# -*- coding: utf-8 -*- # imageio is distributed under the terms of the (new) BSD License. """Read FITS files. Backend Library: `Astropy `_ .. note:: To use this plugin you have to install its backend:: pip install imageio[fits] Flexible Image Transport System (FITS) is an open standard defining a digital file format useful for storage, transmission and processing of scientific and other images. FITS is the most commonly used digital file format in astronomy. Parameters ---------- cache : bool If the file name is a URL, `~astropy.utils.data.download_file` is used to open the file. This specifies whether or not to save the file locally in Astropy's download cache (default: `True`). uint : bool Interpret signed integer data where ``BZERO`` is the central value and ``BSCALE == 1`` as unsigned integer data. For example, ``int16`` data with ``BZERO = 32768`` and ``BSCALE = 1`` would be treated as ``uint16`` data. Note, for backward compatibility, the kwarg **uint16** may be used instead. The kwarg was renamed when support was added for integers of any size. ignore_missing_end : bool Do not issue an exception when opening a file that is missing an ``END`` card in the last header. checksum : bool or str If `True`, verifies that both ``DATASUM`` and ``CHECKSUM`` card values (when present in the HDU header) match the header and data of all HDU's in the file. Updates to a file that already has a checksum will preserve and update the existing checksums unless this argument is given a value of 'remove', in which case the CHECKSUM and DATASUM values are not checked, and are removed when saving changes to the file. disable_image_compression : bool, optional If `True`, treats compressed image HDU's like normal binary table HDU's. do_not_scale_image_data : bool If `True`, image data is not scaled using BSCALE/BZERO values when read. ignore_blank : bool If `True`, the BLANK keyword is ignored if present. scale_back : bool If `True`, when saving changes to a file that contained scaled image data, restore the data to the original type and reapply the original BSCALE/BZERO values. This could lead to loss of accuracy if scaling back to integer values after performing floating point operations on the data. """ from ..core import Format _fits = None # lazily loaded def load_lib(): global _fits try: from astropy.io import fits as _fits except ImportError: raise ImportError( "The FITS format relies on the astropy package." "Please refer to http://www.astropy.org/ " "for further instructions." ) return _fits class FitsFormat(Format): """See :mod:`imageio.plugins.fits`""" def _can_read(self, request): # We return True if ext matches, because this is the only plugin # that can. If astropy is not installed, a useful error follows. return request.extension in self.extensions def _can_write(self, request): # No write support return False # -- reader class Reader(Format.Reader): def _open(self, cache=False, **kwargs): if not _fits: load_lib() hdulist = _fits.open(self.request.get_file(), cache=cache, **kwargs) self._index = [] allowed_hdu_types = (_fits.ImageHDU, _fits.PrimaryHDU, _fits.CompImageHDU) for n, hdu in zip(range(len(hdulist)), hdulist): if isinstance(hdu, allowed_hdu_types): # Ignore (primary) header units with no data (use '.size' # rather than '.data' to avoid actually loading the image): if hdu.size > 0: self._index.append(n) self._hdulist = hdulist def _close(self): self._hdulist.close() def _get_length(self): return len(self._index) def _get_data(self, index): # Get data if index < 0 or index >= len(self._index): raise IndexError("Index out of range while reading from fits") im = self._hdulist[self._index[index]].data # Return array and empty meta data return im, {} def _get_meta_data(self, index): # Get the meta data for the given index raise RuntimeError("The fits format does not support meta data.")