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Name custom colormaps for photometric PALETTE #33

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merged 2 commits into from
Jul 12, 2024
Merged

Name custom colormaps for photometric PALETTE #33

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99f176a
Name custom colormaps to avoid adding duplicates to the napari colorm…
GenevieveBuckley Jul 9, 2024
42318a4
Different files may contain different colormaps, but we must also che…
GenevieveBuckley Jul 11, 2024
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2 changes: 2 additions & 0 deletions napari_tiff/napari_tiff_colormaps.py
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Original file line number Diff line number Diff line change
@@ -1,5 +1,7 @@
import numpy

CUSTOM_COLORMAPS = {} # CUSTOM_COLORMAPS[colormap_hash] = colormap_name


def alpha_colormap(bitspersample=8, samples=4):
"""Return Alpha colormap."""
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20 changes: 14 additions & 6 deletions napari_tiff/napari_tiff_metadata.py
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Original file line number Diff line number Diff line change
Expand Up @@ -3,7 +3,7 @@
import numpy
from tifffile import PHOTOMETRIC, TiffFile, xml2dict

from napari_tiff.napari_tiff_colormaps import alpha_colormap, int_to_rgba
from napari_tiff.napari_tiff_colormaps import alpha_colormap, int_to_rgba, CUSTOM_COLORMAPS


def get_metadata(tif: TiffFile) -> dict[str, Any]:
Expand Down Expand Up @@ -145,12 +145,20 @@ def get_tiff_metadata(tif: TiffFile) -> dict[str, Any]:

if page.photometric == PHOTOMETRIC.PALETTE and page.colormap is not None:
# PALETTE
colormap = page.colormap
if numpy.max(colormap) > 255:
colormap = colormap / 65535.0
colormap_values = page.colormap
if numpy.max(colormap_values) > 255:
colormap_values = colormap_values / 65535.0
else:
colormap = colormap / 255.0
colormap = colormap.astype("float32").T
colormap_values = colormap_values / 255.0
colormap_values = colormap_values.astype("float32").T
# set up custom colormap
colormap_hash = hash(tuple(tuple(x) for x in colormap_values))
if colormap_hash in CUSTOM_COLORMAPS:
colormap_name = CUSTOM_COLORMAPS[colormap_hash]
else:
colormap_name = "PALETTE: " + str(colormap_hash)
CUSTOM_COLORMAPS[colormap_hash] = colormap_name
colormap = {"name": colormap_name, "colors": colormap_values}

if colormap is None and page.photometric == PHOTOMETRIC.MINISWHITE:
# MINISWHITE
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