Lab 09: Additional topics

Advanced Topics in Nextflow

• doing more with labels
  • process directives such as cpus/maxforks/etc.
  • saving containers outside of module files
• profiles
• importing configurations
• executors
• emit names for output
• groovy script before command line
• resume feature
• running pipelines in sbatch (bin)
• calling python and similar scripts
• subworkflows

Advanced Topics in Containers

• adding new layers to a container
• fixing security issues in a container
• updating a container in an interactive session