Glymur 0.14.0.post1__py3-none-any.whl → 0.14.1__py3-none-any.whl

glymur/_core_converter.py

@@ -158,7 +158,9 @@ class _2JP2Converter(object):
                 else:
                     payload = payload[:nvalues]
 
-            tags[tag] = {"dtype": dtype, "nvalues": nvalues, "payload": payload}
+            tags[tag] = {
+                "dtype": dtype, "nvalues": nvalues, "payload": payload
+            }
 
         return tags
 

glymur/codestream.py

@@ -1587,7 +1587,7 @@ class QCCsegment(Segment):
         self.length = length
         self.offset = offset
 
-        self.mantissa, self.exponent = parse_quantization(self.spqcc, self.sqcc)
+        self.mantissa, self.exponent = parse_quantization(self.spqcc, self.sqcc)  # noqa : E501
         self.guard_bits = (self.sqcc & 0xE0) >> 5
 
     def __str__(self):

glymur/jp2box.py

@@ -3088,7 +3088,9 @@ class NumberListBox(Jp2kBox):
 
     def write(self, fptr):
         """Write a NumberList box to file."""
-        fptr.write(struct.pack(">I4s", len(self.associations) * 4 + 8, b"nlst"))
+        fptr.write(
+             struct.pack(">I4s", len(self.associations) * 4 + 8, b"nlst")
+        )
 
         fmt = ">" + "I" * len(self.associations)
         write_buffer = struct.pack(fmt, *self.associations)

glymur/jp2k.py

@@ -168,7 +168,7 @@ class Jp2k(Jp2kr):
         self._psnr = psnr
         self._sop = sop
         self._subsam = subsam
-        self._tilesize = tilesize
+        self._tilesize_w = tilesize
         self._tlm = tlm
         self._verbose = verbose
 
@@ -323,7 +323,7 @@ class Jp2k(Jp2kr):
 
         if (
             self._shape is not None
-            and self.tilesize is not None
+            and self._tilesize_w is not None
             and (
                 self.tilesize[0] > self.shape[0]
                 or self.tilesize[1] > self.shape[1]
@@ -336,7 +336,30 @@ class Jp2k(Jp2kr):
             raise RuntimeError(msg)
 
     def get_tilewriters(self):
-        """Return an object that facilitates writing tile by tile."""
+        """Return an object that facilitates writing tile by tile.
+
+        The tiles are written out left-to-right, tile-row-by-tile-row.
+        You must have image data ready to feed each tile writer, and you
+        cannot skip a tile.
+
+        You can use this method to write extremely large images that cannot
+        fit into memory, tile by tile.
+
+        Examples
+        --------
+        >>> import skimage.data
+        >>> img = skimage.data.moon()
+        >>> print(img.shape)
+        (512, 512)
+        >>> shape = img.shape[0] * 2, img.shape[1] * 2
+        >>> tilesize = (img.shape[0], img.shape[1])
+        >>> j = Jp2k('moon-4.jp2', shape=shape, tilesize=tilesize)
+        >>> for tw in j.get_tilewriters():
+        ...     tw[:] = img
+        >>> j = Jp2kr('moon-4.jp2')
+        >>> print(j.shape)
+        (1024, 1024)
+        """
 
         if self.shape[:2] == self.tilesize:
             msg = (
@@ -458,9 +481,9 @@ class Jp2k(Jp2kr):
             cparams.subsampling_dy = self._subsam[0]
             cparams.subsampling_dx = self._subsam[1]
 
-        if self._tilesize is not None:
-            cparams.cp_tdx = self._tilesize[1]
-            cparams.cp_tdy = self._tilesize[0]
+        if self._tilesize_w is not None:
+            cparams.cp_tdx = self.tilesize[1]
+            cparams.cp_tdy = self.tilesize[0]
             cparams.tile_size_on = opj2.TRUE
 
