How to use the tifffile.tifffile.stripnull function in tifffile

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github AllenCellModeling / pytorch_fnet / fnet / aicsimage / io / czifile.py View on Github external
def __init__(self, fh):
        (shema_type,
         reserved,
         self.file_position,
         file_part,  # reserved
         content_guid,
         content_file_type,
         name
         ) = struct.unpack('<2s10sqi16s8s80s', fh.read(128))

        if shema_type != b'A1':
            raise ValueError("not a AttachmentEntryA1")
        self.content_guid = uuid.UUID(bytes=content_guid)
        self.content_file_type = stripnull(content_file_type)
        self.name = unicode(stripnull(name), 'utf-8')
        self._fh = fh
github AllenCellModeling / pytorch_fnet / fnet / aicsimage / io / czifile.py View on Github external
def __init__(self, fh):
        size, identifier, number = struct.unpack('
github AllenCellModeling / pytorch_fnet / aicsimage / io / czifile.py View on Github external
def __init__(self, fh, fpos=None):
        """Read segment header from file."""
        if fpos is not None:
            fh.seek(fpos)
        try:
            (self.sid,
             self.allocated_size,
             self.used_size
             ) = struct.unpack('<16sqq', fh.read(32))
        except struct.error:
            raise SegmentNotFoundError("can not read ZISRAW segment")
        self.sid = stripnull(self.sid)
        if self.sid not in SEGMENT_ID:
            if not self.sid.startswith(b'ZISRAW'):
                raise SegmentNotFoundError("not a ZISRAW segment")
            warnings.warn("unknown segment type %s" % self.sid)
        self.data_offset = fh.tell()
        self._fh = fh
github AllenCellModeling / pytorch_fnet / fnet / aicsimage / io / czifile.py View on Github external
def __init__(self, fh):
        (size,
         self.time,
         self.event_type,
         description_size,
         ) = struct.unpack('
github AllenCellModeling / pytorch_fnet / aicsimage / io / czifile.py View on Github external
def xml_reader(fh, filesize):
    """Read XML from file and return as xml.ElementTree root Element."""
    xml = unicode(stripnull(fh.read(filesize)), 'utf-8')
    return etree.fromstring(xml)
github AllenCellModeling / pytorch_fnet / fnet / aicsimage / io / czifile.py View on Github external
def __init__(self, fh):
        (self.dimension,
         self.start,
         self.size,
         self.start_coordinate,
         stored_size
         ) = struct.unpack('<4siifi', fh.read(20))
        self.dimension = stripnull(self.dimension)
        self.stored_size = stored_size if stored_size else self.size
github AllenCellModeling / pytorch_fnet / aicsimage / io / czifile.py View on Github external
def __init__(self, fh):
        (shema_type,
         reserved,
         self.file_position,
         file_part,  # reserved
         content_guid,
         content_file_type,
         name
         ) = struct.unpack('<2s10sqi16s8s80s', fh.read(128))

        if shema_type != b'A1':
            raise ValueError("not a AttachmentEntryA1")
        self.content_guid = uuid.UUID(bytes=content_guid)
        self.content_file_type = stripnull(content_file_type)
        self.name = unicode(stripnull(name), 'utf-8')
        self._fh = fh
github AllenCellModeling / pytorch_fnet / fnet / aicsimage / io / czifile.py View on Github external
def __init__(self, fh, fpos=None):
        """Read segment header from file."""
        if fpos is not None:
            fh.seek(fpos)
        try:
            (self.sid,
             self.allocated_size,
             self.used_size
             ) = struct.unpack('<16sqq', fh.read(32))
        except struct.error:
            raise SegmentNotFoundError("can not read ZISRAW segment")
        self.sid = stripnull(self.sid)
        if self.sid not in SEGMENT_ID:
            if not self.sid.startswith(b'ZISRAW'):
                raise SegmentNotFoundError("not a ZISRAW segment")
            warnings.warn("unknown segment type %s" % self.sid)
        self.data_offset = fh.tell()
        self._fh = fh
github AllenCellModeling / pytorch_fnet / aicsimage / io / czifile.py View on Github external
def __init__(self, fh):
        (size,
         self.time,
         self.event_type,
         description_size,
         ) = struct.unpack('
github AllenCellModeling / pytorch_fnet / aicsimage / io / czifile.py View on Github external
def __init__(self, fh):
        size, identifier, number = struct.unpack('