Issues

• diamond cluster cannot handle whitespace in output path

  bbuchfink/diamond#989 · Filter by author animainanis opened on Sep 22, 2026
  1

• cluster --reps and --out are not possible to combine as parameters in 2.2.6

  bbuchfink/diamond#980 · Filter by author hyphaltip opened on Sep 8, 2026
  2

• MCL clustering

  feature request
  bbuchfink/diamond#978 · Filter by author RocesV opened on Aug 17, 2026
  1

• Adding realign as a flag for DIAMOND protein clustering

  feature request
  bbuchfink/diamond#974 · Filter by author Kenman-22 opened on Jul 24, 2026
  1

• Slow Diamond alignment in GenEra with custom RefSeq database

  bbuchfink/diamond#973 · Filter by author 1596130380a-debug opened on Jul 21, 2026
  1

• Clarify --comp-based-stats values

  question
  bbuchfink/diamond#963 · Filter by author bernt-matthias opened on Jun 4, 2026
  2

• diamond view segmentation fault

  bbuchfink/diamond#962 · Filter by author bernt-matthias opened on Jun 2, 2026
  2

• Bug when clustering down to a single centroid

  bbuchfink/diamond#960 · Filter by author seanrjohnson opened on May 21, 2026
  5

• using > 2.1.25 with a blast database alias

  bbuchfink/diamond#958 · Filter by author DarrenObbard opened on May 19, 2026
  7

• Some of keywords of --outfmt 6 were revmoved in blastx

  bbuchfink/diamond#954 · Filter by author LilyAnderssonLee opened on May 6, 2026
  1

• --aln-out unusable with deepclust

  bbuchfink/diamond#950 · Filter by author vagkaratzas opened on Apr 16, 2026
  1

• Multi-node execution under SLURM does not progress as expected

  bbuchfink/diamond#949 · Filter by author hughuang12 opened on Apr 15, 2026
  6

• Setting memory limit (automatized)

  question
  bbuchfink/diamond#948 · Filter by author bernt-matthias opened on Mar 29, 2026
  2

• Feature request: realign read parquet files

  feature request
  bbuchfink/diamond#946 · Filter by author erin-r-butterfield opened on Mar 23, 2026
  1

• diamond cluster for nucleotides

  feature request
  bbuchfink/diamond#944 · Filter by author hildebra opened on Mar 17, 2026
  4

• diamond blastx hangs at "Computing alignments"

  bbuchfink/diamond#943 · Filter by author GermanRoev opened on Mar 12, 2026
  1

• --custom-matrix, floats and cluster

  feature request
  bbuchfink/diamond#942 · Filter by author RocesV opened on Feb 22, 2026
  4

• Builtin test failing with version 2.1.22

  bbuchfink/diamond#938 · Filter by author kbipinkumar opened on Feb 8, 2026
  11

• ORF prediction and reference database requirements for DIAMOND blastx

  question
  bbuchfink/diamond#937 · Filter by author namat3374-art opened on Jan 31, 2026
  1

• Bus error with Diamond v2.1.17 blastp (35M seqs/20G) against 349G NR database

  bbuchfink/diamond#936 · Filter by author baobao-bob opened on Jan 30, 2026
  2

• How to avoid multiple taxids per hit?

  question
  bbuchfink/diamond#935 · Filter by author yagdias opened on Jan 29, 2026
  2

• Diamond v2.1.19 unexpectedly lost alignments in the result

  bbuchfink/diamond#934 · Filter by author MengxueZHANG0120 opened on Jan 28, 2026
  2

• unable to run checkm2 as diamond blast fails.

  bbuchfink/diamond#933 · Filter by author safinaARK opened on Jan 26, 2026
  2

• unexpected hang for diamond=2.1.19

  bbuchfink/diamond#930 · Filter by author xinehc opened on Jan 23, 2026
  17

• Incorrect taxon filtering with taxon-exclude and BLAST DB

  bbuchfink/diamond#925 · Filter by author drs opened on Jan 19, 2026
  2