Issues

• get Test::Most symbols directly from Test::Most instead of Bio::Root::Test

  bioperl/bioperl-live#409 · Filter by author carandraug opened on Jun 26, 2026

• AI contribution policy?

  bioperl/bioperl-live#407 · Filter by author cjfields opened on Mar 4, 2026
  16

  

• Optimization for function Bio::PrimarySeqI::_find_orfs_nucleotide()

  bioperl/bioperl-live#406 · Filter by author kprokopiou opened on Dec 6, 2025

• Bio::PrimarySeq->subseq() when called with -replace_with doesn't update length

  bioperl/bioperl-live#405 · Filter by author kprokopiou opened on Nov 24, 2025

• Bio::SeqIO::fastq can't handle FASTQ with empty sequence and quality lines

  bioperl/bioperl-live#400 · Filter by author ntakebay opened on May 21, 2025
  3

• splitting out Bio::OntologyIO::InterProParser into separate distribution

  bioperl/bioperl-live#399 · Filter by author carandraug opened on Apr 10, 2025
  7

• removing Bio::Ontology::SimpleGOEngine::GraphAdaptor

  bioperl/bioperl-live#398 · Filter by author carandraug opened on Apr 7, 2025
  1

• New warnings with perl 5.41.x

  bioperl/bioperl-live#394 · Filter by author eserte opened on Oct 18, 2024
  5

• Could Bio::DB::Fasta support gzipped FASTA?

  bioperl/bioperl-live#393 · Filter by author Tong-Chen opened on Sep 10, 2024
  1

• Bio::Tools::GFF add extra empty attribute problematic

  bioperl/bioperl-live#388 · Filter by author Juke34 opened on Apr 4, 2024
  1

• Suggestion: create a CODEOWNERS file to connect modules with maintainers

  bioperl/bioperl-live#377 · Filter by author zmughal opened on Apr 19, 2023
  2

• Minimum Perl version should be set to v5.8

  bioperl/bioperl-live#375 · Filter by author zmughal opened on Apr 15, 2023 · 1.7.3
  7

• Bio::Tools::GFF doesn't write eukaryotic multi-exon genes correctly

  bioperl/bioperl-live#369 · Filter by author krobison13 opened on Apr 7, 2022
  7

• make a CITATION.cff?

  bioperl/bioperl-live#368 · Filter by author hyphaltip opened on Apr 7, 2022
  1

• Taxonomy.t Tests Fails for Bio::Perl::

  bioperl/bioperl-live#364 · Filter by author joshuakirsch opened on Dec 14, 2021
  1

• Bio::DB:Taxonomy won't connect to NCBI

  bioperl/bioperl-live#363 · Filter by author kastevens opened on Aug 20, 2021
  1

• t/SeqFeature/Generic.t failures

  bioperl/bioperl-live#362 · Filter by author eserte opened on Jul 17, 2021

• problem with installing Bio::DB::Fasta module

  bioperl/bioperl-live#360 · Filter by author shaghayeghsoudi opened on Jul 2, 2021
  3

• Possible precedence issue with control flow operator at Bio/DB/IndexedBase.pm line 805

  Blocker
  bioperl/bioperl-live#355 · Filter by author hyphaltip opened on Feb 5, 2021
  3

• db.h dependency

  bioperl/bioperl-live#350 · Filter by author lskatz opened on Nov 3, 2020
  2

• Sequin table format

  bioperl/bioperl-live#349 · Filter by author lskatz opened on Oct 31, 2020
  7

• Each line of the file must be less than 65,536 characters

  bioperl/bioperl-live#345 · Filter by author Juke34 opened on Jul 1, 2020
  9

• Installation of Bio::Tree::Tree fails under perl-5.30.3

  bioperl/bioperl-live#344 · Filter by author MartGro opened on Jun 4, 2020
  3

• Error thrown in OBO file parsing

  bioperl/bioperl-live#341 · Filter by author AndyMenzies opened on Apr 28, 2020
  2

• EXCEPTION: Bio::Root::Exception Inappropriate ioctl for device

  bioperl/bioperl-live#340 · Filter by author moldach opened on Apr 23, 2020
  5