbitNumber_abs']
        meta['orbitNumber_rel'] = meta[meta['inSARmasterID']]['orbitNumber_rel']
        meta['cycleNumber'] = meta[meta['inSARmasterID']]['cycleNumber']
        meta['frameNumber'] = meta[meta['inSARmasterID']]['frameNumber'] 
        
        meta['acquisition_mode'] = meta[meta['inSARmasterID']]['acquisition_mode']
        meta['start'] = meta[meta['inSARmasterID']]['start']
        meta['stop'] = meta[meta['inSARmasterID']]['stop']
        meta['spacing'] = meta[meta['inSARmasterID']]['spacing']
        meta['samples'] = meta[meta['inSARmasterID']]['samples']
        meta['lines'] = meta[meta['inSARmasterID']]['lines']
        meta['looks'] = meta[meta['inSARmasterID']]['looks'] 
        meta['incidence'] = meta[meta['inSARmasterID']]['incidence']
        
        return meta
    
    
class Archive(object):
    """
    Utility for storing SAR image metadata in a database

    Parameters
    ----------
    dbfile: str
        the filename for the SpatiaLite database. This might either point to an existing database or will be created otherwise.
        If postgres is set to True, this will be the name for the PostgreSQL database.
    custom_fields: dict
        a dictionary containing additional non-standard database column names and data types;
        the names must be attributes of the SAR scenes to be inserted (i.e. id.attr) or keys in their meta attribute
        (i.e. id.meta['attr'])
    postgres: bool
        enable postgres driver for the database. Default: False
    user: str
        required for postgres driver: username to access the database. Default: 'postgres'
    password: str
        required for postgres driver: password to access the database. Default: '1234'
    host: str
        required for postgres driver: host where the database is hosted. Default: 'localhost'
    port: int
        required for postgres driver: port number to the database. Default: 5432
    cleanup: bool
        check whether all registered scenes exist and remove missing entries?


    Examples
    ----------
    Ingest all Sentinel-1 scenes in a directory and its sub-directories into the database:

    >>> from pyroSAR import Archive, identify
    >>> from spatialist.ancillary import finder
    >>> dbfile = '/.../scenelist.db'
    >>> archive_s1 = '/.../sentinel1/GRD'
    >>> scenes_s1 = finder(archive_s1, [r'^S1[AB].*\.zip'], regex=True, recursive=True)
    >>> with Archive(dbfile) as archive:
    >>>     archive.insert(scenes_s1)

    select all Sentinel-1 A/B scenes stored in the database, which
    
     * overlap with a test site
     * were acquired in Ground-Range-Detected (GRD) Interferometric Wide Swath (IW) mode before 2018
     * contain a VV polarization image
     * have not been processed to directory `outdir` before

    >>> from pyroSAR import Archive
    >>> from spatialist import Vector
    >>> archive = Archive('/.../scenelist.db')
    >>> site = Vector('/path/to/site.shp')
    >>> outdir = '/path/to/processed/results'
    >>> maxdate = '20171231T235959'
    >>> selection_proc = archive.select(vectorobject=site, processdir=outdir,
    >>>                                 maxdate=maxdate, sensor=('S1A', 'S1B'),
    >>>                                 product='GRD', acquisition_mode='IW', vv=1)
    >>> archive.close()

    Alternatively, the `with` statement can be used.
    In this case to just check whether one particular scene is already registered in the database:

    >>> from pyroSAR import identify, Archive
    >>> scene = identify('S1A_IW_SLC__1SDV_20150330T170734_20150330T170801_005264_006A6C_DA69.zip')
    >>> with Archive('/.../scenelist.db') as archive:
    >>>     print(archive.is_registered(scene.scene))

    When providing 'postgres' as driver, a PostgreSQL database will be created at a given host.
    Additional arguments are required.

    >>> from pyroSAR import Archive, identify
    >>> from spatialist.ancillary import finder
    >>> dbfile = 'scenelist_db'
    >>> archive_s1 = '/.../sentinel1/GRD'
    >>> scenes_s1 = finder(archive_s1, [r'^S1[AB].*\.zip'], regex=True, recursive=True)
    >>> with Archive(dbfile, driver='postgres', user='user', password='password', host='host', port=5432) as archive:
    >>>     archive.insert(scenes_s1)
    """
    
    def __init__(self, dbfile, custom_fields=None, postgres=False, user='postgres',
                 password='1234', host='localhost', port=5432, cleanup=True):
        # check for driver, if postgres then check if server is reachable
        if not postgres:
            self.driver = 'sqlite'
            # catch if .db extension is missing
            root, ext = os.path.splitext(dbfile)
            if len(ext) == 0:
                dbfile = root + '.db'
        else:
            self.driver = 'postgresql'
            if not self.__check_host(host, port):
                sys.exit('Server not found!')
        
