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Set the expected column names for image data slot #46

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Merged
jkanche merged 1 commit into from
Apr 24, 2025
Merged

Set the expected column names for image data slot #46

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18 changes: 11 additions & 7 deletions src/spatialexperiment/SpatialExperiment.py
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Original file line number Diff line number Diff line change
Expand Up @@ -3,11 +3,12 @@
from urllib.parse import urlparse
from warnings import warn

import biocutils as ut
import numpy as np
from PIL import Image

from biocframe import BiocFrame
import biocutils as ut
from PIL import Image
from singlecellexperiment import SingleCellExperiment
from singlecellexperiment._combineutils import merge_generic, relaxed_merge_generic, relaxed_merge_numpy_generic
from summarizedexperiment._combineutils import (
check_assays_are_equal,
merge_assays,
Expand All @@ -16,9 +17,8 @@
)
from summarizedexperiment._frameutils import _sanitize_frame
from summarizedexperiment.RangedSummarizedExperiment import GRangesOrGRangesList
from singlecellexperiment import SingleCellExperiment
from singlecellexperiment._combineutils import merge_generic, relaxed_merge_generic, relaxed_merge_numpy_generic

from ._combineutils import merge_spatial_coordinates, merge_spatial_frames
from ._imgutils import get_img_idx
from ._validators import (
_validate_column_data,
Expand All @@ -29,8 +29,7 @@
_validate_spatial_coords,
_validate_spatial_coords_names,
)
from ._combineutils import merge_spatial_frames, merge_spatial_coordinates
from .SpatialImage import construct_spatial_image_class, VirtualSpatialImage
from .SpatialImage import VirtualSpatialImage, construct_spatial_image_class

__author__ = "keviny2"
__copyright__ = "keviny2"
Expand Down Expand Up @@ -201,6 +200,11 @@ def __init__(
column_data["sample_id"] = ["sample01"] * self.shape[1] # hard code default sample_id as "sample01"

spatial_coords = _sanitize_frame(spatial_coords, num_rows=self.shape[1])

if img_data is None:
img_data = BiocFrame(
data={"sample_id": [], "image_id": [], "data": [], "scale_factor": []}, number_of_rows=0
)
img_data = _sanitize_frame(img_data, num_rows=0)

self._img_data = img_data
Expand Down