         if self._mct is None:
@@ -715,6 +738,48 @@ class Jp2k(Jp2kr):
         ----------
         box : Jp2Box
             Instance of a JP2 box.
+
+        Examples
+        --------
+        >>> import io, shutil, lxml.etree as ET
+        >>> _ = shutil.copyfile(glymur.data.nemo(), 'new-nemo.jp2')
+        >>> j = glymur.Jp2k('new-nemo.jp2')
+        >>> b = io.BytesIO(b'''
+        ... <info>
+        ...     <city>Nashville</city>
+        ...     <city>Knoxville</city>
+        ...     <city>Whoville</city>
+        ... </info>
+        ... ''')
+        >>> doc = ET.parse(b)
+        >>> xmlbox = glymur.jp2box.XMLBox(xml=doc)
+        >>> j.append(xmlbox)
+        >>> glymur.set_option('print.codestream', False)
+        >>> print(j)
+        File:  new-nemo.jp2
+        JPEG 2000 Signature Box (jP  ) @ (0, 12)
+            Signature:  0d0a870a
+        File Type Box (ftyp) @ (12, 20)
+            Brand:  jp2 
+            Compatibility:  ['jp2 ']
+        JP2 Header Box (jp2h) @ (32, 45)
+            Image Header Box (ihdr) @ (40, 22)
+                Size:  [1456 2592 3]
+                Bitdepth:  8
+                Signed:  False
+                Compression:  wavelet
+                Colorspace Unknown:  False
+            Colour Specification Box (colr) @ (62, 15)
+                Method:  enumerated colorspace
+                Precedence:  0
+                Colorspace:  sRGB
+        Contiguous Codestream Box (jp2c) @ (77, 1132296)
+        XML Box (xml ) @ (1132373, 102)
+            <info>
+                <city>Nashville</city>
+                <city>Knoxville</city>
+                <city>Whoville</city>
+            </info>
         """
         if self._codec_format == opj2.CODEC_J2K:
             msg = "You cannot append to a J2K file (raw codestream)."
@@ -761,7 +826,9 @@ class Jp2k(Jp2kr):
         This method is primarily aimed at wrapping a raw codestream in a set of
         of JP2 boxes (turning it into a JP2 file instead of just a raw
         codestream), or rewrapping a codestream in a JP2 file in a new "jacket"
-        of JP2 boxes.
+        of JP2 boxes.  Wrapping a raw codestream preserves the internal
+        structure of the codestream, whereas simply writing it back out by
+        invoking the Jp2k constructor might rewrite the internal structure.
 
         Parameters
         ----------
@@ -778,6 +845,21 @@ class Jp2k(Jp2kr):
         -------
         Jp2k
             Newly wrapped Jp2k object.
+
+        Examples
+        --------
+
+        >>> j2c = glymur.Jp2k(glymur.data.goodstuff())
+        >>> jp2 = j2c.wrap('new-goodstuff.jp2')
+        >>> glymur.set_option('print.short', True)
+        >>> print(jp2)
+        File:  new-goodstuff.jp2
+        JPEG 2000 Signature Box (jP  ) @ (0, 12)
+        File Type Box (ftyp) @ (12, 20)
+        JP2 Header Box (jp2h) @ (32, 45)
+            Image Header Box (ihdr) @ (40, 22)
+            Colour Specification Box (colr) @ (62, 15)
+        Contiguous Codestream Box (jp2c) @ (77, 115228)
         """
         if boxes is None:
             boxes = self._get_default_jp2_boxes()

glymur/jp2kr.py

@@ -102,6 +102,7 @@ class Jp2kr(Jp2kBox):
         self._ndim = None
         self._parse_count = 0
         self._verbose = verbose
+        self._tilesize_r = None
 
         if not self.path.exists():
             raise FileNotFoundError(f"{self.filename} does not exist.")
@@ -146,7 +147,23 @@ class Jp2kr(Jp2kBox):
     @property
     def ignore_pclr_cmap_cdef(self):
         """If true, ignore the pclr, cmap, or cdef boxes during any
-        color transformation.  Defaults to false.
+        color transformation.  Why would you wish to do that?  In the immortal
+        words of Critical Drinker, don't know!
+
+        Defaults to false.
+
+        Examples
+        --------
+        >>> from glymur import Jp2kr
+        >>> jpxfile = glymur.data.jpxfile()
+        >>> j = Jp2kr(jpxfile)
+        >>> d = j[:]
+        >>> print(d.shape)
+        (1024, 1024, 3)
+        >>> j.ignore_pclr_cmap_cdef = True
+        >>> d = j[:]
+        >>> print(d.shape)
+        (1024, 1024)
         """
         return self._ignore_pclr_cmap_cdef
 
