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fix: batch submission now does not require user to write to script first #199

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merged 5 commits into from
Apr 10, 2024

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rhysnewell
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@rhysnewell rhysnewell requested review from wwood and AroneyS April 8, 2024 03:52
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@AroneyS
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AroneyS commented Apr 8, 2024

Can you add a batch test to test_integration? Could just use the short and the long-read recovery.

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AroneyS commented Apr 10, 2024

The new test runs for me until rule singlem_appraise. I get an error from smafa Unsupported db file version: 1. This version of smafa only works with version 2 databases. I guess its a version mismatch somehow. I'm using the SingleM version v0.16.0 and the S3.2.1 metapackage.
Any ideas @wwood?

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wwood commented Apr 10, 2024

That is likely because you've installed a new version of smafa using cargo install, and that is on the PATH first. So an issue specific to you.

Neither smafa nor singlem has yet been released to handle v2 smafa databases yet - this will come as a concerted thing in singlem 0.18.0, which I'm working on.

@AroneyS AroneyS self-requested a review April 10, 2024 05:27
@rhysnewell rhysnewell merged commit bf90668 into dev Apr 10, 2024
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3 participants