ITADN

ValueError: some clades have growth data but are not defined {'XDV.1'}

#9Openplsteinberg 创建于 2024-09-05
bug
P
plsteinbergcommented
**Current Behavior** Given the error, I inspected the [pango-consensus-sequence-summary.json](https://raw.githubusercontent.com/corneliusroemer/pango-sequences/main/data/pango-consensus-sequences_summary.json) specified in the [config](https://github.com/jbloomlab/SARS2-spike-predictor-phenos/blob/main/config.yaml). I found only pango lineage names XDV and XDV.1.1 (XDV.1.2 … ) but not XDV.1. Similarly, XDV.1.1’s parent is specified as XDV. I am still trying to understand the parental-child clade mappings, but I was wondering if this relationship was misdefined? **Expected behavior** I expect no value error if the clade XDV.1 was defined as a parent in the summary.json. **How to reproduce** Steps to reproduce the current behavior: When I run the [notebook](https://github.com/jbloomlab/SARS2-spike-predictor-phenos/blob/main/SARS2-spike-predictor-phenos.ipynb) with this [command](https://github.com/jbloomlab/SARS2-spike-predictor-phenos/blob/main/README.md), I get the error `ValueError: some clades have growth data but are not defined {'XDV.1'}`. **Possible solution** XDV.1 seems to be a fairly new lineage, is there a an earlier summary.json than the one specified in the config we could use instead? Can XDV.1 be added into the json?
2 条评论