@@ -158,6 +175,18 @@ class Jp2kr(Jp2kBox):
     def decoded_components(self):
         """If true, decode only these components.  The MCT will not be used.
         List or scalar or None (default).
+
+        Examples
+        --------
+        >>> from glymur import Jp2kr
+        >>> j = Jp2kr(glymur.data.nemo())
+        >>> rgb = j[:]
+        >>> print(rgb.shape)
+        (1456, 2592, 3)
+        >>> j.decoded_components = 0
+        >>> comp0 = j[:]
+        >>> print(comp0.shape)
+        (1456, 2592)
         """
         return self._decoded_components
 
@@ -215,7 +244,17 @@ class Jp2kr(Jp2kBox):
 
     @property
     def dtype(self):
-        """Datatype of the image."""
+        """Datatype of the image.
+
+        Examples
+        --------
+        >>> from glymur import Jp2kr
+        >>> jp2file = glymur.data.nemo()
+        >>> j = Jp2kr(jp2file)
+        >>> j.dtype
+        <class 'numpy.uint8'>
+        """
+
         if self._dtype is None:
             c = self.get_codestream()
             bps0 = c.segment[1].bitdepth[0]
@@ -242,25 +281,77 @@ class Jp2kr(Jp2kBox):
 
     @property
     def ndim(self):
-        """Number of image dimensions."""
+        """Number of image dimensions.
+
+        Examples
+        --------
+        >>> from glymur import Jp2kr
+        >>> jp2file = glymur.data.nemo()
+        >>> j = Jp2kr(jp2file)
+        >>> j.ndim
+        3
+        """
         return len(self.shape)
 
     @property
     def codestream(self):
-        """Metadata for JP2 or J2K codestream header."""
+        """Metadata for JP2 or J2K codestream header.
+
+        Examples
+        --------
+        >>> from glymur import Jp2kr
+        >>> jp2file = glymur.data.nemo()
+        >>> c = Jp2kr(jp2file).codestream
+        >>> print(c.segment[0])
+        SOC marker segment @ (85, 0)
+        >>> len(c.segment)
+        5
+        """
         if self._codestream is None:
             self._codestream = self.get_codestream(header_only=True)
         return self._codestream
 
     @property
     def tilesize(self):
-        """Height and width of the image tiles."""
-        return self._tilesize
+        """Height and width of the image tiles.
+
+        Examples
+        --------
+        >>> jp = glymur.Jp2kr(glymur.data.nemo())
+        >>> print(jp.shape)
+        (1456, 2592, 3)
+        >>> print(jp.tilesize)
+        (1456, 2592)
+        """
+
+        if not hasattr(self, '_tilesize_w') and self._tilesize_r is None:
+            # file was opened as read-only case
+            segment = self.codestream.segment[1]
+            tilesize = segment.ytsiz, segment.xtsiz
+        elif self._tilesize_w is None:
+            # read-write case, but we are reading not writing
+            segment = self.codestream.segment[1]
+            tilesize = segment.ytsiz, segment.xtsiz
+        else:
+            # write-only case
+            tilesize = self._tilesize_w
+
+        return tilesize
 
     @property
     def verbose(self):
         """If true, print informational messages produced by the
         OpenJPEG library.  Defaults to false.
+
+        Examples
+        --------
+        >>> import skimage
+        >>> j = glymur.Jp2k('moon.jp2', tilesize=[256, 256], verbose=True)
+        >>> j[:] = skimage.data.moon()
+        [INFO] tile number 1 / 4
+        [INFO] tile number 2 / 4
+        [INFO] tile number 3 / 4
+        [INFO] tile number 4 / 4
         """
         return self._verbose
 
@@ -270,7 +361,14 @@ class Jp2kr(Jp2kBox):
 
