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classify_single: parameterize taxa to deplete #536

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merged 4 commits into from
May 3, 2024
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@dpark01 dpark01 commented May 3, 2024

The modern WDL spec has clarified that the end user can never override assignments to task inputs made in workflow code. This means that classify_single's two invocations of the metagenomics.filter_bam_to_taxa task (with different default input values for each call) has inputs that are not user-editable as we intended. The only workaround appears to be to promote these task inputs to boilerplate workflow inputs that have default values (and are overridable by the end user).

@dpark01 dpark01 requested a review from tomkinsc May 3, 2024 17:52
@dpark01 dpark01 self-assigned this May 3, 2024
@dpark01 dpark01 enabled auto-merge May 3, 2024 18:46
@dpark01 dpark01 added this pull request to the merge queue May 3, 2024
Merged via the queue into master with commit 4362b07 May 3, 2024
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@dpark01 dpark01 deleted the dp-classify branch July 15, 2024 14:45
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