Added anadama2 and WDL commands and tutorials#2
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I don't think you meant to include this, did you? It needs to be at the top level if so
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Agreed. I have deleted the .github directory in the new commit.
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Guessing this is identical to the anadama tutorial that already exists? We probably don't need to duplicate it here. If you want to include it - maybe do it as a submodule?
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Agreed. This is a redundant README.md file. Removed it from the latest commit.
| # create output dir if it doesn’t exist | ||
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| biobakery_workflows wmgx \ |
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This is just running the anadama-constructed workflow. I thought the idea was to show how we'd define the workflow using WDL (so eg having kneaddata, metaphlan, and humann steps)?
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Agreed. I have updated the commit to include WDL workflow-kneaddata + metaphlan + humann steps rather than just the one biobakery_workflows command. I will test out the changes in the VM next.
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Hi @kescobo,
I added anadama2 and WDL commands and tutorials in this PR branch, however I still need to double check everything in the VM before tomorrow and take a snapshot if needed.