        # create dict, with which a URL to the db is created
        if self.driver == 'sqlite':
            self.url_dict = {'drivername': self.driver,
                             'database': dbfile,
                             'query': {'charset': 'utf8'}}
        if self.driver == 'postgresql':
            self.url_dict = {'drivername': self.driver,
                             'username': user,
                             'password': password,
                             'host': host,
                             'port': port,
                             'database': dbfile}
        
        # create engine, containing URL and driver
        log.debug('starting DB engine for {}'.format(URL.create(**self.url_dict)))
        self.url = URL.create(**self.url_dict)
        self.engine = create_engine(self.url, echo=False)
        
        # call to ____load_spatialite() for sqlite, to load mod_spatialite via event handler listen()
        if self.driver == 'sqlite':
            log.debug('loading spatialite extension')
            listen(target=self.engine, identifier='connect', fn=self.__load_spatialite)
            # check if loading was successful
            try:
                conn = self.engine.connect()
                version = conn.execute('SELECT spatialite_version();')
                conn.close()
            except exc.OperationalError:
                raise RuntimeError('could not load spatialite extension')
        
        # if database is new, (create postgres-db and) enable spatial extension
        if not database_exists(self.engine.url):
            if self.driver == 'postgresql':
                log.debug('creating new PostgreSQL database')
                create_database(self.engine.url)
            log.debug('enabling spatial extension for new database')
            self.conn = self.engine.connect()
            if self.driver == 'sqlite':
                self.conn.execute(select([func.InitSpatialMetaData(1)]))
            elif self.driver == 'postgresql':
                self.conn.execute('CREATE EXTENSION postgis;')
        else:
            self.conn = self.engine.connect()
        # create Session (ORM) and get metadata
        self.Session = sessionmaker(bind=self.engine)
        self.meta = MetaData(self.engine)
        self.custom_fields = custom_fields
        
        # create tables as schema
        self.data_schema = Table('data', self.meta,
                                 Column('sensor', String),
                                 Column('orbit', String),
                                 Column('orbitNumber_abs', Integer),
                                 Column('orbitNumber_rel', Integer),
                                 Column('cycleNumber', Integer),
                                 Column('frameNumber', Integer),
                                 Column('acquisition_mode', String),
                                 Column('start', String),
                                 Column('stop', String),
                                 Column('product', String),
                                 Column('samples', Integer),
                                 Column('lines', Integer),
                                 Column('outname_base', String, primary_key=True),
                                 Column('scene', String),
                                 Column('hh', Integer),
                                 Column('vv', Integer),
                                 Column('hv', Integer),
                                 Column('vh', Integer),
                                 Column('bbox', Geometry(geometry_type='POLYGON', management=True, srid=4326)))
        
        # add custom fields
        if self.custom_fields is not None:
            for key, val in self.custom_fields.items():
                if val in ['Integer', 'integer', 'int']:
                    self.data_schema.append_column(Column(key, Integer))
                elif val in ['String', 'string', 'str']:
                    self.data_schema.append_column(Column(key, String))
                else:
                    log.info('Value in dict custom_fields must be "integer" or "string"!')
        
        # schema for duplicates
        self.duplicates_schema = Table('duplicates', self.meta,
                                       Column('outname_base', String, primary_key=True),
                                       Column('scene', String, primary_key=True))
        
        # create tables if not existing
        if not sql_inspect(self.engine).has_table('data'):
            log.debug("creating DB table 'data'")
            self.data_schema.create(self.engine)
        if not sql_inspect(self.engine).has_table('duplicates'):
            log.debug("creating DB table 'duplicates'")
            self.duplicates_schema.create(self.engine)
        
        # reflect tables from (by now) existing db, make some variables available within self
        self.Base = automap_base(metadata=self.meta)
        self.Base.prepare(self.engine, reflect=True)
        self.Data = self.Base.classes.data
        self.Duplicates = self.Base.classes.duplicates
        self.dbfile = dbfile
        
        if cleanup:
            log.info('checking for missing scenes')
            self.cleanup()
            sys.stdout.flush()
    
    def add_tables(self, tables):
        """
        Add tables to the database per :class:`sqlalchemy.schema.Table`
        Tables provided here will be added to the database.
        
