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Implement a "blr init" command #94
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While #92 deals with
blr run
, we should also have ablr init
command that initializes an analysis directory.Considerations:
Splitting up initialization and running in this way makes sense because we want to give the user the opportunity to configure the pipeline before running it. The
init
command can create a nicely commented template configuration in which it should be mostly self-explanatory what the settings do. This is easier to use than requiring the user to provide a configuration file from scratch.BLR will have different types of pipelines (e.g., whole-genome haplotyping, metagenomic analysis). How does the user choose which pipeline to run? We can have either different commands (
blr wgh
andblr meta
) or options (blr init --wgh
,blr init --meta
).The text was updated successfully, but these errors were encountered: