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can only allocate 200GB memory for kraken_build

Status: Open.

#43 In Gibbons-Lab/medi;

· ADGM opened on Jun 1, 2026

Question: Does MEDI operate on a per-sample or per-dataset basis?

Status: Open.

#42 In Gibbons-Lab/medi;

· yenkaiC opened on Jun 1, 2026

NCBI Will Retire rsync Support for FTP Downloads on June 1, 2026

Status: Open.

#41 In Gibbons-Lab/medi;

· mruehlemann opened on May 20, 2026

Kraken Database Size

Status: Open.

#40 In Gibbons-Lab/medi;

· asommer101-dot opened on Apr 20, 2026

[feature] Evaluate sharded hashing through kun-peng

kraken2Issue related to bugs/instabilities in Kraken2.Issue related to bugs/instabilities in Kraken2.

Status: Open.

#38 In Gibbons-Lab/medi;

· cdiener opened on Jan 22, 2026

Stuck at step "Building the hashes" for 10 days

Status: Open.

#35 In Gibbons-Lab/medi;

· wanghui2025 opened on Jul 16, 2025

Food_abundance.csv output inconsistencies

Status: Open.

#34 In Gibbons-Lab/medi;

· alexvcrr opened on Jun 9, 2025

Medi DB file path and correct configuration

Status: Open.

#32 In Gibbons-Lab/medi;

· somakchowdhury opened on May 1, 2025

Kraken confidence threshold?

Status: Open.

#31 In Gibbons-Lab/medi;

· miaumc opened on Apr 25, 2025

Few reads are classified by Medi during kraken2 step

downloadIssues related to downloading from NCBI.Issues related to downloading from NCBI.

kraken2Issue related to bugs/instabilities in Kraken2.Issue related to bugs/instabilities in Kraken2.

Status: Open.

#28 In Gibbons-Lab/medi;

· richrr opened on Apr 15, 2025

Removal of the superkingdom rank in NCBI taxonomy breaks MEDI

ncbiIssues related to NCBI including downloading, broken links, or broken DBs.Issues related to NCBI including downloading, broken links, or broken DBs.

Status: Open.

#27 In Gibbons-Lab/medi;

· nayeon1994 opened on Apr 6, 2025

Build suggestions etc

documentationImprovements or additions to documentationImprovements or additions to documentation

Status: Open.

#24 In Gibbons-Lab/medi;

· miraep8 opened on Feb 28, 2025