        .. note::
        
            Columns using Geometry must have setting management=True for SQLite,
            for example: ``bbox = Column(Geometry('POLYGON', management=True, srid=4326))``
        
        Parameters
        ----------
        tables: :class:`sqlalchemy.schema.Table` or :obj:`list` of :class:`sqlalchemy.schema.Table`
            The table(s) to be added to the database.
        """
        created = []
        if isinstance(tables, list):
            for table in tables:
                table.metadata = self.meta
                if not sql_inspect(self.engine).has_table(str(table)):
                    table.create(self.engine)
                    created.append(str(table))
        else:
            table = tables
            table.metadata = self.meta
            if not sql_inspect(self.engine).has_table(str(table)):
                table.create(self.engine)
                created.append(str(table))
        log.info('created table(s) {}.'.format(', '.join(created)))
        self.Base = automap_base(metadata=self.meta)
        self.Base.prepare(self.engine, reflect=True)
    
    @staticmethod
    def __load_spatialite(dbapi_conn, connection_record):
        """
        loads the spatialite extension for SQLite, not to be used outside the init()
        
        Parameters
        ----------
        dbapi_conn:
            db engine
        connection_record:
            not sure what it does but it is needed by :func:`sqlalchemy.event.listen`
        """
        dbapi_conn.enable_load_extension(True)
        # check which platform and use according mod_spatialite
        if platform.system() == 'Linux':
            for option in ['mod_spatialite', 'mod_spatialite.so']:
                try:
                    dbapi_conn.load_extension(option)
                except sqlite3.OperationalError:
                    continue
        elif platform.system() == 'Darwin':
            for option in ['mod_spatialite.so', 'mod_spatialite.7.dylib']:  # , 'mod_spatialite.dylib']:
                try:
                    dbapi_conn.load_extension(option)
                except sqlite3.OperationalError:
                    continue
        else:
            dbapi_conn.load_extension('mod_spatialite')
    
    def __prepare_insertion(self, scene):
        """
        read scene metadata and parse a string for inserting it into the database

        Parameters
        ----------
        scene: str or ID
            a SAR scene

        Returns
        -------
        object of class Data, insert string
        """
        id = scene if isinstance(scene, ID) else identify(scene)
        pols = [x.lower() for x in id.polarizations]
        # insertion as an object of Class Data (reflected in the init())
        insertion = self.Data()
        colnames = self.get_colnames()
        for attribute in colnames:
            if attribute == 'bbox':
                geom = id.bbox()
                geom.reproject(4326)
                geom = geom.convert2wkt(set3D=False)[0]
                geom = 'SRID=4326;' + str(geom)
                # set attributes of the Data object according to input
                setattr(insertion, 'bbox', geom)
            elif attribute in ['hh', 'vv', 'hv', 'vh']:
                setattr(insertion, attribute, int(attribute in pols))
            else:
                if hasattr(id, attribute):
                    attr = getattr(id, attribute)
                elif attribute in id.meta.keys():
                    attr = id.meta[attribute]
                else:
                    raise AttributeError('could not find attribute {}'.format(attribute))
                value = attr() if inspect.ismethod(attr) else attr
                setattr(insertion, str(attribute), value)
        
        return insertion  # return the Data object
    
    def __select_missing(self, table):
        """

        Returns
        -------
        list
            the names of all scenes, which are no longer stored in their registered location
        """
        if table == 'data':
            # using ORM query to get all scenes locations
            scenes = self.Session().query(self.Data.scene)
        elif table == 'duplicates':
            scenes = self.Session().query(self.Duplicates.scene)
        else:
            raise ValueError("parameter 'table' must either be 'data' or 'duplicates'")
        files = [self.encode(x[0]) for x in scenes]
        return [x for x in files if not os.path.isfile(x)]
    
    def insert(self, scene_in, pbar=False, test=False):
        """
        Insert one or many scenes into the database

        Parameters
        ----------
        scene_in: str or ID or list
            a SAR scene or a list of scenes to be inserted
        pbar: bool
            show a progress bar?
        test: bool
            should the insertion only be tested or directly be committed to the database?
        """
        length = len(scene_in) if isinstance(scene_in, list) else 1
        
        if isinstance(scene_in, (ID, str)):
            scene_in = [scene_in]
        if not isinstance(scene_in, list):
            raise RuntimeError('scene_in must either be a string pointing to a file, a pyroSAR.ID object '
                               'or a list containing several of either')
        
        log.info('filtering scenes by name')
        scenes = self.filter_scenelist(scene_in)
        if len(scenes) == 0:
            log.info('...nothing to be done')
            return
        log.info('identifying scenes and extracting metadata')
        scenes = identify_many(scenes, pbar=pbar)
        
        if len(scenes) == 0:
            log.info('all scenes are already registered')
            return
        
        counter_regulars = 0
        counter_duplicates = 0
        list_duplicates = []
        
