Clinical-Genomics / microSALT

Microbial Sequence Analysis and Loci-based Typing pipeline for use on NGS WGS data.
GNU General Public License v3.0
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Jobs cannot be tracked for microsalt #167

Open seallard opened 7 months ago

seallard commented 7 months ago

MicroSALT uses a timestamp in the output directory name. This means that the path to it cannot be passed to trailblazer when a pending analysis is created. In turn, this means that jobs cannot be tracked for microsalt cases in trailblazer.

We could apply some workaround for the microsalt pipeline, but it makes more sense to change the name of the output dir to follow the structure the rest of the pipelines do. Basically, it should just be the case name (instead of lims project id + random timestamp).