Search results

bcbio-gff: pkg_resources deprecated

Status: Open.

#148 In chapmanb/bcbb;

· 0-wiz-0 opened on Feb 17, 2026

GFF.parse modifies input order of base_dict

Status: Open.

#144 In chapmanb/bcbb;

· percyfal opened on Mar 28, 2024

Warning in GFFParser: BiopythonDeprecationWarning: UnknownSeq(length) is deprecated; please use Seq(None, length) instead.

Status: Open.

#143 In chapmanb/bcbb;

· victorlin opened on Jan 29, 2024

Error in GFFParser: AttributeError: module 'Bio.SeqFeature' has no attribute 'SimpleLocation'

Status: Open.

#142 In chapmanb/bcbb;

· victorlin opened on Jan 29, 2024

Error in GFFParser: UnknownSeq is deprecated in biopython 1.81

Status: Open.

#136 In chapmanb/bcbb;

· Kmassau opened on Feb 13, 2023

glimmergff_to_proteins.py / Alternative Codon Table

Status: Open.

#132 In chapmanb/bcbb;

· zeyak opened on Sep 18, 2020

glimmergff_to_proteins.py / Reordering Fasta file

Status: Open.

#131 In chapmanb/bcbb;

· zeyak opened on Sep 18, 2020

IndexError with NCBI gff

Status: Open.

#128 In chapmanb/bcbb;

· MrTomRod opened on Dec 5, 2019

Did not find remapped ID location:

Status: Open.

#118 In chapmanb/bcbb;

· fbeghini opened on Jul 10, 2018

ValueError: need more than 0 values to unpack

Status: Open.

#115 In chapmanb/bcbb;

· zhengboying opened on Mar 15, 2018

Regarding gff2_to_gff3.py script

Status: Open.

#111 In chapmanb/bcbb;

· jeffinrockey opened on Sep 21, 2016

GFF3 parent / id remapping issue.

Status: Open.

#109 In chapmanb/bcbb;

· hexylena opened on May 26, 2016