        message = 'inserting {0} scene{1} into database'
        log.info(message.format(len(scenes), '' if len(scenes) == 1 else 's'))
        log.debug('testing changes in temporary database')
        if pbar:
            progress = pb.ProgressBar(max_value=len(scenes))
        else:
            progress = None
        basenames = []
        insertions = []
        session = self.Session()
        for i, id in enumerate(scenes):
            basename = id.outname_base()
            if not self.is_registered(id) and basename not in basenames:
                insertion = self.__prepare_insertion(id)
                insertions.append(insertion)
                counter_regulars += 1
                log.debug('regular:   {}'.format(id.scene))
            elif not self.__is_registered_in_duplicates(id):
                insertion = self.Duplicates(outname_base=basename, scene=id.scene)
                insertions.append(insertion)
                counter_duplicates += 1
                log.debug('duplicate: {}'.format(id.scene))
            else:
                list_duplicates.append(id.outname_base())
            
            if progress is not None:
                progress.update(i + 1)
            basenames.append(basename)
        
        if progress is not None:
            progress.finish()
        
        session.add_all(insertions)
        
        if not test:
            log.debug('committing transactions to permanent database')
            # commit changes of the session
            session.commit()
        else:
            log.info('rolling back temporary database changes')
            # roll back changes of the session
            session.rollback()
        
        message = '{0} scene{1} registered regularly'
        log.info(message.format(counter_regulars, '' if counter_regulars == 1 else 's'))
        message = '{0} duplicate{1} registered'
        log.info(message.format(counter_duplicates, '' if counter_duplicates == 1 else 's'))
    
    def is_registered(self, scene):
        """
        Simple check if a scene is already registered in the database.

        Parameters
        ----------
        scene: str or ID
            the SAR scene

        Returns
        -------
        bool
            is the scene already registered?
        """
        id = scene if isinstance(scene, ID) else identify(scene)
        # ORM query, where scene equals id.scene, return first
        exists_data = self.Session().query(self.Data.outname_base).filter(
            self.Data.outname_base == id.outname_base()).first()
        exists_duplicates = self.Session().query(self.Duplicates.outname_base).filter(
            self.Duplicates.outname_base == id.outname_base()).first()
        in_data = False
        in_dup = False
        if exists_data:
            in_data = len(exists_data) != 0
        if exists_duplicates:
            in_dup = len(exists_duplicates) != 0
        return in_data or in_dup
    
    def __is_registered_in_duplicates(self, scene):
        """
        Simple check if a scene is already registered in the database.

        Parameters
        ----------
        scene: str or ID
            the SAR scene

        Returns
        -------
        bool
            is the scene already registered?
        """
        id = scene if isinstance(scene, ID) else identify(scene)
        # ORM query as in is registered
        exists_duplicates = self.Session().query(self.Duplicates.outname_base).filter(
            self.Duplicates.outname_base == id.outname_base()).first()
        in_dup = False
        if exists_duplicates:
            in_dup = len(exists_duplicates) != 0
        return in_dup
    
    def cleanup(self):
        """
        Remove all scenes from the database, which are no longer stored in their registered location

        Returns
        -------

        """
        missing = self.__select_missing('data')
        for scene in missing:
            log.info('Removing missing scene from database tables: {}'.format(scene))
            self.drop_element(scene, with_duplicates=True)
    
    @staticmethod
    def encode(string, encoding='utf-8'):
        if not isinstance(string, str):
            return string.encode(encoding)
        else:
            return string
    
    def export2shp(self, path, table='data'):
        """
        export the database to a shapefile

        Parameters
        ----------
        path: str
            the path of the shapefile to be written.
            This will overwrite other files with the same name.
            If a folder is given in path it is created if not existing.
            If the file extension is missing '.shp' is added.
        table: str
            the table to write to the shapefile; either 'data' (default) or 'duplicates'
        
        Returns
        -------
        """
        if table not in ['data', 'duplicates']:
            log.warning('Only data and duplicates can be exported!')
            return
        
        # add the .shp extension if missing
        if not path.endswith('.shp'):
            path += '.shp'
        
        # creates folder if not present, adds .shp if not within the path
        dirname = os.path.dirname(path)
        os.makedirs(dirname, exist_ok=True)
        
        # uses spatialist.ogr2ogr to write shps with given path (or db connection)
        if self.driver == 'sqlite':
            # ogr2ogr(self.dbfile, path, options={'format': 'ESRI Shapefile'})
            subprocess.call(['ogr2ogr', '-f', 'ESRI Shapefile', path,
                             self.dbfile, table])
        
        if self.driver == 'postgresql':
            db_connection = """PG:host={0} port={1} user={2}
                dbname={3} password={4} active_schema=public""".format(self.url_dict['host'],
                                                                       self.url_dict['port'],
                                                                       self.url_dict['username'],
                                                                       self.url_dict['database'],
                                                                       self.url_dict['password'])
            # ogr2ogr(db_connection, path, options={'format': 'ESRI Shapefile'})
            subprocess.call(['ogr2ogr', '-f', 'ESRI Shapefile', path,
                             db_connection, table])
    
    def filter_scenelist(self, scenelist):
        """
        Filter a list of scenes by file names already registered in the database.

