AICONSlab / AICONSlab/MIRACL

Blank segmentation output

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描述

I tried to segment my own lsm data. for starter I tried a small block but the generated segmentation are all blank.

here's the command I run in the apptainer.

```bash
miracl seg ace -sai /data/200316-1-1_N12_N58204NLSAM_NeuN-ls_M4D/chunk_0_start_1767_4325_941_end_2192_3858_1159.tif -sao /data/outputs/ -sam unet -sar 1.8 1.8 4.0
```

In the input folder, I have `slice_z001.tif` to `slice_z218.tif`, 218 slices in total. each slice has shape `(425, 467)`.

I got `seg_final` folder, and `generated_patches` with.

```
out_patch_0_0.tiff
patch_0_0.tiff
percentage_brain_patch.json
```

the `percentage_brain_patch.json` is

```
{
"patch_0_0.tiff": 7.688754051923752
}
```

The out_patch_0_0.tiff has size `512,512,512` and completely blank.

May I ask is there any requirements for the input data? what might cause the issue of having blank segmention output?

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