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switch from modules to containers entirely #5

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kelly-sovacool opened this issue Feb 26, 2024 · 1 comment
Open

switch from modules to containers entirely #5

kelly-sovacool opened this issue Feb 26, 2024 · 1 comment
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biowulf deprecates module versions over time, which breaks our pipelines. switching to containers will make this pipeline more robust.
@kelly-sovacool kelly-sovacool self-assigned this Mar 28, 2024
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We're already using a container for the TOBIAS rules, so this should be fairly straightforward.

CCBR_tobias/config/config.yaml

Lines 19 to 20 in 94784d8

containers:
tobias: "docker://nciccbr/ccbr_tobias:v2"

CCBR_tobias/tobias.snakefile

Line 186 in 94784d8

container: CONTAINERS["tobias"]

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