        Parameters
        ----------
        scenelist: :obj:`list` of :obj:`str` or :obj:`pyroSAR.drivers.ID`
            the scenes to be filtered

        Returns
        -------
        list
            the file names of the scenes whose basename is not yet registered in the database

        """
        for item in scenelist:
            if not isinstance(item, (ID, str)):
                raise TypeError("items in scenelist must be of type 'str' or 'pyroSAR.ID'")
        
        # ORM query, get all scenes locations
        scenes_data = self.Session().query(self.Data.scene)
        registered = [os.path.basename(self.encode(x[0])) for x in scenes_data]
        scenes_duplicates = self.Session().query(self.Duplicates.scene)
        duplicates = [os.path.basename(self.encode(x[0])) for x in scenes_duplicates]
        names = [item.scene if isinstance(item, ID) else item for item in scenelist]
        filtered = [x for x, y in zip(scenelist, names) if os.path.basename(y) not in registered + duplicates]
        return filtered
    
    def get_colnames(self, table='data'):
        """
        Return the names of all columns of a table.

        Returns
        -------
        list
            the column names of the chosen table
        """
        # get all columns of one table, but shows geometry columns not correctly
        table_info = Table(table, self.meta, autoload=True, autoload_with=self.engine)
        col_names = table_info.c.keys()
        
        return sorted([self.encode(x) for x in col_names])
    
    def get_tablenames(self, return_all=False):
        """
        Return the names of all tables in the database
        
        Parameters
        ----------
        return_all: bool
            only gives tables data and duplicates on default.
            Set to True to get all other tables and views created automatically.

        Returns
        -------
        list
            the table names
        """
        #  TODO: make this dynamic
        #  the method was intended to only return user generated tables by default, as well as data and duplicates
        all_tables = ['ElementaryGeometries', 'SpatialIndex', 'geometry_columns', 'geometry_columns_auth',
                      'geometry_columns_field_infos', 'geometry_columns_statistics', 'geometry_columns_time',
                      'spatial_ref_sys', 'spatial_ref_sys_aux', 'spatialite_history', 'sql_statements_log',
                      'sqlite_sequence', 'views_geometry_columns', 'views_geometry_columns_auth',
                      'views_geometry_columns_field_infos', 'views_geometry_columns_statistics',
                      'virts_geometry_columns', 'virts_geometry_columns_auth', 'virts_geometry_columns_field_infos',
                      'virts_geometry_columns_statistics', 'data_licenses', 'KNN']
        # get tablenames from metadata
        tables = sorted([self.encode(x) for x in self.meta.tables.keys()])
        if return_all:
            return tables
        else:
            ret = []
            for i in tables:
                if i not in all_tables and 'idx_' not in i:
                    ret.append(i)
            return ret
    
    def get_unique_directories(self):
        """
        Get a list of directories containing registered scenes

        Returns
        -------
        list
            the directory names
        """
        # ORM query, get all directories
        scenes = self.Session().query(self.Data.scene)
        registered = [os.path.dirname(self.encode(x[0])) for x in scenes]
        return list(set(registered))
    
    def import_outdated(self, dbfile):
        """
        import an older data base in csv format

        Parameters
        ----------
        dbfile: str
            the file name of the old data base

        Returns
        -------

        """
        with open(dbfile) as csvfile:
            text = csvfile.read()
            csvfile.seek(0)
            dialect = csv.Sniffer().sniff(text)
            reader = csv.DictReader(csvfile, dialect=dialect)
            scenes = []
            for row in reader:
                scenes.append(row['scene'])
            self.insert(scenes)
    
    def move(self, scenelist, directory, pbar=False):
        """
        Move a list of files while keeping the database entries up to date.
        If a scene is registered in the database (in either the data or duplicates table),
        the scene entry is directly changed to the new location.

        Parameters
        ----------
        scenelist: list
            the file locations
        directory: str
            a folder to which the files are moved
        pbar: bool
            show a progress bar?

        Returns
        -------
        """
        if not os.path.isdir(directory):
            os.mkdir(directory)
        if not os.access(directory, os.W_OK):
            raise RuntimeError('directory cannot be written to')
        failed = []
        double = []
        if pbar:
            progress = pb.ProgressBar(max_value=len(scenelist)).start()
        else:
            progress = None
        
