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# coding: utf-8
#
# Project: X-ray image reader
# https://github.com/silx-kit/fabio
#
#
# Copyright (C) European Synchrotron Radiation Facility, Grenoble, France
#
# Principal author: Jérôme Kieffer (Jerome.Kieffer@ESRF.eu)
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
# copies of the Software, and to permit persons to whom the Software is
# furnished to do so, subject to the following conditions:
#
# The above copyright notice and this permission notice shall be included in
# all copies or substantial portions of the Software.
#
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
# THE SOFTWARE
__authors__ = ["V. Valls"]
__license__ = "MIT"
__date__ = "03/04/2020"
import re
import logging
from . import tifimage
_logger = logging.getLogger(__name__)
class PilatusTiffFrame(tifimage.TiffFrame):
"""Frame container for TIFF format generated by a Pilatus detector"""
def __init__(self, data, tiff_header, pilatus_header):
super(PilatusTiffFrame, self).__init__(data, tiff_header)
self.pilatus_header = pilatus_header
# Override the header
self._header = pilatus_header
class PilatusImage(tifimage.TifImage):
""" Read in Pilatus format, also
pilatus images, including header info """
DESCRIPTION = "Pilatus file format based on Tiff"
DEFAULT_EXTENSIONS = ["tif", "tiff"]
_keyvalue_spliter = re.compile(r"\s*[,:=\s]\s*")
"""It allow to split the first white space, colon, coma, or equal
character and remove white spaces around"""
def _create_pilatus_header(self, tiff_header):
"""
Parse Pilatus header from a TIFF header.
The Pilatus header is stored in the metadata ImageDescription (tag 270)
as an ASCII text which looks like:
.. block-code:: python
imageDescription = '# Pixel_size 172e-6 m x 172e-6 m\r\n'\
'# Silicon sensor, thickness 0.000320 m\r\n# Exposure_time 90.000000 s\r\n'\
'# Exposure_period 90.000000 s\r\n# Tau = 0 s\r\n'\
'# Count_cutoff 1048574 counts\r\n# Threshold_setting 0 eV\r\n'\
'# Gain_setting not implemented (vrf = 9.900)\r\n'\
'# N_excluded_pixels = 0\r\n# Excluded_pixels: (nil)\r\n'\
'# Flat_field: (nil)\r\n# Trim_directory: (nil)\r\n\x00'
:rtype: OrderedDict
"""
if "imageDescription" not in tiff_header:
# It is not a Pilatus TIFF image
raise IOError("Image is not a Pilatus image")
header = self.check_header()
description = tiff_header["imageDescription"]
for line in description.split("\n"):
index = line.find('# ')
if index == -1:
if line.strip(" \x00") != "":
# If it is not an empty line
_logger.debug("Pilatus header line '%s' misformed. Skipped", line)
continue
line = line[2:].strip()
if line == "":
# empty line
continue
result = self._keyvalue_spliter.split(line, 1)
if len(result) != 2:
_logger.debug("Pilatus header line '%s' misformed. Skipped", line)
continue
key, value = result
header[key] = value
return header
def _create_frame(self, image_data, tiff_header):
"""Create exposed data from TIFF information"""
pilatus_header = self._create_pilatus_header(tiff_header)
frame = PilatusTiffFrame(image_data, tiff_header, pilatus_header)
return frame
pilatusimage = PilatusImage
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