Snakemake-Profiles/lsf

Issues

• Make queue configurable per rule and attempt

  #60 opened 3 months ago by leoisl
  8

• Error submitting jobscript, bsub returns exit code 255

  #58 opened 3 months ago by W-L
  10

• BsubInvocation Error

  #63 opened 3 months ago by suhridbuddha
  2

• Does not work with Snakemake v8

  #62 opened 5 months ago by levlitichev
  3

• New maintainers needed

  #57 opened 2 years ago by mbhall88
  6

• Change `max_status_checks` to number >1

  #48 opened 2 years ago by kpj
  8

• Implement --cluster-cancel and --cluster-cancel-nargs

  #52 opened 2 years ago by leoisl
  0

• Cluster cancel doesn't work with current job ID

  #55 opened 2 years ago by mbhall88
  0

• Implement cluster sidecar

  #53 opened 2 years ago by leoisl
  3

• Error with Line 207 on lsf_status.py

  #54 opened 2 years ago by shalabhsuman
  1

• Add default mem_mb, disk_mb, tmpdir

  #50 opened 2 years ago by leoisl
  2

• resources: mem_mb= specification doesn't change memory requirement for LSF job submission

  #41 opened 3 years ago by ipstone
  6

• Add "mem_mb is per job or per thread?" to cookie-cutter

  #51 opened 2 years ago by leoisl
  0

• Remove `default_mem_mb` from the cookie-cutter

  #49 opened 2 years ago by leoisl
  2

• LSF profile is broken for newest 7.1.1 (2022-03-07) snakemake version

  #45 opened 2 years ago by leoisl
  4

• Complex shell quote escaping fails

  #39 opened 2 years ago by bricoletc
  0

• rule-specific config parsed as a dict, not as a list

  #44 opened 2 years ago by nickp60
  3

• `lsf.yaml` settings for specific rules are not used

  #42 opened 3 years ago by mfansler
  1

• Order of bsub non-standard arguments from lsf.yaml file

  #36 opened 4 years ago by NBMueller
  4

• Use workflow file name in log directory names

  #30 opened 4 years ago by bricoletc
  10

• How to submit each wildcard item as a job

  #31 opened 4 years ago by liutiming
  2

• Snakemake write wrong error to output file, jobs fail for no reason

  #32 opened 4 years ago by openpaul
  4

• Handling UNKWN and ZOMBI status

  #28 opened 4 years ago by leoisl
  5

• job was done but no log was created and no bjobs show up when the job is running

  #26 opened 4 years ago by liutiming
  15

• Unable to set queue per rule

  #27 opened 4 years ago by amakunin
  2

• Specifying non-standard rule-specific cluster resource settings

  #25 opened 4 years ago by kpj
  6

• Add member

  #12 opened 4 years ago by mbhall88
  0

• Group job ids are (now?) uuids

  #19 opened 4 years ago by funnell
  6

• Set up continuous integration

  #17 opened 4 years ago by mbhall88
  0

• Explicitly specifying memory units breaks the profile in older versions of LSF

  #18 opened 4 years ago by leoisl
  4

• Add end-to-end tests with a LSF container?

  #21 opened 4 years ago by leoisl
  3

• Is it possible to use "immediate-submit" and "job dependencies"?

  #10 opened 4 years ago by kimin0402
  7

• Allow configuration of per-rule cluster settings

  #7 opened 4 years ago by mbhall88
  5

• Ability to specify time limit (-W)

  #13 opened 4 years ago by funnell
  1

• Better naming of cluster log files

  #14 opened 4 years ago by mbhall88
  3

• Setup CI tests

  #1 opened 4 years ago by mbhall88
  1

• Singularity availability on LSF

  #4 opened 4 years ago by concatenize
  1

• Better handling when the default cluster log directory does not exists

  #2 opened 5 years ago by leoisl
  0