st_data_plotter.py PIL.Image.DecompressionBombError

[lili03080317]

Hi,
When I run python st_data_plotter.py --counts-table-files stdata.tsv --image-files ST_rep1.jpg --outdir /root/home/ --show-genes CASP7�,I got a error like this.

Total number of spots 1933
Total number of genes 17138
Number of expressed genes a spot must have to be kept (0.01% of total expressed genes) 193
Dropped 19 spots
Removing genes that are expressed in less than 19 spots with a count of at least 1
Dropped 4804 genes
Computing per spot normalization...
Plotting data...
Traceback (most recent call last):
File "st_data_plotter.py", line 214, in
args.use_log_scale)
File "st_data_plotter.py", line 156, in main
vmax=vmax)
File "/opt/miniconda3/envs/scgpt/lib/python3.7/site-packages/stanalysis-0.5.1-py3.7.egg/stanalysis/visualization.py", line 187, in scatter_plot
img = plt.imread(image)
File "/opt/miniconda3/envs/scgpt/lib/python3.7/site-packages/matplotlib/pyplot.py", line 2158, in imread
return matplotlib.image.imread(fname, format)
File "/opt/miniconda3/envs/scgpt/lib/python3.7/site-packages/matplotlib/image.py", line 1560, in imread
with img_open(fname) as image:
File "/opt/miniconda3/envs/scgpt/lib/python3.7/site-packages/PIL/Image.py", line 3277, in open
im = _open_core(fp, filename, prefix, formats)
File "/opt/miniconda3/envs/scgpt/lib/python3.7/site-packages/PIL/Image.py", line 3264, in _open_core
_decompression_bomb_check(im.size)
File "/opt/miniconda3/envs/scgpt/lib/python3.7/site-packages/PIL/Image.py", line 3173, in _decompression_bomb_check
raise DecompressionBombError(msg)
PIL.Image.DecompressionBombError: Image size (251920384 pixels) exceeds limit of 178956970 pixels, could be decompression bomb DOS attack.
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How to fix it?Thank you.

[jfnavarro]

This is a known issue related to the image size limit in matplotlib. There are multiple work-arounds for this.