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[feature] Request Bakta v1.11 to v1.12

enhancementNew feature or requestNew feature or request

Status: Open.

#647 In bactopia/bactopia;

· incoherentian opened on Feb 9, 2026

[question] main.nf changes OK to resolve undefined (hicap/staphtyper) params?

questionFurther information is requestedFurther information is requested

Status: Open.

#646 In bactopia/bactopia;

· incoherentian opened on Jan 22, 2026

Cannot use mobsuite

Status: Open.

#645 In bactopia/bactopia;

· lingbingzeng1985 opened on Jan 19, 2026

Processes exceeding running time limit

bugSomething isn't workingSomething isn't working

Status: Open.

#643 In bactopia/bactopia;

· AntonS-bio opened on Jan 14, 2026

[question] Request to update mlst to v2.25

questionFurther information is requestedFurther information is requested

Status: Open.

#642 In bactopia/bactopia;

· svermai opened on Dec 23, 2025

R1 R2 error correction

Status: Open.

#641 In bactopia/bactopia;

· fconstancias opened on Dec 9, 2025

Incompatible Python versions

bugSomething isn't workingSomething isn't working

Status: Open.

#640 In bactopia/bactopia;

· AntonS-bio opened on Dec 2, 2025

[bug] Subsequent runs of Abricate do not overwrite the individual outputs under tools -> abricate

bugSomething isn't workingSomething isn't working

v4

Status: Open.

#639 In bactopia/bactopia;

· rwilliams opened on Nov 22, 2025

[bug] Bakta issue, please update bakta

bugSomething isn't workingSomething isn't working

Status: Open.

#636 In bactopia/bactopia;

· SchwarzMarek opened on Nov 10, 2025

[question] Preassembled genome with reads

questionFurther information is requestedFurther information is requested

Status: Open.

#635 In bactopia/bactopia;

· SchwarzMarek opened on Oct 27, 2025

[question] Using Bactopia on HPC with SLURM workload management

questionFurther information is requestedFurther information is requested

Status: Open.

#634 In bactopia/bactopia;

· michaelgruenstaeudl opened on Oct 22, 2025

Using files contained in subdirectories

enhancementNew feature or requestNew feature or request

Status: Open.

#633 In bactopia/bactopia;

· AntonS-bio opened on Oct 21, 2025