rbbt-util 5.30.13 → 5.31.0

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@@ -1,48 +0,0 @@
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- #!/usr/bin/env ruby
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-
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- require 'rbbt/util/simpleopt'
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- require 'rbbt/workflow'
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- require 'rbbt/workflow/usage'
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- require 'rbbt/hpc'
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- require 'rbbt/hpc/orchestrate'
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- require 'time'
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-
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- $slurm_options = SOPT.get <<EOF
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- -dr--dry_run Print only the template
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- -cj--clean_job Clean job
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- --drbbt* Use development version of rbbt
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- -sing--singularity Use Singularity
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- -ug--user_group* Use alternative user group for group project directory
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- -c--contain* Contain in directory (using Singularity)
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- -s--sync* Contain in directory and sync jobs
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- -e--exclusive Make exclusive use of the node
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- -hm--highmem Make use of highmem cores
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- -wc--wipe_container* Wipe the jobs from the contain directory
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- -CS--contain_and_sync Contain and sync to default locations
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- -ci--copy_image When using a container directory, copy image there
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- -t--tail Tail the logs
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- -SPERF--SLURM_procpath* Save Procpath performance for SLURM job; specify only options
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- -q--queue* Queue
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- -t--task_cpus* Tasks
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- -W--workflows* Additional workflows
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- -tm--time* Time
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- -OR--orchestration_rules* Orchestration rules
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- -rmb--remove_slurm_basedir Remove the SLURM working directory (command, STDIN, exit status, ...)
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- EOF
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-
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- class Step
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- def run(*args)
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- if done?
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- self.load
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- else
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- begin
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- Log.debug "Issuing SLURM job for #{self.path}"
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- HPC::SLURM.orchestrate_job(self, SOPT::GOT_OPTIONS.merge($slurm_options))
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- rescue HPC::SBATCH
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- end
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- end
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- end
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- end
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-
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- ARGV.concat ["-W", $slurm_options[:workflows], '--detach'] if $slurm_options[:workflows]
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- load Rbbt.share.rbbt_commands.workflow.task.find
@@ -1,46 +0,0 @@
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- #!/usr/bin/env ruby
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-
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- require 'rbbt/util/simpleopt'
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- require 'rbbt/workflow'
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- require 'rbbt/workflow/usage'
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- require 'rbbt/hpc'
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- require 'time'
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-
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- $slurm_options = SOPT.get <<EOF
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- -dr--dry_run Print only the template
11
- -cj--clean_job Clean job
12
- --drbbt* Use development version of rbbt
13
- -sing--singularity Use Singularity
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- -ug--user_group* Use alternative user group for group project directory
15
- -c--contain* Contain in directory (using Singularity)
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- -s--sync* Contain in directory and sync jobs
17
- -e--exclusive Make exclusive use of the node
18
- -hm--highmem Make use of highmem cores
19
- -wc--wipe_container* Wipe the jobs from the contain directory
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- -CS--contain_and_sync Contain and sync to default locations
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- -ci--copy_image When using a container directory, copy image there
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- -t--tail Tail the logs
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- -SPERF--SLURM_procpath* Save Procpath performance for SLURM job; specify only options
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- -q--queue* Queue
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- -t--task_cpus* Tasks
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- -W--workflows* Additional workflows
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- -tm--time* Time
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- -rmb--remove_slurm_basedir Remove the SLURM working directory (command, STDIN, exit status, ...)
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- EOF
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-
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- class Step
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- def run(*args)
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- if done?
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- self.load
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- else
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- begin
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- Log.debug "Issuing SLURM job for #{self.path}"
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- HPC::SLURM.run_job(self, SOPT::GOT_OPTIONS.merge($slurm_options))
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- rescue HPC::SBATCH
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- end
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- end
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- end
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- end
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-
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- ARGV.concat ["-W", $slurm_options[:workflows]] if $slurm_options[:workflows]
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- load Rbbt.share.rbbt_commands.workflow.task.find