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Update config.yaml #142

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Update config.yaml #142

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13 changes: 8 additions & 5 deletions workflow/slurm/config.yaml
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Original file line number Diff line number Diff line change
@@ -1,19 +1,22 @@
cluster:
"sbatch
--partition={resources.partition}
--cpus-per-task={threads}
--cpus-per-task={resources.threads}
--mem={resources.mem_mb}
--job-name=smk-{rule}
--gres=gpu:{resources.gpu}
--output=logs/%j" # you can update where the logs will be saved (absolute path, or relative to /.../sopa/workflow)
--time={resources.time}
--output=logs/{rule}_%j.log" # you can update where the logs will be saved (absolute path, or relative to /.../sopa/workflow)
default-resources:
- partition=shortq
- mem_mb=32000
- partition=shortq # use the partition/queue name on your cluster
- mem_mb=15000
- gpu=0
- threads=8
- time="30:00:00"
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@quentinblampey quentinblampey Oct 24, 2024 •
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Minor comment: this might be something that doesn't fit well for all users (mostly the "time" line). I think this is something that the user should add if needed. Or maybe this can be added as a comment, and any user can remove the comment if needed.
WDYT?

restart-times: 0
max-jobs-per-second: 100
max-status-checks-per-second: 1
local-cores: 1
local-cores: 200
latency-wait: 60
jobs: 50
keep-going: True
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