     @property
     def shape(self):
-        """Dimensions of full resolution image."""
+        """Dimensions of full resolution image.
+
+        Examples
+        --------
+        >>> jp = glymur.Jp2kr(glymur.data.nemo())
+        >>> print(jp.shape)
+        (1456, 2592, 3)
+        """
         return self._shape
 
     @shape.setter
@@ -919,7 +1017,7 @@ class Jp2kr(Jp2kBox):
         --------
         >>> jfile = glymur.data.nemo()
         >>> jp2 = glymur.Jp2k(jfile)
-        >>> codestream = jp2.get_codestream()
+        >>> codestream = jp2.get_codestream(header_only=False)
         >>> print(codestream.segment[1])
         SIZ marker segment @ (87, 47)
             Profile:  no profile
@@ -930,6 +1028,10 @@ class Jp2kr(Jp2kBox):
             Bitdepth:  (8, 8, 8)
             Signed:  (False, False, False)
             Vertical, Horizontal Subsampling:  ((1, 1), (1, 1), (1, 1))
+        >>> print(len(codestream.segment))
+        12
+        >>> print(codestream.segment[-1])
+        EOC marker segment @ (1132371, 0)
         """
         with self.path.open("rb") as fptr:
 

glymur/jpeg.py

@@ -6,7 +6,8 @@ import struct
 from typing import Tuple
 
 # 3rd party library imports
-import imageio.v3 as iio
+import numpy as np
+from PIL import Image
 
 # local imports
 from .jp2k import Jp2k
@@ -185,7 +186,8 @@ class JPEG2JP2(_2JP2Converter):
 
     def copy_image(self):
         """Transfer the image data from the JPEG to the JP2 file."""
-        image = iio.imread(self.jpeg_path)
+        with Image.open(self.jpeg_path) as im:
+            image = np.array(im)
 
         self.jp2 = Jp2k(
             self.jp2_path,

glymur/lib/tiff.py

@@ -111,43 +111,7 @@ class Orientation(IntEnum):
 
 
 class Photometric(IntEnum):
-    """The color space of the image data.
-
-    Examples
-    --------
-
-    Load an image of astronaut Eileen Collins from scikit-image.
-
-    >>> import numpy as np
-    >>> import skimage.data
-    >>> image = skimage.data.astronaut()
-
-    Create a BigTIFF with JPEG compression.  There is not much reason to do
-    this if you do not also specify YCbCr as the photometric interpretation.
-
-    >>> w, h, nz = image.shape
-    >>> tw, th = w // 2, h // 2
-    >>> from glymur.lib import tiff as libtiff
-    >>> fp = libtiff.open('astronaut-jpeg.tif', mode='w8')
-    >>> libtiff.setField(fp, 'Photometric', libtiff.Photometric.YCBCR)
-    >>> libtiff.setField(fp, 'Compression', libtiff.Compression.JPEG)
-    >>> libtiff.setField(fp, 'JPEGColorMode', libtiff.JPEGColorMode.RGB)
-    >>> libtiff.setField(fp, 'PlanarConfig', libtiff.PlanarConfig.CONTIG)
-    >>> libtiff.setField(fp, 'JPEGQuality', 90)
-    >>> libtiff.setField(fp, 'YCbCrSubsampling', 1, 1)
-    >>> libtiff.setField(fp, 'ImageWidth', w)
-    >>> libtiff.setField(fp, 'ImageLength', h)
-    >>> libtiff.setField(fp, 'TileWidth', tw)
-    >>> libtiff.setField(fp, 'TileLength', th)
-    >>> libtiff.setField(fp, 'BitsPerSample', 8)
-    >>> libtiff.setField(fp, 'SamplesPerPixel', nz)
-    >>> libtiff.setField(fp, 'Software', libtiff.getVersion())
-    >>> libtiff.writeEncodedTile(fp, 0, image[:th, :tw].copy())
-    >>> libtiff.writeEncodedTile(fp, 1, image[:th, tw:w].copy())
-    >>> libtiff.writeEncodedTile(fp, 2, image[th:h, :tw].copy())
-    >>> libtiff.writeEncodedTile(fp, 3, image[th:h, tw:w].copy())
-    >>> libtiff.close(fp)
-    """
+    """The color space of the image data."""
 
