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dnanexus-archive / viral-ngs

viral-ngs
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update metrics script #73

Closed tomkinsc closed 5 years ago

tomkinsc commented 5 years ago

pass through --created_after and --created_before

mlin commented 5 years ago

Hi @tomkinsc -- sorry for the delayed reply, I was just looking this over again to respond to a support request. Is this an important update to roll out for the 'old' DNAx-native workflows vs. the new portable WDL workflows?

When I'd last worked on these DNAx-native workflows about a year ago, I'd hit some roadbumps with updating the viral-ngs docker image from 1.15.3 to 1.18.1 related to how the user/owner environment was being set up in the container. I'm sure that'd be surmountable with some hacking, if needed.

tomkinsc commented 5 years ago

This PR is actually orthogonal to both the old and new workflows; it's an update to a quick utility script to dump analysis metrics for DNAnexus jobs. It was originally added to this repo as something useful to those running viral-ngs on DNAnexus, but the script is generic in its applicability. It should probably have a better home, though I'm not sure where that should be. Lately I've been pointing folks to a GitHub gist, so this PR can probably be closed.