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ingest/nextclade: Use all available workflow cores
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Chatter on Slack regarding workflow runtimes made me realize that since
we only run a single Nextclade job now, we no longer need to put a hard
limit on the threads.

<https://bedfordlab.slack.com/archives/C01LCTT7JNN/p1729629899871479?thread_ts=1729629155.721859&cid=C01LCTT7JNN>
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joverlee521 committed Oct 22, 2024
1 parent 42c1040 commit dab86ff
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2 changes: 1 addition & 1 deletion ingest/rules/nextclade.smk
Original file line number Diff line number Diff line change
Expand Up @@ -30,7 +30,7 @@ rule run_nextclade:
# The lambda is used to deactivate automatic wildcard expansion.
# https://github.com/snakemake/snakemake/blob/384d0066c512b0429719085f2cf886fdb97fd80a/snakemake/rules.py#L997-L1000
translations=lambda w: "results/translations/{cds}.fasta",
threads: 4
threads: workflow.cores
log:
"logs/run_nextclade.txt",
benchmark:
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