sunbeam-labs/sunbeam

Issues

• AttributeError: module 'pulp' has no attribute 'list_solvers'

  #489 opened a month ago by arpit20328
  2

• Make updates to work with storage plugins

  #462 opened a month ago by Ulthran
  0

• Pin files solving to empty envs

  #497 opened 2 months ago by Ulthran
  0

• Check nextera adapter file

  #493 opened 2 months ago by Ulthran
  0

• Add universal get_extension_path

  #490 opened 2 months ago by Ulthran
  0

• Check that extensions are up to date

  #495 opened 2 months ago by Ulthran
  0

• Better automatic resource allocation

  #492 opened 3 months ago by Ulthran
  0

• Add envmodules for rules that support it

  #446 opened 4 months ago by Ulthran
  0

• Fix filter_reads and remove_low_complexity memory inefficiency

  #485 opened 5 months ago by Ulthran
  0

• Allow for empty input fastqs to run without error

  #488 opened 5 months ago by Ulthran
  0

• Add `--version` arg to `sunbeam extend`

  #486 opened 6 months ago by Ulthran
  0

• "Bus error" -- issue with snakemake or conda?

  #410 opened 6 months ago by levlitichev
  4

• Remove `aggregate_reads` step in decontam

  #484 opened 6 months ago by Ulthran
  0

• Remove cutadapt

  #483 opened 6 months ago by Ulthran
  0

• Automate generating tar and attaching to release

  #481 opened 6 months ago by Ulthran
  0

• 4.5.2 Release

  #472 opened 6 months ago by Ulthran
  0

• Include containerized package versions in release notes

  #468 opened 6 months ago by Ulthran
  0

• Automate docker sunbeam version

  #469 opened 6 months ago by Ulthran
  0

• Make updates to work with AWS Batch

  #467 opened 6 months ago by Ulthran
  0

• Clean out old extensions

  #466 opened 6 months ago by Ulthran
  0

• More informative error when proper executor isn't installed

  #448 opened 8 months ago by Ulthran
  1

• virtual linux-parellel

  #443 opened 6 months ago by mabouelk
  9

• Error in rule aggregate_results

  #423 opened 6 months ago by gooodle
  8

• Handle empty config filepaths better

  #464 opened 6 months ago by Ulthran
  0

• Fix docker tagging

  #460 opened 6 months ago by Ulthran
  0

• Remove slurm_executor hack

  #457 opened 7 months ago by Ulthran
  0

• Improve logging consistency

  #459 opened 7 months ago by Ulthran
  0

• Restructure containerization

  #455 opened 7 months ago by Ulthran
  0

• Use --cluster-status to properly end cluster workflows

  #425 opened 7 months ago by Ulthran
  1

• Slurm executor still not getting job name

  #453 opened 7 months ago by Ulthran
  0

• Running install.sh with source appears to crash bash's autocomplete

  #450 opened 8 months ago by Ulthran
  0

• Increase unit testing and split into separate workflow

  #442 opened 8 months ago by Ulthran
  0

• Update to snakemake v8

  #440 opened 8 months ago by Ulthran
  0

• Allow extension include and exclude in sunbeam run

  #444 opened 9 months ago by Ulthran
  0

• Replace config-based resource allocation with functional

  #439 opened 9 months ago by Ulthran
  0

• Install update all fails with weird paths

  #420 opened 9 months ago by Ulthran
  1

• Fix snakemake version

  #437 opened 9 months ago by Ulthran
  0

• speed up remove_low_complexity

  #432 opened 9 months ago by naomiwilson
  0

• How to provide empty cutadapt_opts?

  #427 opened 10 months ago by levlitichev
  2

• Replace komplexity with heyfastq

  #426 opened 10 months ago by Ulthran
  0

• Improve benchmarking reports to include relevant info

  #421 opened a year ago by Ulthran
  0

• tmpdir not reassigning in fastqc in rule_fastqc

  #424 opened a year ago by benyoung93
  8

• Prep for v4.1.0 release

  #418 opened a year ago by Ulthran
  0

• Get rid of warning/error summary

  #413 opened a year ago by Ulthran
  0

• Make Config obj instead of config.py funcs

  #417 opened a year ago by Ulthran
  0

• Installation failed

  #415 opened a year ago by KilKa9
  4

• ReadTheDocs python.system_packages deprecated

  #411 opened a year ago by Ulthran
  0

• Unable to load config

  #409 opened a year ago by levlitichev
  2

• test_mapping frozen

  #404 opened a year ago by rpalcab
  1

• Issue Installing on HPC

  #403 opened a year ago by roshankern
  3