Search results

[bug] Merged ARG outputs from some Bactopia tools do not preserve the real sample IDs.

bugSomething isn't workingSomething isn't working

Status: Open.

#672 In bactopia/bactopia;

· JaneZheng-0406 opened on May 22, 2026

[bug]mlst fails to generate MLST alleles and ST profile

bugSomething isn't workingSomething isn't working

Status: Open.

#671 In bactopia/bactopia;

· kruem-ar opened on May 20, 2026

[bug] gubbins fails when run under apptainer

bugSomething isn't workingSomething isn't working

Status: Open.

#667 In bactopia/bactopia;

· pvanheus opened on May 18, 2026

[feature] many schema.json are missing default values

enhancementNew feature or requestNew feature or request

Status: Open.

#666 In bactopia/bactopia;

· rpetit3 opened on May 18, 2026

[bug] cleanyerreads workflow sets genome_size to 1 by default

bugSomething isn't workingSomething isn't working

done

Status: Open.

#665 In bactopia/bactopia;

· pvanheus opened on May 15, 2026

[bug] bactopia tools including samples with missing data

bugSomething isn't workingSomething isn't working

done

Status: Open.

#664 In bactopia/bactopia;

· rpetit3 opened on May 12, 2026

[feature] Bactopia search only querying ENA, not SRA

done

enhancementNew feature or requestNew feature or request

Status: Open.

#663 In bactopia/bactopia;

· Tierex1 opened on May 7, 2026

[bug] JSONSchemaValidator - Value is [string] but should be [number]

bugSomething isn't workingSomething isn't working

done

Status: Open.

#660 In bactopia/bactopia;

· rpetit3 opened on May 4, 2026

[bug] Teton - Directive container doesn't support dynamic value (or context not yet initialized)

bugSomething isn't workingSomething isn't working

done

Status: Open.

#659 In bactopia/bactopia;

· rpetit3 opened on May 4, 2026

[bactopia-tool] Deacon (alternative to sra-human-scrubber)

add-bactopia-tool

done

Status: Open.

#658 In bactopia/bactopia;

· fanninpm opened on Apr 30, 2026

[bactopia-tool] Add ConFindr for bacterial isolate contamination screening

add-bactopia-tool

Status: Open.

#657 In bactopia/bactopia;

· JaneZheng-0406 opened on Apr 27, 2026

[bactopia-tool] - StaphSCAN - Staphylococcus aureus specific tool

add-bactopia-tool

done

Status: Open.

#656 In bactopia/bactopia;

· riccabolla opened on Apr 25, 2026