I am trying to run TOGA on the SGE cluster, which relies on nextflow. My cluster has some relatively specific cluster options (see clusterOptions, but the amount of memory needs to be passed into nextflow memory = "${_MEMORY_}G". I am unable to pass the memory command into clusterOptions (e.g., clusterOptions = { "-V -l h_vmem "${_MEMORY_}G" -V -P simpsonlab -l h_stack=32M -l h_rt=48:00:00" }. Do you know the syntax for this?
Hey!
I am trying to run TOGA on the SGE cluster, which relies on nextflow. My cluster has some relatively specific cluster options (see
clusterOptions
, but the amount of memory needs to be passed into nextflowmemory = "${_MEMORY_}G"
. I am unable to pass the memory command into clusterOptions (e.g.,clusterOptions = { "-V -l h_vmem "${_MEMORY_}G" -V -P simpsonlab -l h_stack=32M -l h_rt=48:00:00" }
. Do you know the syntax for this?Thank you Dustin