Issues

• Add shared pipeline logging/state-marker bash library for ASPEN/CARLISLE

  CCBR/Tools#230 · Filter by author kopardev opened on Sep 17, 2026

• Link Checker Report

  automated issuereport
  CCBR/Tools#226 · Filter by author github-actions opened on Sep 5, 2026

• Link Checker Report

  automated issuereport
  CCBR/Tools#214 · Filter by author github-actions opened on Aug 5, 2026

• support setting nxf env vars on the fly

  CCBR/Tools#212 · Filter by author kelly-sovacool opened on Jul 17, 2026 · 2026-09
  

• install xavier's python deps

  bug
  CCBR/Tools#209 · Filter by author kelly-sovacool opened on Jul 8, 2026

• ensure correct mamba env is used for installation

  bug
  CCBR/Tools#208 · Filter by author kelly-sovacool opened on Jul 8, 2026

• Link Checker Report

  automated issuereport
  CCBR/Tools#207 · Filter by author github-actions opened on Jul 5, 2026

• add a check to install script -- make sure python bin is under /data/CCBR_Pipeliner

  bug
  CCBR/Tools#205 · Filter by author kelly-sovacool opened on Jul 1, 2026 · 2026-07
  

• install cmd needs to use git ssh on biowulf

  bug
  CCBR/Tools#201 · Filter by author kelly-sovacool opened on Jun 16, 2026 · 2026-07
  1

  

• ModuleNotFoundError: No module named 'rpds.rpds' error

  bug
  CCBR/Tools#199 · Filter by author kopardev opened on Jun 12, 2026
  2

  

• ccbr_tools install on helix: 'Cluster' object has no attribute 'GROUP'

  bug
  CCBR/Tools#179 · Filter by author kelly-sovacool opened on May 12, 2026

• jobby: report queued time

  enhancement
  CCBR/Tools#159 · Filter by author kelly-sovacool opened on Mar 12, 2026
  

• snakemake init & run commands

  CCBR/Tools#130 · Filter by author kelly-sovacool opened on Dec 1, 2025 · 2026-07
  

• create OnComplete script for snakemake pipelines

  CCBR/Tools#121 · Filter by author kelly-sovacool opened on Oct 1, 2025 · 2026-07
  

• container image caching (like renee cache) for nextflow & snakemake pipelines

  enhancement
  CCBR/Tools#17 · Filter by author kelly-sovacool opened on Oct 25, 2024

• add helper for singularity bind paths

  enhancement
  CCBR/Tools#16 · Filter by author kelly-sovacool opened on Oct 10, 2024
  

• spooker: add hpc platform to metadata

  enhancement
  CCBR/Tools#14 · Filter by author kelly-sovacool opened on Sep 26, 2024

• jobby: no path to std_err for jobs in FRCE

  bug
  CCBR/Tools#4 · Filter by author kelly-sovacool opened on May 23, 2024