Issues

• produce() writes to root when output.dir is set to "./"

  ssadedin/bpipe#299 · Filter by author olliecheng opened on Apr 21, 2026
  2

• Problem with picard CollectHsMetrics - bpipe expecting an output file that was not defined as such

  ssadedin/bpipe#295 · Filter by author deyanyosifov opened on Mar 3, 2025
  1

• Misleading INFO message.

  ssadedin/bpipe#294 · Filter by author drtconway opened on Feb 6, 2025
  5

• bpipe --help returns status code = 1

  ssadedin/bpipe#292 · Filter by author martin-g opened on Jul 2, 2024

• Null PID reference

  ssadedin/bpipe#290 · Filter by author kevinkovalchik opened on May 23, 2024
  2

• Activate conda environment and execute command

  ssadedin/bpipe#285 · Filter by author nikhilshinde0909 opened on Jun 10, 2023

• Skip command start for "my command" due to probe mode

  ssadedin/bpipe#284 · Filter by author L-of-IOS opened on May 23, 2023
  1

• bpipe via Conda throws java.lang.NoClassDefFoundError

  ssadedin/bpipe#283 · Filter by author marvel64 opened on Mar 22, 2023

• A fixed error reappeared

  ssadedin/bpipe#282 · Filter by author L-of-IOS opened on Mar 6, 2023
  2

• Installing error in Bpipe on M1 Mac

  ssadedin/bpipe#281 · Filter by author Mercilena opened on Feb 12, 2023
  2

• slurm scheduler not working with slurm-wlm-torque qstat

  ssadedin/bpipe#280 · Filter by author nemartins opened on Jan 3, 2023
  5

• Significant number of critical vulnerabilities reported in dependencies

  ssadedin/bpipe#273 · Filter by author slagelwa opened on Jun 20, 2022
  3

• Allow containers to have different paths to the external ones

  ssadedin/bpipe#270 · Filter by author drtconway opened on Feb 16, 2021

• Conditional execution of steps

  ssadedin/bpipe#269 · Filter by author bistace opened on Feb 10, 2021

• bpipe how to get the output path when the -d was defined

  ssadedin/bpipe#265 · Filter by author Feng-Zhang opened on Dec 12, 2020

• bpipe: line 762: 63827 Killed nohup bash -c "$LAUNCH_CMD" > /dev/null 2>&1

  ssadedin/bpipe#263 · Filter by author suyanan opened on Oct 12, 2020
  1

• previous working version of bpipe script did not work in bpipe 0.9.9.8

  ssadedin/bpipe#262 · Filter by author yuanbinru opened on Mar 4, 2020

• transform function does not adapt stage naming properly

  ssadedin/bpipe#260 · Filter by author gdevenyi opened on Sep 10, 2019

• Collecting files with a specific extension also collects folders matching the extension

  ssadedin/bpipe#258 · Filter by author ankebusch opened on Aug 7, 2019

• forward input is not seen by next stage after a parallel branch

  ssadedin/bpipe#257 · Filter by author ssayols opened on Aug 7, 2019

• Unable to send notification

  ssadedin/bpipe#252 · Filter by author zwbao opened on May 29, 2019

• Incorrect file names

  ssadedin/bpipe#251 · Filter by author tirohia opened on May 19, 2019
  2

• @params.txt parsing is various types of broken

  ssadedin/bpipe#250 · Filter by author gdevenyi opened on Apr 18, 2019
  14

• Unable to customize resources for each step using slurm

  ssadedin/bpipe#245 · Filter by author tirohia opened on Oct 19, 2018
  13

• Overzealous shutdown proceedure.

  ssadedin/bpipe#244 · Filter by author tirohia opened on Oct 14, 2018
  4