        for i, scene in enumerate(scenelist):
            new = os.path.join(directory, os.path.basename(scene))
            if os.path.isfile(new):
                double.append(new)
                continue
            try:
                shutil.move(scene, directory)
            except shutil.Error:
                failed.append(scene)
                continue
            finally:
                if progress is not None:
                    progress.update(i + 1)
            if self.select(scene=scene) != 0:
                table = 'data'
            else:
                # using core connection to execute SQL syntax (as was before)
                query_duplicates = self.conn.execute(
                    '''SELECT scene FROM duplicates WHERE scene='{0}' '''.format(scene))
                if len(query_duplicates) != 0:
                    table = 'duplicates'
                else:
                    table = None
            if table:
                # using core connection to execute SQL syntax (as was before)
                self.conn.execute('''UPDATE {0} SET scene= '{1}' WHERE scene='{2}' '''.format(table, new, scene))
        if progress is not None:
            progress.finish()
        
        if len(failed) > 0:
            log.info('The following scenes could not be moved:\n{}'.format('\n'.join(failed)))
        if len(double) > 0:
            log.info('The following scenes already exist at the target location:\n{}'.format('\n'.join(double)))
    
    def select(self, vectorobject=None, mindate=None, maxdate=None, processdir=None,
               recursive=False, polarizations=None, **args):
        """
        select scenes from the database

        Parameters
        ----------
        vectorobject: :class:`~spatialist.vector.Vector`
            a geometry with which the scenes need to overlap
        mindate: str or datetime.datetime, optional
            the minimum acquisition date; strings must be in format YYYYmmddTHHMMSS; default: None
        maxdate: str or datetime.datetime, optional
            the maximum acquisition date; strings must be in format YYYYmmddTHHMMSS; default: None
        processdir: str, optional
            A directory to be scanned for already processed scenes;
            the selected scenes will be filtered to those that have not yet been processed. Default: None
        recursive: bool
            (only if `processdir` is not None) should also the subdirectories of the `processdir` be scanned?
        polarizations: list
            a list of polarization strings, e.g. ['HH', 'VV']
        **args:
            any further arguments (columns), which are registered in the database. See :meth:`~Archive.get_colnames()`

        Returns
        -------
        list[str]
            the file names pointing to the selected scenes

        """
        arg_valid = [x for x in args.keys() if x in self.get_colnames()]
        arg_invalid = [x for x in args.keys() if x not in self.get_colnames()]
        if len(arg_invalid) > 0:
            log.info('the following arguments will be ignored as they are not registered in the data base: {}'.format(
                ', '.join(arg_invalid)))
        arg_format = []
        vals = []
        for key in arg_valid:
            if key == 'scene':
                arg_format.append('''scene LIKE '%%{0}%%' '''.format(os.path.basename(args[key])))
            else:
                if isinstance(args[key], (float, int, str)):
                    arg_format.append('''{0}='{1}' '''.format(key, args[key]))
                elif isinstance(args[key], (tuple, list)):
                    arg_format.append('''{0} IN ('{1}')'''.format(key, "', '".join(map(str, args[key]))))
        if mindate:
            if isinstance(mindate, datetime):
                mindate = mindate.strftime('%Y%m%dT%H%M%S')
            if re.search('[0-9]{8}T[0-9]{6}', mindate):
                arg_format.append('start>=?')
                vals.append(mindate)
            else:
                log.info('WARNING: argument mindate is ignored, must be in format YYYYmmddTHHMMSS')
        if maxdate:
            if isinstance(maxdate, datetime):
                maxdate = maxdate.strftime('%Y%m%dT%H%M%S')
            if re.search('[0-9]{8}T[0-9]{6}', maxdate):
                arg_format.append('stop<=?')
                vals.append(maxdate)
            else:
                log.info('WARNING: argument maxdate is ignored, must be in format YYYYmmddTHHMMSS')
        
        if polarizations:
            for pol in polarizations:
                if pol in ['HH', 'VV', 'HV', 'VH']:
                    arg_format.append('{}=1'.format(pol.lower()))
        
        if vectorobject:
            if isinstance(vectorobject, Vector):
                vectorobject.reproject(4326)
                site_geom = vectorobject.convert2wkt(set3D=False)[0]
                # postgres has a different way to store geometries
                if self.driver == 'postgresql':
                    arg_format.append("st_intersects(bbox, 'SRID=4326; {}')".format(
                        site_geom
                    ))
                else:
                    arg_format.append('st_intersects(GeomFromText(?, 4326), bbox) = 1')
                    vals.append(site_geom)
            else:
                log.info('WARNING: argument vectorobject is ignored, must be of type spatialist.vector.Vector')
        
        query = '''SELECT scene, outname_base FROM data WHERE {}'''.format(' AND '.join(arg_format))
        # the query gets assembled stepwise here
        for val in vals:
            query = query.replace('?', ''' '{0}' ''', 1).format(val)
        log.debug(query)
        
        # core SQL execution
        query_rs = self.conn.execute(query)
        
        if processdir and os.path.isdir(processdir):
            scenes = [x for x in query_rs
                      if len(finder(processdir, [x[1]], regex=True, recursive=recursive)) == 0]
        else:
            scenes = query_rs
        ret = []
        for x in scenes:
            ret.append(self.encode(x[0]))
        
        return ret
    
    def select_duplicates(self, outname_base=None, scene=None, value='id'):
        """
        Select scenes from the duplicates table. In case both `outname_base` and `scene` are set to None all scenes in
        the table are returned, otherwise only those that match the attributes `outname_base` and `scene` if they are not None.