     MINISWHITE = 0  # value is white
     MINISBLACK = 1  # value is black
@@ -2130,7 +2094,9 @@ class _Ifd(object):
                 # tuple.
                 payload = payload[0]
             else:
-                payload = np.array(payload, dtype=DATATYPE2FMT[dtype]["nptype"])
+                payload = np.array(
+                    payload, dtype=DATATYPE2FMT[dtype]["nptype"]
+                )
 
         return payload
 

glymur/version.py

@@ -20,7 +20,7 @@ from .lib import tiff
 
 # Do not change the format of this next line!  Doing so risks breaking
 # setup.py
-version = "0.14.0post1"
+version = "0.14.1"
 
 version_tuple = parse(version).release
 

{glymur-0.14.0.post1.dist-info → glymur-0.14.1.dist-info}/METADATA

@@ -1,32 +1,34 @@
 Metadata-Version: 2.4
 Name: Glymur
-Version: 0.14.0.post1
-Home-page: https://github.com/quintusdias/glymur
-Author: 'John Evans'
-Author-email: "John Evans" <jevans667cc@proton.me>
-License: 'MIT'
+Version: 0.14.1
+Summary: Read and write JPEG 2000 files
+Author-email: John Evans <jevans667cc@proton.me>
+License-Expression: MIT
+Project-URL: Homepage, https://glymur.readthedocs.io
+Project-URL: Documentation, https://glymur.readthedocs.io
+Project-URL: Repository, https://github.com/quintusdias/glymur
+Keywords: JPEG2000,JPEG,2000,imagery
 Classifier: Programming Language :: Python
 Classifier: Programming Language :: Python :: 3.11
 Classifier: Programming Language :: Python :: 3.12
 Classifier: Programming Language :: Python :: 3.13
 Classifier: Programming Language :: Python :: Implementation :: CPython
-Classifier: License :: OSI Approved :: MIT License
 Classifier: Intended Audience :: Science/Research
 Classifier: Operating System :: OS Independent
 Classifier: Topic :: Scientific/Engineering
-Requires-Python: >=3.9
+Requires-Python: >=3.11
 Description-Content-Type: text/markdown
 License-File: LICENSE.txt
 Requires-Dist: numpy
 Requires-Dist: lxml
-Requires-Dist: imageio
-Requires-Dist: packaging
-Provides-Extra: test
-Requires-Dist: pytest; extra == "test"
-Requires-Dist: pillow; extra == "test"
-Requires-Dist: scikit-image; extra == "test"
+Requires-Dist: PIL
 Dynamic: license-file
 
+glymur: a Python interface for JPEG 2000
+=========================================
 
 **glymur** contains a Python interface to the OpenJPEG library which
-allows one to read and write JPEG 2000 files.
+allows one to read and write JPEG 2000 files.  **glymur** works on
+Python 3.11, 3.12, and 3.13.
+
+Please read the docs, https://glymur.readthedocs.org/en/latest/

