🐛
📝 Describe the Issue
In task_augur_utilities the conditional that determines if a date field is present in the merged TSV will always report as false. This is due to the conditional on L54 checking for merged.tsv while the actual name of the merged TSV is metadata-merged.tsv. This throws a head: merged.tsv: No such file or directory error and sets HAS_TIME to false.
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if (head -n1 merged.tsv | grep -q "date"); then |
🔁 How to Reproduce
Observable with normal run parameters of Augur WF.
💻 Version Information
PHB v4.2.0, Augur v33.2.0
🐛
📝 Describe the Issue
In
task_augur_utilitiesthe conditional that determines if a date field is present in the merged TSV will always report asfalse. This is due to the conditional on L54 checking formerged.tsvwhile the actual name of the merged TSV ismetadata-merged.tsv. This throws ahead: merged.tsv: No such file or directoryerror and setsHAS_TIMEto false.public_health_bioinformatics/tasks/utilities/data_handling/task_augur_utilities.wdl
Line 54 in 80b3ed5
🔁 How to Reproduce
Observable with normal run parameters of Augur WF.
💻 Version Information
PHB v4.2.0, Augur v33.2.0