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microbiomedata / nmdc_automation

Prototype automation
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Update workflows to latest versions #199

Closed scanon closed 1 month ago

scanon commented 3 months ago

Per @aclum

MAGs should use version v1.3.3 Annotation should use version v1.1.0

Also add the assembly file from *_contigs.fna file with a data_object_type of 'Assembly Contigs' as an output file generated by MetagenomeAnnotationActivity

scanon commented 3 months ago

Test with nmdc:omprc-13-nssdcy07

aclum commented 3 months ago

MAG version v1.3.3 has the fixes Shane wanted for the low quality bins.

overlapping with https://github.com/microbiomedata/nmdc_automation/issues/191

ssarrafan commented 2 months ago

@scanon @aclum what's the status of this?

aclum commented 2 months ago

MAGs is blocked on https://github.com/microbiomedata/metaMAGs/issues/37 for annotation version v1.1.0 we have results in mongo dev, Shane was planning on updating the prod image but I don't see any results from v1.1.0 in yet.

aclum commented 2 months ago

Duplicates https://github.com/microbiomedata/nmdc_automation/issues/107 and https://github.com/microbiomedata/nmdc_automation/issues/191 but leaving all 3 open since each has different information.

ssarrafan commented 2 months ago

Duplicates #107 and #191 but leaving all 3 open since each has different information.

So are all 3 active?

aclum commented 1 month ago

https://github.com/microbiomedata/nmdc_automation/issues/191 is resolved.

aclum commented 1 month ago

Closing this as related tickets are resolved.