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CellposeSAM segmentation doubles the dimensions of the masks

Status: Open.

#291 In BodenmillerGroup/steinbock;

· JohnAbbey98 opened on May 4, 2026

behavior in measure intensities

Status: Open.

#288 In BodenmillerGroup/steinbock;

· SchulzDan opened on Mar 27, 2026

Fibroblast Cells Missed

Status: Open.

#285 In BodenmillerGroup/steinbock;

· DarioS opened on Aug 6, 2025

inconsistent image acquisition error causes empty images.csv

Status: Open.

#284 In BodenmillerGroup/steinbock;

· matt-sd-watson opened on Aug 1, 2025

Some problem when running ilastik fix（KeyError: 'Patient1_s0_a1_ac_ilastik_x593_y590_w500_h500'）

Status: Open.

#283 In BodenmillerGroup/steinbock;

· yibulaxin opened on Jul 31, 2025

MCD Directory Checked Even if Only TXT Path Specified

Status: Open.

#282 In BodenmillerGroup/steinbock;

· DarioS opened on Jul 25, 2025

MCD files generated with the slide loader always appear corrupted

Status: Open.

#281 In BodenmillerGroup/steinbock;

· givison opened on Apr 15, 2025

Having difficulty to do segmentation with external images

Status: Open.

#279 In BodenmillerGroup/steinbock;

· xwxdazhong opened on Mar 14, 2025

[Errno 2] No such file or directory: '/opt/ilastik/run_ilastik.sh'

Status: Open.

#278 In BodenmillerGroup/steinbock;

· mdka00001 opened on Mar 5, 2025

Auto detect if imwrite should use ome and bigtiff or not

Status: Open.

#275 In BodenmillerGroup/steinbock;

· matt-sd-watson opened on Dec 13, 2024

Docker container keeps exiting

Status: Open.

#274 In BodenmillerGroup/steinbock;

· SamWell16 opened on Dec 11, 2024

Set mask dtype to np.uint32 by default without using ENV variables?

Status: Open.

#272 In BodenmillerGroup/steinbock;

· matt-sd-watson opened on Nov 20, 2024