Issues

• Specify branch for retrieving snakemake repository

  enhancement
  blekhmanlab/compendium#21 · Filter by author rabdill opened on Aug 12, 2025

• Accession list parsing does not accommodate EOF newline char

  bug
  blekhmanlab/compendium#20 · Filter by author rabdill opened on Aug 6, 2025

• Accommodate multiple taxa in database and workflow

  enhancement
  Feature

  blekhmanlab/compendium#18 · Filter by author rabdill opened on Feb 12, 2025 · 1.0: Publication
  

• Manager doesn't detect when pipeline errors crashed snakemake

  blekhmanlab/compendium#14 · Filter by author rabdill opened on Jan 17, 2023 · 1.0: Publication

• Add ability to restart a failed project as single-end

  blekhmanlab/compendium#13 · Filter by author rabdill opened on Jan 13, 2023 · 1.0: Publication

• Add ability to restart a failed project with matchids option

  blekhmanlab/compendium#12 · Filter by author rabdill opened on Jan 13, 2023 · 1.0: Publication

• Automatic submission of projects miscounts restarted projects

  blekhmanlab/compendium#11 · Filter by author rabdill opened on Jan 12, 2023 · 1.0: Publication

• When user requests project status, it should include info from DB

  blekhmanlab/compendium#10 · Filter by author rabdill opened on Jan 12, 2023 · 1.0: Publication

• Checking status of re-run jobs overestimates progress

  blekhmanlab/compendium#9 · Filter by author rabdill opened on Jan 10, 2023 · 1.0: Publication

• Restructure project

  blekhmanlab/compendium#8 · Filter by author rabdill opened on Jan 9, 2023 · 1.0: Publication

• Pipeline stalls when prefetch can't reach a sample

  Bug

  blekhmanlab/compendium#5 · Filter by author rabdill opened on Jan 8, 2023 · 1.0: Publication
  4

• Add testing

  blekhmanlab/compendium#4 · Filter by author rabdill opened on Dec 21, 2022 · 1.0: Publication

• Convert to CLI tool

  blekhmanlab/compendium#1 · Filter by author rabdill opened on Dec 20, 2022 · 1.0: Publication
  1