Issues

• Lineage extraction is very slow because HMM files are extracted in random order (root cause of #66)

  huangnengCSU/compleasm#68 · Filter by author Lucien-Piat opened on Aug 17, 2026
  1

• conda installed compleasm passes invalid keyword argument to argparse

  huangnengCSU/compleasm#65 · Filter by author diekhans opened on Jul 21, 2026
  3

• 2 small compleasm.py 0.2.8 changes for odb10 use to aid BRAKER4

  enhancement
  huangnengCSU/compleasm#64 · Filter by author jbh-cas opened on Jul 20, 2026
  3

• ValueError: too many values to unpack (expected 3)

  huangnengCSU/compleasm#61 · Filter by author xyloforce opened on Jun 8, 2026
  2

• Inconsistencies in compleasm run results based on sequence order in input fasta

  question
  huangnengCSU/compleasm#59 · Filter by author LaurieLecomte opened on Jan 13, 2026
  3

• failed to open/build the index

  huangnengCSU/compleasm#58 · Filter by author ali21049 opened on Dec 25, 2025
  1

• Discrepancy protein assessment compleasm vs BUSCO v5.8.3

  enhancement
  huangnengCSU/compleasm#53 · Filter by author desmodus1984 opened on Jul 19, 2025
  8

• Is it possible to prepare database manually instead of using compleasm download?

  huangnengCSU/compleasm#52 · Filter by author xiekunwhy opened on May 19, 2025
  2

• Can't find v0.2.7 on docker hub

  huangnengCSU/compleasm#51 · Filter by author jianghao0799 opened on May 16, 2025
  1

• HTTP Error 404 during compleasm download

  huangnengCSU/compleasm#50 · Filter by author brandonlind opened on Apr 28, 2025
  3

• KeyError 'mb_odb12' when running analysis with embryophyta_odb12 lineage

  huangnengCSU/compleasm#48 · Filter by author xzd100 opened on Apr 2, 2025
  3

• Version 0.2.7 breaks BUSCO download

  huangnengCSU/compleasm#47 · Filter by author zkstewart opened on Mar 30, 2025
  5

• Protein with hits in miniprot turn out to be genes absent from the genome

  huangnengCSU/compleasm#42 · Filter by author ValentinSorin opened on Dec 2, 2024
  3

• incorrect packaging in setup.py

  huangnengCSU/compleasm#41 · Filter by author boegel opened on Nov 12, 2024
  1

• For the evaluation of a very large genome, there is a significant difference between Compleasm and BUSCO

  huangnengCSU/compleasm#38 · Filter by author GLking123 opened on Jul 31, 2024

• compleasm protein mode finding multiple BUSCOs in same mRNA

  duplicate
  huangnengCSU/compleasm#34 · Filter by author jbh-cas opened on Apr 15, 2024

• Different duplicated genes of compleasm and BUSCO

  duplicate
  huangnengCSU/compleasm#33 · Filter by author shehongbing opened on Apr 12, 2024

• Feature request: BUSCO-formatted output

  enhancement
  huangnengCSU/compleasm#24 · Filter by author schorlton opened on Feb 14, 2024
  4

• compleasm output also cds nucleotide sequences for the final set of genes

  huangnengCSU/compleasm#19 · Filter by author estolle opened on Jan 5, 2024
  3

• Different stats for protein mode

  question
  huangnengCSU/compleasm#18 · Filter by author arslan9732 opened on Jan 3, 2024
  2

• compress hmmer output

  enhancement
  huangnengCSU/compleasm#17 · Filter by author dirkjanvw opened on Jan 3, 2024
  1

• Python regex syntax warning

  huangnengCSU/compleasm#16 · Filter by author aflaus opened on Dec 29, 2023

• Please, make Compleasm being able to use the second URL of BUSCO data

  enhancement
  huangnengCSU/compleasm#8 · Filter by author shelkmike opened on Jul 11, 2023
  4

• Does compleasm try to download something when run specifying lineage?

  enhancement
  huangnengCSU/compleasm#6 · Filter by author olekto opened on Jun 23, 2023
  11