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microbiomedata / ReadbasedAnalysis

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Update to V1 #19 #22

Closed vlilanl closed 3 months ago

vlilanl commented 3 months ago

Updated wdls to Version 1.0 and databases to correct versions. labels.json and submit_curl.sh are for testing using Condor.

Jaws run_id: 79138

aclum commented 3 months ago

@vlilanl Please backmerged this branch with what is in master, the databases have been updated for gottcha2

vlilanl commented 3 months ago

@aclum I backmerged with the main, and I tested on jaws with the updates. Jaws id: 79753

vlilanl commented 3 months ago

@aclum I added in the verifypaired, and the comments above. Is there a dataset that you would want me to test that on?

For the current dataset, I had a successful run with jaws id: 79950.

aclum commented 3 months ago

@vlilanl FWIW you can use this same test data /global/cfs/cdirs/m3408/aim2/dev/vli-testing/ReadsQC/test/incorrect_pairs*.fastq.gz to test a dataset that should fail at stage_interleave.