        Parameters
        ----------
        outname_base: str
            the basename of the scene
        scene: str
            the scene name
        value: str
            the return value; either 'id' or 'scene'

        Returns
        -------
        list
            the selected scene(s)
        """
        if value == 'id':
            key = 0
        elif value == 'scene':
            key = 1
        else:
            raise ValueError("argument 'value' must be either 0 or 1")
        
        if not outname_base and not scene:
            # core SQL execution
            scenes = self.conn.execute('SELECT * from duplicates')
        else:
            cond = []
            arg = []
            if outname_base:
                cond.append('outname_base=?')
                arg.append(outname_base)
            if scene:
                cond.append('scene=?')
                arg.append(scene)
            query = 'SELECT * from duplicates WHERE {}'.format(' AND '.join(cond))
            for a in arg:
                query = query.replace('?', ''' '{0}' ''', 1).format(a)
            # core SQL execution
            scenes = self.conn.execute(query)
        
        ret = []
        for x in scenes:
            ret.append(self.encode(x[key]))
        
        return ret
    
    @property
    def size(self):
        """
        get the number of scenes registered in the database

        Returns
        -------
        tuple
            the number of scenes in (1) the main table and (2) the duplicates table
        """
        # ORM query
        session = self.Session()
        r1 = session.query(self.Data.outname_base).count()
        r2 = session.query(self.Duplicates.outname_base).count()
        session.close()
        return r1, r2
    
    def __enter__(self):
        return self
    
    def close(self):
        """
        close the database connection
        """
        self.Session().close()
        self.conn.close()
        self.engine.dispose()
        gc.collect(generation=2)  # this was added as a fix for win PermissionError when deleting sqlite.db files.
    
    def __exit__(self, exc_type, exc_val, exc_tb):
        self.close()
    
    def drop_element(self, scene, with_duplicates=False):
        """
        Drop a scene from the data table.
        If duplicates table contains matching entry, it will be moved to the data table.

        Parameters
        ----------
        scene: ID
            a SAR scene
        with_duplicates: bool
            True: delete matching entry in duplicates table
            False: move matching entry from duplicates into data table

        Returns
        -------
        """
        # save outname_base from to be deleted entry
        search = self.data_schema.select().where(self.data_schema.c.scene == scene)
        entry_data_outname_base = []
        for rowproxy in self.conn.execute(search):
            entry_data_outname_base.append((rowproxy[12]))
        # log.info(entry_data_outname_base)
        
        # delete entry in data table
        delete_statement = self.data_schema.delete().where(self.data_schema.c.scene == scene)
        self.conn.execute(delete_statement)
        
        return_sentence = 'Entry with scene-id: \n{} \nwas dropped from data'.format(scene)
        
        # with_duplicates == True, delete entry from duplicates
        if with_duplicates:
            delete_statement_dup = self.duplicates_schema.delete().where(
                self.duplicates_schema.c.outname_base == entry_data_outname_base[0])
            self.conn.execute(delete_statement_dup)
            
            log.info(return_sentence + ' and duplicates!'.format(scene))
            return
        
        # else select scene info matching outname_base from duplicates
        select_in_duplicates_statement = self.duplicates_schema.select().where(
            self.duplicates_schema.c.outname_base == entry_data_outname_base[0])
        entry_duplicates_scene = []
        for rowproxy in self.conn.execute(select_in_duplicates_statement):
            entry_duplicates_scene.append((rowproxy[1]))
        
        # check if there is a duplicate
        if len(entry_duplicates_scene) == 1:
            # remove entry from duplicates
            delete_statement_dup = self.duplicates_schema.delete().where(
                self.duplicates_schema.c.outname_base == entry_data_outname_base[0])
            self.conn.execute(delete_statement_dup)
            
            # insert scene from duplicates into data
            self.insert(entry_duplicates_scene[0])
            
            return_sentence += ' and entry with outname_base \n{} \nand scene \n{} \n' \
                               'was moved from duplicates into data table'.format(
                entry_data_outname_base[0], entry_duplicates_scene[0])
        
        log.info(return_sentence + '!')
    
    def drop_table(self, table):
        """
        Drop a table from the database.

