microbiomedata / mg_annotation

Metagenome Annotation Workflow
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add scaffold lineage file to wdl outputs #19

Closed aclum closed 1 year ago

aclum commented 1 year ago

Marcel next week should be providing an updated version that outputs a lineage file. The wdl workflow should be updated to have this as an output and the runtime automation should make a data object for this file. A file enum,Lineage sdb, has been made already.

Blocked on updates from Marcel and runtime API being updated to schema version 7.7

aclum commented 1 year ago

@Michal-Babins This version is available in this branch https://code.jgi.doe.gov/img/img-pipelines/img-annotation-pipeline/-/tree/scaffold-lineage

Michal-Babins commented 1 year ago

@aclum updated the docker image sha

ssarrafan commented 1 year ago

@aclum @Michal-Babins what's the status of this issue? any updates?

Michal-Babins commented 1 year ago

Scaffold lineage file has been added with the mg_annotation version 5.2.0. Scaffold lineage tsv accepted now as input to mags.