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Error exit code 139 during Mesmer segmentation on 4+GB input images

Status: Open.

#592 In labsyspharm/mcmicro;

· stibossu opened on Feb 25, 2026

Feature Question: Automate marker extraction from OME-TIFF metadata for mcquant

Status: Open.

#588 In labsyspharm/mcmicro;

· PranavMotarwar opened on Sep 24, 2025

Galaxy workflows obsolete

Status: Open.

#584 In labsyspharm/mcmicro;

· GaryAitken opened on Jul 5, 2025

[Question] Does MCMICRO expect preprocessed input images compared to Cytokit?

Status: Open.

#583 In labsyspharm/mcmicro;

· ShuaibingRen opened on Jun 23, 2025

Segmentation

Status: Open.

#581 In labsyspharm/mcmicro;

· tkcaccia opened on May 16, 2025

Error: “Unrecognized parameter markers” when using params.yml with qptiff input

Status: Open.

#580 In labsyspharm/mcmicro;

· PranavMotarwar opened on May 12, 2025

Could the segmentation be shown in MINERVA?

Status: Open.

#579 In labsyspharm/mcmicro;

· tkcaccia opened on May 10, 2025

Autominerva do not show my image

Status: Open.

#578 In labsyspharm/mcmicro;

· tkcaccia opened on May 10, 2025

Autominerva could not read metadata from backsub generated ome TIFF image

Status: Open.

#577 In labsyspharm/mcmicro;

· yujxiao opened on Apr 8, 2025

S3segmenter not finding all cells (parameters issue?)

Status: Open.

#576 In labsyspharm/mcmicro;

· O-kaneko opened on Mar 17, 2025

python: can't open file '/app/mc-ilastik.py'

Status: Open.

#566 In labsyspharm/mcmicro;

· PranavMotarwar opened on Dec 3, 2024

Java and amd 64 errors when running illumination

Status: Open.

#560 In labsyspharm/mcmicro;

· eisele24 opened on Sep 24, 2024