        Parameters
        ----------
        table: str
            tablename

        Returns
        -------
        """
        if table in self.get_tablenames(return_all=True):
            # this removes the idx tables and entries in geometry_columns for sqlite databases
            if self.driver == 'sqlite':
                tab_with_geom = [rowproxy[0] for rowproxy
                                 in self.conn.execute("SELECT f_table_name FROM geometry_columns")]
                if table in tab_with_geom:
                    self.conn.execute("SELECT DropGeoTable('" + table + "')")
            else:
                table_info = Table(table, self.meta, autoload=True, autoload_with=self.engine)
                table_info.drop(self.engine)
            log.info('table {} dropped from database.'.format(table))
        else:
            raise ValueError("table {} is not registered in the database!".format(table))
        self.Base = automap_base(metadata=self.meta)
        self.Base.prepare(self.engine, reflect=True)
    
    @staticmethod
    def __is_open(ip, port):
        """
        Checks server connection, from Ben Curtis (github: Fmstrat)

        Parameters
        ----------
        ip: str
            ip of the server
        port: str
            port of the server

        Returns
        -------
        bool:
            is the server reachable?
            
        """
        s = socket.socket(socket.AF_INET, socket.SOCK_STREAM)
        s.settimeout(3)
        try:
            s.connect((ip, int(port)))
            s.shutdown(socket.SHUT_RDWR)
            return True
        except:
            return False
        finally:
            s.close()
    
    def __check_host(self, ip, port):
        """
        Calls __is_open() on ip and port, from Ben Curtis (github: Fmstrat)

        Parameters
        ----------
        ip: str
            ip of the server
        port: str or int
            port of the server

        Returns
        -------
        bool:
            is the server reachable?
        """
        ipup = False
        for i in range(2):
            if self.__is_open(ip, port):
                ipup = True
                break
            else:
                time.sleep(5)
        return ipup


def drop_archive(archive):
    """
    drop (delete) a scene database
    
    Parameters
    ----------
    archive: pyroSAR.drivers.Archive
        the database to be deleted

    Returns
    -------
    
    See Also
    --------
    :func:`sqlalchemy_utils.functions.drop_database()`
    
    Examples
    --------
    >>> pguser = os.environ.get('PGUSER')
    >>> pgpassword = os.environ.get('PGPASSWORD')
    
    >>> db = Archive('test', postgres=True, port=5432, user=pguser, password=pgpassword)
    >>> drop_archive(db)
    """
    if archive.driver == 'postgresql':
        url = archive.url
        archive.close()
        drop_database(url)
    else:
        raise RuntimeError('this function only works for PostgreSQL databases.'
                           'For SQLite databases it is recommended to just delete the DB file.')


def getFileObj(scene, filename):
    """
    Load a file in a SAR scene archive into a readable file object.

    Parameters
    ----------
    scene: str
        the scene archive. Can be either a directory or a compressed archive of type `zip` or `tar.gz`.
    filename: str
        the name of a file in the scene archive, easiest to get with method :meth:`~ID.findfiles`

    Returns
    -------
    ~io.BytesIO
        a file object
    """
    membername = filename.replace(scene, '').strip(r'\/')
    
    if not os.path.exists(scene):
        raise RuntimeError('scene does not exist')
    
    if os.path.isdir(scene):
        obj = BytesIO()
        with open(filename, 'rb') as infile:
            obj.write(infile.read())
        obj.seek(0)
    
    elif zf.is_zipfile(scene):
        obj = BytesIO()
        with zf.ZipFile(scene, 'r') as zip:
            obj.write(zip.open(membername).read())
        obj.seek(0)
    
    elif tf.is_tarfile(scene):
        obj = BytesIO()
        tar = tf.open(scene, 'r:gz')
        obj.write(tar.extractfile(membername).read())
        tar.close()
        obj.seek(0)
    else:
        raise RuntimeError('input must be either a file name or a location in an zip or tar archive')
    return obj


def parse_date(x):
    """
    this function gathers known time formats provided in the different SAR products and converts them to a common
    standard of the form YYYYMMDDTHHMMSS

    Parameters
    ----------
    x: str or ~datetime.datetime
        the time stamp to be converted

    Returns
    -------
    str
        the converted time stamp in format YYYYmmddTHHMMSS
    """
    if isinstance(x, datetime):
        return x.strftime('%Y%m%dT%H%M%S')
    elif isinstance(x, str):
        for timeformat in ['%d-%b-%Y %H:%M:%S.%f',
                           '%Y%m%d%H%M%S%f',
                           '%Y-%m-%dT%H:%M:%S.%f',
                           '%Y-%m-%dT%H:%M:%S.%fZ',
                           '%Y%m%d %H:%M:%S.%f']:
            try:
                return strftime('%Y%m%dT%H%M%S', strptime(x, timeformat))
            except (TypeError, ValueError):
                continue
        raise ValueError('unknown time format; check function parse_date')
    else:
        raise ValueError('input must be either a string or a datetime object')

johntruckenbrodt / pyroSAR / 839

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