glymur-0.14.1.dist-info/RECORD

@@ -0,0 +1,27 @@
+glymur/__init__.py,sha256=8kFoLkxAFhVEsgR0WCEaF0iXE5GZSp47nPlheGMpP-c,625
+glymur/_core_converter.py,sha256=tOCxgbZReS47vyCNrfFYaEM9hM9U6ei-PvQdwFXY5mk,13042
+glymur/_iccprofile.py,sha256=v0nOhJuZsKViBUYCf8TWVJvs1k0vC9PGYdbkEIfGuI4,4156
+glymur/codestream.py,sha256=JQUVS8nENdf-rgMDuGwsrg0UakhN_kIShfZEzIV7IT4,62695
+glymur/command_line.py,sha256=3Wngx3wfAvP2PEf4-XRbmm43Bz8zywIL3Gd-6k-wMvY,11485
+glymur/config.py,sha256=lVunNA-A475BX27L_qmrec_lm1InzHuL4_jkG8v_1FA,4140
+glymur/core.py,sha256=O07TfaRW2YmurkFMiurl0DkDSGB0slDAAzP83K1HPFA,3613
+glymur/jp2box.py,sha256=9tBCbLqqwO-CP587a_dAW88W3MJLJMz-cAyQ_LSUO6A,113852
+glymur/jp2k.py,sha256=Mv6i__DJ_WUTBcAXCP6wYIMBSCmnNL84H6hr0V7jSZo,56892
+glymur/jp2kr.py,sha256=lytdX28iZIq8tyXyAWLR_jUZuO2RsKWSIXKiRpCLaqA,35882
+glymur/jpeg.py,sha256=PSsyv4ZQTMXGQnpX9Y5-JGxHa0t6QZPZvd5BsnOhahQ,5560
+glymur/options.py,sha256=TZApl6r_qCERHSIcTdM0iGvYuQLrZMbOtyFJB7XkvK0,4413
+glymur/tiff.py,sha256=5oBeNwaMgojb0mfZJpk86WYHdrR04QRdfW2QDX1I7CU,29550
+glymur/version.py,sha256=ztgCvK_1HaxdLnoa8JOrO4YDlBwYdrFsGg1qXTtU9Xk,981
+glymur/data/__init__.py,sha256=n2KZrHV15it7Wu4YCaBLXui1ZleQ30dnZ92dyP6q05k,955
+glymur/data/goodstuff.j2k,sha256=xKQG68KMu33gYjRUDTQvam1Cue2tdio85rNp5J-rYZE,115220
+glymur/data/heliov.jpx,sha256=KXnYdBZgl25jcGLu-m-QfhuP9pqUXV0Hp9HHEdJqr34,1399071
+glymur/data/nemo.jp2,sha256=yJ1NkTEwU0B_gBtAiA1c5hxtGYSJtJgq6cHC2IHpj70,1132373
+glymur/lib/__init__.py,sha256=JnM9oPfcZhBDLKo7_yLS-lIRQ1wXb1N9hKKQ-G7vYVk,127
+glymur/lib/openjp2.py,sha256=0UWPp2mto8G43yRUhGfpcS1RV6l3ac1YQrlVyBhxvjs,44064
+glymur/lib/tiff.py,sha256=t8XfgwX2jX0qSU8RuTkNvWLe2390Bp7TiVlr8K2Ku68,51828
+glymur-0.14.1.dist-info/licenses/LICENSE.txt,sha256=G9pvBgkJdPTtZqQmoRyIgAydtic1ZwWtOWBea9VMW7I,1077
+glymur-0.14.1.dist-info/METADATA,sha256=kZ22Yu2J0H3P3IWvEfA174L3wQb27tVoH5e62GZc-FI,1271
+glymur-0.14.1.dist-info/WHEEL,sha256=CmyFI0kx5cdEMTLiONQRbGQwjIoR1aIYB7eCAQ4KPJ0,91
+glymur-0.14.1.dist-info/entry_points.txt,sha256=v_9O2V_6M5ir6_nYmtkpgY9QvN1H-CMVg6tKqcUN4v0,133
+glymur-0.14.1.dist-info/top_level.txt,sha256=D0SvtBUoPxOs40OTRW3l-kjGFHM6VrXS8yZPK5Fx2wY,7
+glymur-0.14.1.dist-info/RECORD,,

{glymur-0.14.0.post1.dist-info → glymur-0.14.1.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: setuptools (77.0.3)
+Generator: setuptools (78.1.0)
 Root-Is-Purelib: true
 Tag: py3-none-any
 

glymur-0.14.0.post1.dist-info/RECORD

@@ -1,27 +0,0 @@
-glymur/__init__.py,sha256=8kFoLkxAFhVEsgR0WCEaF0iXE5GZSp47nPlheGMpP-c,625
-glymur/_core_converter.py,sha256=sfb0EOjSY2RFI4qhmz5t2UlsP68pibcyCieJTAMMFRc,13012
-glymur/_iccprofile.py,sha256=v0nOhJuZsKViBUYCf8TWVJvs1k0vC9PGYdbkEIfGuI4,4156
-glymur/codestream.py,sha256=wzRI8S5dlNfg6RqrSV7r5a4Rr2cDfk0n7CvytonBmHk,62680
-glymur/command_line.py,sha256=3Wngx3wfAvP2PEf4-XRbmm43Bz8zywIL3Gd-6k-wMvY,11485
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