Search results

Stuck at step "Building the hashes" for 10 days

Status: Open.

#35 In Gibbons-Lab/medi;

· Feanor-Silmarillion 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

Persistent error in database.nf

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

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

Status: Open.

#16 In Gibbons-Lab/medi;

· luhugerth opened on Dec 10, 2024

Missing Genome in matches.csv

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

Status: Open.

#15 In Gibbons-Lab/medi;

· ktmbiome opened on Dec 6, 2024

Is there a pre-built database available for download?

medi-dbIssues asking for a download of the MEDI DB.Issues asking for a download of the MEDI DB.

Status: Open.

#14 In Gibbons-Lab/medi;

· yejunbin opened on Oct 3, 2024

Curl error connection download_sequences

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

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

Status: Open.

#11 In Gibbons-Lab/medi;

· MarwanMaj opened on Jun 14, 2024

add_existing failed

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.

#10 In Gibbons-Lab/medi;

· jjoropezav opened on Apr 11, 2024