Skip to content
GitLab
Projects Groups Snippets
  • /
  • Help
    • Help
    • Support
    • Community forum
    • Submit feedback
  • Sign in
  • P PathoFact
  • Project information
    • Project information
    • Activity
    • Labels
    • Members
  • Repository
    • Repository
    • Files
    • Commits
    • Branches
    • Tags
    • Contributors
    • Graph
    • Compare
    • Locked Files
  • Issues 29
    • Issues 29
    • List
    • Boards
    • Service Desk
    • Milestones
    • Requirements
  • Merge requests 0
    • Merge requests 0
  • CI/CD
    • CI/CD
    • Pipelines
    • Jobs
    • Schedules
    • Test Cases
  • Deployments
    • Deployments
    • Environments
    • Releases
  • Packages and registries
    • Packages and registries
    • Package Registry
    • Container Registry
    • Infrastructure Registry
  • Monitor
    • Monitor
    • Incidents
  • Analytics
    • Analytics
    • Value stream
    • CI/CD
    • Code review
    • Insights
    • Issue
    • Repository
  • Wiki
    • Wiki
  • External wiki
    • External wiki
  • Snippets
    • Snippets
  • Activity
  • Graph
  • Create a new issue
  • Jobs
  • Commits
  • Issue Boards
Collapse sidebar
  • Laura Denies
  • PathoFact
  • Issues
  • #83
Closed
Open
Issue created Oct 30, 2021 by vkisand@vkisand

Finished NCBI genomes and PathoFact

Hi, I have used the PathoFact successfully on my onw WGSs' containing several contigs. However, now I wanted to test it on finished genomes of similar strains downloaded from NCBI. Whitespaces are deleted from names, but "complete" run freezes, I would say rather randomly. Re-runs may continue a bit but still never finish. "Vir" or "Tox" were finished, but "AMR" froze too Any ideas? I increased mem setting a bit mem: normal_mem_per_core_gb: "4G" big_mem_cores: 12 big_mem_per_core_gb: "64G" cheers, /v

Assignee
Assign to
Time tracking